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Conserved domains on  [gi|1060099110|ref|NP_001317367|]
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ATP-dependent RNA helicase DDX25 isoform 2 [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13209184)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; such as Bacillus cereus ATP-dependent RNA helicase DbpA that is involved in the assembly of the 50S ribosomal subunit

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 1-194 1.23e-149

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd18048:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 229  Bit Score: 421.35  E-value: 1.23e-149
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd18048    36 MGFNRPSKIQENALPMMLADPPQNLIAQSQSGTGKTAAFVLAMLSRVDALKLYPQCLCLSPTFELALQTGKVVEEMGKFC 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIPRGTDITKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALPSECQ 160
Cdd:cd18048   116 VGIQVIYAIRGNRPGKGTDIEAQIVIGTPGTVLDWCFKLRLIDVTNISVFVLDEADVMINVQGHSDHSVRVKRSMPKECQ 195

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1060099110 161 MLLFSATFEDSVWHFAERIIPDPNVIKLRKEELT 194
Cdd:cd18048   196 MLLFSATFEDSVWAFAERIVPDPNIIKLKKEELT 229
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 198-334 3.45e-51

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 166.91  E-value: 3.45e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 198 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKV 277
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1060099110 278 LITTNVCARGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFGKKGLAFNMI 334
Cdd:cd18787    81 LVATDVAARGLDIPGVDHVINYDLP------RDAEDYVHRIGRTGRAGRKGTAITFV 131
 
Name Accession Description Interval E-value
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 1-194 1.23e-149

DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH) is a testis-specific protein essential for completion of spermatogenesis. DDX25 is also a novel negative regulator of IFN pathway and facilitates RNA virus infection. Diseases associated with DDX25 include hydrolethalus syndrome, an autosomal recessive lethal malformation syndrome characterized by multiple developmental defects of fetus.. DDX25 (also called gonadotropin-regulated testicular RNA helicase) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350806 [Multi-domain]  Cd Length: 229  Bit Score: 421.35  E-value: 1.23e-149
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd18048    36 MGFNRPSKIQENALPMMLADPPQNLIAQSQSGTGKTAAFVLAMLSRVDALKLYPQCLCLSPTFELALQTGKVVEEMGKFC 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIPRGTDITKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALPSECQ 160
Cdd:cd18048   116 VGIQVIYAIRGNRPGKGTDIEAQIVIGTPGTVLDWCFKLRLIDVTNISVFVLDEADVMINVQGHSDHSVRVKRSMPKECQ 195

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1060099110 161 MLLFSATFEDSVWHFAERIIPDPNVIKLRKEELT 194
Cdd:cd18048   196 MLLFSATFEDSVWAFAERIVPDPNIIKLKKEELT 229
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-368 2.69e-116

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 344.05  E-value: 2.69e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNA-LELFPQCLCLAPTYELALQTGRVVEQMGKF 79
Cdd:COG0513    20 LGYTTPTPIQAQAIPLILAG--RDVLGQAQTGTGKTAAFLLPLLQRLDPsRPRAPQALILAPTRELALQVAEELRKLAKY 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  80 C-VDVQVMYairGnriprGTDITKQ---------IIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSI 149
Cdd:COG0513    98 LgLRVATVY---G-----GVSIGRQiralkrgvdIVVATPGRLLDL-IERGALDLSGVETLVLDEADRMLD-MGFIEDIE 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 150 RIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEHRkDKYQALCNIYGSITIGQAII 229
Cdd:COG0513   168 RILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKR-DKLELLRRLLRDEDPERAIV 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 230 FCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPvkqgeeP 309
Cdd:COG0513   247 FCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLP------E 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1060099110 310 DYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMDEIEKID 368
Cdd:COG0513   321 DPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIEEEELPGFEPVEEKR 379
PTZ00424 PTZ00424
helicase 45; Provisional
 2-362 2.10e-93

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 284.80  E-value: 2.10e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFCv 81
Cdd:PTZ00424   47 GFEKPSAIQQRGIKPILDG--YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYL- 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  82 DVQVMYAIRGNRIPRGTDITKQ---IIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIdTQGFSDHSIRIQRALPSE 158
Cdd:PTZ00424  124 KVRCHACVGGTVVRDDINKLKAgvhMVVGTPGRVYDMIDK-RHLRVDDLKLFILDEADEML-SRGFKGQIYDVFKKLPPD 201

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 159 CQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAK 238
Cdd:PTZ00424  202 VQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYETLTITQAIIYCNTRRKVD 281

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 239 WLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQgeepdyETYLHRI 318
Cdd:PTZ00424  282 YLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASP------ENYIHRI 355

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 1060099110 319 GRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMD 362
Cdd:PTZ00424  356 GRSGRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEMPMEVAD 399
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 198-334 3.45e-51

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 166.91  E-value: 3.45e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 198 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKV 277
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1060099110 278 LITTNVCARGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFGKKGLAFNMI 334
Cdd:cd18787    81 LVATDVAARGLDIPGVDHVINYDLP------RDAEDYVHRIGRTGRAGRKGTAITFV 131
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 7-172 2.95e-36

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 129.28  E-value: 2.95e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   7 SKIQEMALPmmLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFcVDVQVM 86
Cdd:pfam00270   1 TPIQAEAIP--AILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKG-LGLKVA 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  87 YAIRGNRIP--RGTDITKQIIIGTPGTVLDWCFKLKLIDltKIRVFVLDEADVMIDtQGFSDHSIRIQRALPSECQMLLF 164
Cdd:pfam00270  78 SLLGGDSRKeqLEKLKGPDILVGTPGRLLDLLQERKLLK--NLKLLVLDEAHRLLD-MGFGPDLEEILRRLPKKRQILLL 154


                  ....*...
gi 1060099110 165 SATFEDSV 172
Cdd:pfam00270 155 SATLPRNL 162
DEXDc smart00487
DEAD-like helicases superfamily;
1-201 1.67e-33

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 123.37  E-value: 1.67e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110    1 MGFNRPSKIQEMALPMMLAHPpQNLIAQSQSGTGKTAAFVLAMLSRVNAlELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:smart00487   4 FGFEPLRPYQKEAIEALLSGL-RDVILAAPTGSGKTLAALLPALEALKR-GKGGRVLVLVPTRELAEQWAEELKKLGPSL 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   81 VDVQVMYAIRGNRIPRGTDITK---QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRALPS 157
Cdd:smart00487  82 GLKVVGLYGGDSKREQLRKLESgktDILVTTPGRLLD-LLENDKLSLSNVDLVILDEAHRLLD-GGFGDQLEKLLKLLPK 159

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1060099110  158 ECQMLLFSATFEDSVWHFAERIIPDPNVIKLrkEELTLNNIRQY 201
Cdd:smart00487 160 NVQLLLLSATPPEEIENLLELFLNDPVFIDV--GFTPLEPIEQF 201
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 210-325 4.34e-30

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 111.15  E-value: 4.34e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 210 DKYQALCNIYGSITIGQAIIFCQTRRNAKwLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGID 289
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1060099110 290 VKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFG 325
Cdd:pfam00271  80 LPDVDLVINYDLP------WNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
238-325 8.74e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 90.73  E-value: 8.74e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  238 KWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVkqgeepDYETYLHR 317
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPW------SPASYIQR 74


                   ....*...
gi 1060099110  318 IGRTGRFG 325
Cdd:smart00490  75 IGRAGRAG 82
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
176-327 1.27e-10

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 62.83  E-value: 1.27e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 176 AERIIPDPNVIKLRK--EELTLnnirqyyvlcEHRKDKY--QALCNIYGSITIGQAIIFCQTRRnakwlTVEMI-----Q 246
Cdd:COG1111   311 SKRLVSDPRFRKAMRlaEEADI----------EHPKLSKlrEILKEQLGTNPDSRIIVFTQYRD-----TAEMIveflsE 375

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 247 DGHQVSLLSGE--------LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDlPVkqgeePDYETYLHRI 318
Cdd:COG1111   376 PGIKAGRFVGQaskegdkgLTQKEQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYE-PV-----PSEIRSIQRK 449


                  ....*....
gi 1060099110 319 GRTGRFGKK 327
Cdd:COG1111   450 GRTGRKREG 458
PRK13766 PRK13766
Hef nuclease; Provisional
 176-323 2.31e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 43.32  E-value: 2.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 176 AERIIPDPNVIKL--RKEELTLnnirqyyvlcEHrkDKYQALCNIYGSITIGQ----AIIFCQTRRNAKWLTVEMIQDG- 248
Cdd:PRK13766  323 SKRLVEDPRFRKAvrKAKELDI----------EH--PKLEKLREIVKEQLGKNpdsrIIVFTQYRDTAEKIVDLLEKEGi 390

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 249 ------HQVSLLSGE-LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVnFDLPVkqgeePDYETYLHRIGRT 321
Cdd:PRK13766  391 kavrfvGQASKDGDKgMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVI-FYEPV-----PSEIRSIQRKGRT 464


                  ..
gi 1060099110 322 GR 323
Cdd:PRK13766  465 GR 466
 
Name Accession Description Interval E-value
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 1-194 1.23e-149

DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH) is a testis-specific protein essential for completion of spermatogenesis. DDX25 is also a novel negative regulator of IFN pathway and facilitates RNA virus infection. Diseases associated with DDX25 include hydrolethalus syndrome, an autosomal recessive lethal malformation syndrome characterized by multiple developmental defects of fetus.. DDX25 (also called gonadotropin-regulated testicular RNA helicase) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350806 [Multi-domain]  Cd Length: 229  Bit Score: 421.35  E-value: 1.23e-149
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd18048    36 MGFNRPSKIQENALPMMLADPPQNLIAQSQSGTGKTAAFVLAMLSRVDALKLYPQCLCLSPTFELALQTGKVVEEMGKFC 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIPRGTDITKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALPSECQ 160
Cdd:cd18048   116 VGIQVIYAIRGNRPGKGTDIEAQIVIGTPGTVLDWCFKLRLIDVTNISVFVLDEADVMINVQGHSDHSVRVKRSMPKECQ 195

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1060099110 161 MLLFSATFEDSVWHFAERIIPDPNVIKLRKEELT 194
Cdd:cd18048   196 MLLFSATFEDSVWAFAERIVPDPNIIKLKKEELT 229
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 1-187 1.09e-116

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 336.47  E-value: 1.09e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd17963    12 MGFNKPSKIQETALPLILSDPPENLIAQSQSGTGKTAAFVLAMLSRVDPTLKSPQALCLAPTRELARQIGEVVEKMGKFT 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 vDVQVMYAIRGNRIPRGTDITKQIIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALPSECQ 160
Cdd:cd17963    92 -GVKVALAVPGNDVPRGKKITAQIVIGTPGTVLDWLKK-RQLDLKKIKILVLDEADVMLDTQGHGDQSIRIKRMLPRNCQ 169

                         170       180
                  ....*....|....*....|....*..
gi 1060099110 161 MLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd17963   170 ILLFSATFPDSVRKFAEKIAPNANTIK 196
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-368 2.69e-116

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 344.05  E-value: 2.69e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNA-LELFPQCLCLAPTYELALQTGRVVEQMGKF 79
Cdd:COG0513    20 LGYTTPTPIQAQAIPLILAG--RDVLGQAQTGTGKTAAFLLPLLQRLDPsRPRAPQALILAPTRELALQVAEELRKLAKY 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  80 C-VDVQVMYairGnriprGTDITKQ---------IIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSI 149
Cdd:COG0513    98 LgLRVATVY---G-----GVSIGRQiralkrgvdIVVATPGRLLDL-IERGALDLSGVETLVLDEADRMLD-MGFIEDIE 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 150 RIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEHRkDKYQALCNIYGSITIGQAII 229
Cdd:COG0513   168 RILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKR-DKLELLRRLLRDEDPERAIV 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 230 FCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPvkqgeeP 309
Cdd:COG0513   247 FCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLP------E 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1060099110 310 DYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMDEIEKID 368
Cdd:COG0513   321 DPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIEEEELPGFEPVEEKR 379
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 1-187 4.83e-104

DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both mRNA (mRNA) export from the nucleus into the cytoplasm and in mRNA translation. DDX19 functions in the nucleus in resolving RNA:DNA hybrids (R-loops). Activation of a DNA damage response pathway dependent upon the ATR kinase, a major regulator of replication fork progression, stimulates translocation of DDX19 from the cytoplasm into the nucleus. Only nuclear Ddx19 is competent to resolve R-loops. DDX19 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350805 [Multi-domain]  Cd Length: 205  Bit Score: 305.11  E-value: 4.83e-104
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd18047    19 MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFY 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIPRGTDITKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALPSECQ 160
Cdd:cd18047    99 PELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQ 178

                         170       180
                  ....*....|....*....|....*..
gi 1060099110 161 MLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd18047   179 MLLFSATFEDSVWKFAQKVVPDPNVIK 205
PTZ00424 PTZ00424
helicase 45; Provisional
 2-362 2.10e-93

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 284.80  E-value: 2.10e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFCv 81
Cdd:PTZ00424   47 GFEKPSAIQQRGIKPILDG--YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYL- 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  82 DVQVMYAIRGNRIPRGTDITKQ---IIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIdTQGFSDHSIRIQRALPSE 158
Cdd:PTZ00424  124 KVRCHACVGGTVVRDDINKLKAgvhMVVGTPGRVYDMIDK-RHLRVDDLKLFILDEADEML-SRGFKGQIYDVFKKLPPD 201

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 159 CQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAK 238
Cdd:PTZ00424  202 VQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYETLTITQAIIYCNTRRKVD 281

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 239 WLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQgeepdyETYLHRI 318
Cdd:PTZ00424  282 YLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASP------ENYIHRI 355

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 1060099110 319 GRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMD 362
Cdd:PTZ00424  356 GRSGRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEMPMEVAD 399
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 1-354 8.19e-66

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 215.44  E-value: 8.19e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELAlqtgrvveqmgkfc 80
Cdd:PRK11776   22 LGYTEMTPIQAQSLPAILAG--KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELA-------------- 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 vDvQVMYAIRgnRIPRGTDITK---------------------QIIIGTPGTVLDWCFKLKLiDLTKIRVFVLDEADVMI 139
Cdd:PRK11776   86 -D-QVAKEIR--RLARFIPNIKvltlcggvpmgpqidslehgaHIIVGTPGRILDHLRKGTL-DLDALNTLVLDEADRML 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 140 DtQGFSDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEElTLNNIRQYYVLCEhRKDKYQALCNIY 219
Cdd:PRK11776  161 D-MGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTH-DLPAIEQRFYEVS-PDERLPALQRLL 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 220 GSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELtvEQ--RASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV 297
Cdd:PRK11776  238 LHHQPESCVVFCNTKKECQEVADALNAQGFSALALHGDL--EQrdRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVI 315

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1060099110 298 NFDLPvkqgeePDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIK 354
Cdd:PRK11776  316 NYELA------RDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 1-354 1.81e-62

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 205.95  E-value: 1.81e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRvnaLELFPQ-------CLCLAPTYELALQTGRVV 73
Cdd:PRK11192   19 KGYTRPTAIQAEAIPPALDG--RDVLGSAPTGTGKTAAFLLPALQH---LLDFPRrksgpprILILTPTRELAMQVADQA 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  74 EQMGKFC-VDVQVmyaIRGNrIPRGT--DI---TKQIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDH 147
Cdd:PRK11192   94 RELAKHThLDIAT---ITGG-VAYMNhaEVfseNQDIVVATPGRLLQY-IKEENFDCRAVETLILDEADRMLD-MGFAQD 167

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 148 SIRIQralpSEC----QMLLFSATFE-DSVWHFAERIIPDPNVIKL---RKEEltlNNIRQYYVLCEHRKDKYQALCNIY 219
Cdd:PRK11192  168 IETIA----AETrwrkQTLLFSATLEgDAVQDFAERLLNDPVEVEAepsRRER---KKIHQWYYRADDLEHKTALLCHLL 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 220 GSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNF 299
Cdd:PRK11192  241 KQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINF 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1060099110 300 DLPVKQgeepdyETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIK 354
Cdd:PRK11192  321 DMPRSA------DTYLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIEEPLK 369
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 1-359 1.29e-58

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 200.46  E-value: 1.29e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:PRK11634   24 LGYEKPSPIQAECIPHLLNG--RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHM 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIP---RGTDITKQIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIdTQGFSDHSIRIQRALPS 157
Cdd:PRK11634  102 RGVNVVALYGGQRYDvqlRALRQGPQIVVGTPGRLLDH-LKRGTLDLSKLSGLVLDEADEML-RMGFIEDVETIMAQIPE 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 158 ECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQ-YYVLCEHRKDkyQALCNIYGSITIGQAIIFCQTRrN 236
Cdd:PRK11634  180 GHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQsYWTVWGMRKN--EALVRFLEAEDFDAAIIFVRTK-N 256

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 237 AKWLTVEMIQ-DGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVkqgeepDYETYL 315
Cdd:PRK11634  257 ATLEVAEALErNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPM------DSESYV 330

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 1060099110 316 HRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQL---NAE 359
Cdd:PRK11634  331 HRIGRTGRAGRAGRALLFVENRERRLLRNIERTMKLTIPEVelpNAE 377
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 1-354 1.67e-55

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 188.97  E-value: 1.67e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNAL----ELF---PQCLCLAPTYELALQTGRVV 73
Cdd:PRK01297  105 LGFPYCTPIQAQVLGYTLAG--HDAIGRAQTGTGKTAAFLISIINQLLQTpppkERYmgePRALIIAPTRELVVQIAKDA 182

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  74 EQMGKFcVDVQVMYAIRGnriprgTDITKQ----------IIIGTPGTVLDWCfKLKLIDLTKIRVFVLDEADVMIDtQG 143
Cdd:PRK01297  183 AALTKY-TGLNVMTFVGG------MDFDKQlkqlearfcdILVATPGRLLDFN-QRGEVHLDMVEVMVLDEADRMLD-MG 253

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 144 FSDHSIRIQRALP--SECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYyVLCEHRKDKYQALCNIYGS 221
Cdd:PRK01297  254 FIPQVRQIIRQTPrkEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQH-VYAVAGSDKYKLLYNLVTQ 332

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 222 ITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDL 301
Cdd:PRK01297  333 NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTL 412

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1060099110 302 PvkqgEEPDyeTYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIK 354
Cdd:PRK01297  413 P----EDPD--DYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRKIS 459
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 2-346 3.65e-53

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 182.32  E-value: 3.65e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQ------CLCLAPTYELALQTGRVVEQ 75
Cdd:PRK10590   20 GYREPTPIQQQAIPAVLEG--RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKgrrpvrALILTPTRELAAQIGENVRD 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  76 MGKF------------CVDVQVMyAIRGnriprGTDItkqiIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIDtQG 143
Cdd:PRK10590   98 YSKYlnirslvvfggvSINPQMM-KLRG-----GVDV----LVATPGRLLDLEHQ-NAVKLDQVEILVLDEADRMLD-MG 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 144 FSdHSIR-IQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEhRKDKYQALCNIYGSI 222
Cdd:PRK10590  166 FI-HDIRrVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVD-KKRKRELLSQMIGKG 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 223 TIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 302
Cdd:PRK10590  244 NWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELP 323

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 1060099110 303 vkqgEEPdyETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQ 346
Cdd:PRK10590  324 ----NVP--EDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIE 361
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 1-187 1.66e-52

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 172.63  E-value: 1.66e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALEL----FPQCLCLAPTYELALQTGRVVEQM 76
Cdd:cd00268     8 LGFEKPTPIQAQAIPLILSG--RDVIGQAQTGSGKTLAFLLPILEKLLPEPKkkgrGPQALVLAPTRELAMQIAEVARKL 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  77 GKFCvDVQVMyAIRGnriprGTDITKQ---------IIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDH 147
Cdd:cd00268    86 GKGT-GLKVA-AIYG-----GAPIKKQiealkkgpdIVVGTPGRLLD-LIERGKLDLSNVKYLVLDEADRMLD-MGFEED 156

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1060099110 148 SIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd00268   157 VEKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 198-334 3.45e-51

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 166.91  E-value: 3.45e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 198 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKV 277
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1060099110 278 LITTNVCARGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFGKKGLAFNMI 334
Cdd:cd18787    81 LVATDVAARGLDIPGVDHVINYDLP------RDAEDYVHRIGRTGRAGRKGTAITFV 131
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 2-330 2.06e-48

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 172.06  E-value: 2.06e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLahPPQNLIAQSQSGTGKTAAFVLAMLSR-------VNALELFPQCLCLAPTYELALQtgrVVE 74
Cdd:PRK04537   28 GFTRCTPIQALTLPVAL--PGGDVAGQAQTGTGKTLAFLVAVMNRllsrpalADRKPEDPRALILAPTRELAIQ---IHK 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  75 QMGKFCVDVQVMYAIrgnrIPRGTDITKQ---------IIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQGFS 145
Cdd:PRK04537  103 DAVKFGADLGLRFAL----VYGGVDYDKQrellqqgvdVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIK 178

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 146 DhsIR-IQRALPSEC--QMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQ--YYVLCEhrkDKYQALCNIYG 220
Cdd:PRK04537  179 D--IRfLLRRMPERGtrQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQriYFPADE---EKQTLLLGLLS 253

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 221 SITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFD 300
Cdd:PRK04537  254 RSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYD 333

                         330       340       350
                  ....*....|....*....|....*....|
gi 1060099110 301 LPVkqgeepDYETYLHRIGRTGRFGKKGLA 330
Cdd:PRK04537  334 LPF------DAEDYVHRIGRTARLGEEGDA 357
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 1-330 4.05e-47

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 165.53  E-value: 4.05e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLA----MLS-------RVNAlelfPQCLCLAPTYELALQT 69
Cdd:PRK04837   26 KGFHNCTPIQALALPLTLAG--RDVAGQAQTGTGKTMAFLTAtfhyLLShpapedrKVNQ----PRALIMAPTRELAVQI 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  70 GRVVEQMGKFC-VDVQVMYAIRG-----NRIPRGTDItkqiIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDTqG 143
Cdd:PRK04837  100 HADAEPLAQATgLKLGLAYGGDGydkqlKVLESGVDI----LIGTTGRLIDY-AKQNHINLGAIQVVVLDEADRMFDL-G 173

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 144 FSDhSIR-IQRALPSECQML--LFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQ--YYVLCEhrkDKYQALCNI 218
Cdd:PRK04837  174 FIK-DIRwLFRRMPPANQRLnmLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEelFYPSNE---EKMRLLQTL 249

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 219 YGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVN 298
Cdd:PRK04837  250 IEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFN 329

                         330       340       350
                  ....*....|....*....|....*....|..
gi 1060099110 299 FDLPvkqgeePDYETYLHRIGRTGRFGKKGLA 330
Cdd:PRK04837  330 YDLP------DDCEDYVHRIGRTGRAGASGHS 355
PTZ00110 PTZ00110
helicase; Provisional
 2-338 1.32e-45

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 163.79  E-value: 1.32e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-----PQCLCLAPTYELALQtgrVVEQM 76
Cdd:PTZ00110  149 GFTEPTPIQVQGWPIALSG--RDMIGIAETGSGKTLAFLLPAIVHINAQPLLrygdgPIVLVLAPTRELAEQ---IREQC 223

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  77 GKFCVDVQVMYAIRGNRIPRGTDITK-----QIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRI 151
Cdd:PTZ00110  224 NKFGASSKIRNTVAYGGVPKRGQIYAlrrgvEILIACPGRLIDF-LESNVTNLRRVTYLVLDEADRMLD-MGFEPQIRKI 301

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 152 QRALPSECQMLLFSATFEDSVWHFAeRIIPDPNVIKLRKEELTL---NNIRQY-YVLCEHrkDKYQALCNIYGSITI--G 225
Cdd:PTZ00110  302 VSQIRPDRQTLMWSATWPKEVQSLA-RDLCKEEPVHVNVGSLDLtacHNIKQEvFVVEEH--EKRGKLKMLLQRIMRdgD 378

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 226 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKq 305
Cdd:PTZ00110  379 KILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQ- 457

                         330       340       350
                  ....*....|....*....|....*....|...
gi 1060099110 306 geepdYETYLHRIGRTGRFGKKGLAFNMIEVDE 338
Cdd:PTZ00110  458 -----IEDYVHRIGRTGRAGAKGASYTFLTPDK 485
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 1-186 5.95e-42

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 145.52  E-value: 5.95e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd17940    17 KGFEKPSPIQEESIPIALSG--RDILARAKNGTGKTGAYLIPILEKIDPKKDVIQALILVPTRELALQTSQVCKELGKHM 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 vDVQVMYAIRG-------NRIPRGTditkQIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQR 153
Cdd:cd17940    95 -GVKVMVTTGGtslrddiMRLYQTV----HVLVGTPGRILD-LAKKGVADLSHCKTLVLDEADKLLS-QDFQPIIEKILN 167

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1060099110 154 ALPSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17940   168 FLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 2-186 1.20e-39

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 139.38  E-value: 1.20e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMA-LPMMLAHppqNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFc 80
Cdd:cd17939    16 GFEKPSAIQQRAiVPIIKGR---DVIAQAQSGTGKTATFSIGALQRIDTTVRETQALVLAPTRELAQQIQKVVKALGDY- 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIprGTDITK-----QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRAL 155
Cdd:cd17939    92 MGVKVHACIGGTSV--REDRRKlqygpHIVVGTPGRVFD-MLQRRSLRTDKIKMFVLDEADEMLS-RGFKDQIYDIFQFL 167

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1060099110 156 PSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17939   168 PPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 2-330 2.50e-37

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 140.69  E-value: 2.50e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-------PQCLCLAPTYELALQTGRVVE 74
Cdd:PLN00206  140 GYEFPTPIQMQAIPAALSG--RSLLVSADTGSGKTASFLVPIISRCCTIRSGhpseqrnPLAMVLTPTRELCVQVEDQAK 217

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  75 QMGKfCVDVQVMYAIRGNRIPRGTDITKQ---IIIGTPGTVLDWCFKLKlIDLTKIRVFVLDEADVMIDtQGFSDHSIRI 151
Cdd:PLN00206  218 VLGK-GLPFKTALVVGGDAMPQQLYRIQQgveLIVGTPGRLIDLLSKHD-IELDNVSVLVLDEVDCMLE-RGFRDQVMQI 294

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 152 QRALpSECQMLLFSATFEDSVWHFAERIIPDPNVIKLRKEELTLNNIRQYYVLCEhRKDKYQALCNIYGSITIGQ--AII 229
Cdd:PLN00206  295 FQAL-SQPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVE-TKQKKQKLFDILKSKQHFKppAVV 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 230 FCQTRRNAKWLTVEM-IQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEe 308
Cdd:PLN00206  373 FVSSRLGADLLANAItVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKE- 451

                         330       340
                  ....*....|....*....|..
gi 1060099110 309 pdyetYLHRIGRTGRFGKKGLA 330
Cdd:PLN00206  452 -----YIHQIGRASRMGEKGTA 468
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 7-172 2.95e-36

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 129.28  E-value: 2.95e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   7 SKIQEMALPmmLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFcVDVQVM 86
Cdd:pfam00270   1 TPIQAEAIP--AILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKG-LGLKVA 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  87 YAIRGNRIP--RGTDITKQIIIGTPGTVLDWCFKLKLIDltKIRVFVLDEADVMIDtQGFSDHSIRIQRALPSECQMLLF 164
Cdd:pfam00270  78 SLLGGDSRKeqLEKLKGPDILVGTPGRLLDLLQERKLLK--NLKLLVLDEAHRLLD-MGFGPDLEEILRRLPKKRQILLL 154


                  ....*...
gi 1060099110 165 SATFEDSV 172
Cdd:pfam00270 155 SATLPRNL 162
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 1-187 1.17e-34

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 126.22  E-value: 1.17e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd17943     8 AGFQRPSPIQLAAIPLGLAG--HDLIVQAKSGTGKTLVFVVIALESLDLERRHPQVLILAPTREIAVQIHDVFKKIGKKL 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGnrIPRGTDITK----QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRALP 156
Cdd:cd17943    86 EGLKCEVFIGG--TPVKEDKKKlkgcHIAVGTPGRIKQ-LIELGALNVSHVRLFVLDEADKLME-GSFQKDVNWIFSSLP 161

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1060099110 157 SECQMLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd17943   162 KNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEXDc smart00487
DEAD-like helicases superfamily;
1-201 1.67e-33

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 123.37  E-value: 1.67e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110    1 MGFNRPSKIQEMALPMMLAHPpQNLIAQSQSGTGKTAAFVLAMLSRVNAlELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:smart00487   4 FGFEPLRPYQKEAIEALLSGL-RDVILAAPTGSGKTLAALLPALEALKR-GKGGRVLVLVPTRELAEQWAEELKKLGPSL 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   81 VDVQVMYAIRGNRIPRGTDITK---QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRALPS 157
Cdd:smart00487  82 GLKVVGLYGGDSKREQLRKLESgktDILVTTPGRLLD-LLENDKLSLSNVDLVILDEAHRLLD-GGFGDQLEKLLKLLPK 159

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1060099110  158 ECQMLLFSATFEDSVWHFAERIIPDPNVIKLrkEELTLNNIRQY 201
Cdd:smart00487 160 NVQLLLLSATPPEEIENLLELFLNDPVFIDV--GFTPLEPIEQF 201
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 2-183 3.23e-33

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 122.55  E-value: 3.23e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMA-LPMMLAHppqNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd18046    18 GFEKPSAIQQRAiMPCIKGY---DVIAQAQSGTGKTATFSISILQQIDTSLKATQALVLAPTRELAQQIQKVVMALGDYM 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 vDVQVMYAIRGNRI---PRGTDITKQIIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIdTQGFSDHSIRIQRALPS 157
Cdd:cd18046    95 -GIKCHACIGGTSVrddAQKLQAGPHIVVGTPGRVFDMINR-RYLRTDYIKMFVLDEADEML-SRGFKDQIYDIFQKLPP 171

                         170       180
                  ....*....|....*....|....*.
gi 1060099110 158 ECQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd18046   172 DTQVVLLSATMPNDVLEVTTKFMRDP 197
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 1-187 9.48e-32

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 118.95  E-value: 9.48e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAhpPQNLIAQSQSGTGKTAAFVLAMLSRVNALElfPQ----CLCLAPTYELALQTGRVVEQM 76
Cdd:cd17959    19 KGYKVPTPIQRKTIPLILD--GRDVVAMARTGSGKTAAFLIPMIEKLKAHS--PTvgarALILSPTRELALQTLKVTKEL 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  77 GKFcVDVQVMYAIRGNRIPRG-TDITKQ--IIIGTPGTVLDWCFKLKLiDLTKIRVFVLDEADVMIDtQGFSDHSIRIQR 153
Cdd:cd17959    95 GKF-TDLRTALLVGGDSLEEQfEALASNpdIIIATPGRLLHLLVEMNL-KLSSVEYVVFDEADRLFE-MGFAEQLHEILS 171

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1060099110 154 ALPSECQMLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd17959   172 RLPENRQTLLFSATLPKLLVEFAKAGLNEPVLIR 205
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 2-186 7.31e-31

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 116.41  E-value: 7.31e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFcV 81
Cdd:cd18045    18 GFEKPSAIQQRAIKPIIKG--RDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILSPTRELAVQIQKVLLALGDY-M 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  82 DVQVMYAIRGNRIprGTDITK-----QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIdTQGFSDHSIRIQRALP 156
Cdd:cd18045    95 NVQCHACIGGTSV--GDDIRKldygqHIVSGTPGRVFD-MIRRRSLRTRHIKMLVLDEADEML-NKGFKEQIYDVYRYLP 170

                         170       180       190
                  ....*....|....*....|....*....|
gi 1060099110 157 SECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd18045   171 PATQVVLVSATLPQDILEMTNKFMTDPIRI 200
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 210-325 4.34e-30

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 111.15  E-value: 4.34e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 210 DKYQALCNIYGSITIGQAIIFCQTRRNAKwLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGID 289
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1060099110 290 VKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFG 325
Cdd:pfam00271  80 LPDVDLVINYDLP------WNPASYIQRIGRAGRAG 109
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 1-172 2.52e-29

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 111.96  E-value: 2.52e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVnaleLF-------PQCLCLAPTYELALQTGRVV 73
Cdd:cd17947     8 LGFTKPTPIQAAAIPLALLG--KDICASAVTGSGKTAAFLLPILERL----LYrpkkkaaTRVLVLVPTRELAMQCFSVL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  74 EQMGKFCvDVQVMYAIrgnripRGTDITKQ---------IIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTqGF 144
Cdd:cd17947    82 QQLAQFT-DITFALAV------GGLSLKAQeaalrarpdIVIATPGRLIDHLRNSPSFDLDSIEILVLDEADRMLEE-GF 153

                         170       180
                  ....*....|....*....|....*...
gi 1060099110 145 SDHSIRIQRALPSECQMLLFSATFEDSV 172
Cdd:cd17947   154 ADELKEILRLCPRTRQTMLFSATMTDEV 181
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 1-172 1.17e-27

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 107.79  E-value: 1.17e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLsrvNALELFPQ---CLCLAPTYELALQTGRVVEQMG 77
Cdd:cd17954    18 LGWKKPTKIQEEAIPVALQG--RDIIGLAETGSGKTAAFALPIL---QALLENPQrffALVLAPTRELAQQISEQFEALG 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  78 KfcvDVQVMYAIrgnrIPRGTDITKQ---------IIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTQgFSDHS 148
Cdd:cd17954    93 S---SIGLKSAV----LVGGMDMMAQaialakkphVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMD-FEPEI 164

                         170       180
                  ....*....|....*....|....
gi 1060099110 149 IRIQRALPSECQMLLFSATFEDSV 172
Cdd:cd17954   165 DKILKVIPRERTTYLFSATMTTKV 188
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 1-176 1.65e-27

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 107.96  E-value: 1.65e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRV--NALEL--------FPQCLCLAPTYELALQTG 70
Cdd:cd17967    18 AGYTKPTPVQKYAIPIILAG--RDLMACAQTGSGKTAAFLLPIISKLleDGPPSvgrgrrkaYPSALILAPTRELAIQIY 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  71 RVVEqmgKFC----VDVQVMY---AIRG--NRIPRGTDItkqiIIGTPGTVLDWCFKLKlIDLTKIRVFVLDEADVMIDt 141
Cdd:cd17967    96 EEAR---KFSyrsgVRSVVVYggaDVVHqqLQLLRGCDI----LVATPGRLVDFIERGR-ISLSSIKFLVLDEADRMLD- 166

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1060099110 142 QGFSDHSIRI--QRALPS--ECQMLLFSATFEDSVWHFA 176
Cdd:cd17967   167 MGFEPQIRKIveHPDMPPkgERQTLMFSATFPREIQRLA 205
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 2-176 3.42e-27

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 108.13  E-value: 3.42e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAML----------SRVNALELfPQCLCLAPTYELALQtgr 71
Cdd:cd18052    62 GYEKPTPVQKYAIPIILAG--RDLMACAQTGSGKTAAFLLPVLtgmmkegltaSSFSEVQE-PQALIVAPTRELANQ--- 135

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  72 VVEQMGKFCVD-----------VQVMYAIRgnRIPRGTDitkqIIIGTPGTVLDWCFKLKlIDLTKIRVFVLDEADVMID 140
Cdd:cd18052   136 IFLEARKFSYGtcirpvvvyggVSVGHQIR--QIEKGCH----ILVATPGRLLDFIGRGK-ISLSKLKYLILDEADRMLD 208

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1060099110 141 tQGFSD--HSIRIQRALPS--ECQMLLFSATFEDSVWHFA 176
Cdd:cd18052   209 -MGFGPeiRKLVSEPGMPSkeDRQTLMFSATFPEEIQRLA 247
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 1-188 5.17e-27

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 106.13  E-value: 5.17e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRV------NALELFPQCLCLAPTYELALQTGRVVE 74
Cdd:cd17961    12 LGWEKPTLIQSKAIPLALEG--KDILARARTGSGKTAAYALPIIQKIlkakaeSGEEQGTRALILVPTRELAQQVSKVLE 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  75 QMGKFC-VDVQVMyAIRGNriprgTDITKQ---------IIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIdTQGF 144
Cdd:cd17961    90 QLTAYCrKDVRVV-NLSAS-----SSDSVQrallaekpdIVVSTPARLLSHLESGSLLLLSTLKYLVIDEADLVL-SYGY 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1060099110 145 SDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVIKL 188
Cdd:cd17961   163 EEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPAILKL 206
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 2-183 1.72e-26

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 104.73  E-value: 1.72e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPM-MLAHppqNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd17950    21 GFEHPSEVQHECIPQaILGM---DVLCQAKSGMGKTAVFVLSTLQQLEPVDGQVSVLVICHTRELAFQISNEYERFSKYM 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIRGNRIPRGTDITK----QIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDTQGFSDHSIRIQRALP 156
Cdd:cd17950    98 PNVKTAVFFGGVPIKKDIEVLKnkcpHIVVGTPGRILA-LVREKKLKLSHVKHFVLDECDKMLEQLDMRRDVQEIFRATP 176

                         170       180
                  ....*....|....*....|....*..
gi 1060099110 157 SECQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17950   177 HDKQVMMFSATLSKEIRPVCKKFMQDP 203
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 1-186 1.00e-25

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 102.66  E-value: 1.00e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAhPPQNLIAQSQSGTGKTAAFVLAMLSRVnaLELFPQ-------CLCLAPTYELALQTGRVV 73
Cdd:cd17964    12 MGFETMTPVQQKTLKPILS-TGDDVLARAKTGTGKTLAFLLPAIQSL--LNTKPAgrrsgvsALIISPTRELALQIAAEA 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  74 EQMGKFCVDVQVMYAIRGNRIPRGT-DITKQ---IIIGTPGTVLDWCFK-LKLIDLTKIRVFVLDEADVMIDtQGFSDHS 148
Cdd:cd17964    89 KKLLQGLRKLRVQSAVGGTSRRAELnRLRRGrpdILVATPGRLIDHLENpGVAKAFTDLDYLVLDEADRLLD-MGFRPDL 167

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1060099110 149 IRIQRALPSEC----QMLLFSATFEDSVWHFAERII-PDPNVI 186
Cdd:cd17964   168 EQILRHLPEKNadprQTLLFSATVPDEVQQIARLTLkKDYKFI 210
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 2-183 1.14e-25

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 102.24  E-value: 1.14e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVEQMGKFCV 81
Cdd:cd17962     9 GYEVPTPIQMQMIPVGLLG--RDILASADTGSGKTAAFLLPVIIRCLTEHRNPSALILTPTRELAVQIEDQAKELMKGLP 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  82 DVQVMYAIRGNRIPRGTDITKQ---IIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRALPSE 158
Cdd:cd17962    87 PMKTALLVGGLPLPPQLYRLQQgvkVIIATPGRLLD-ILKQSSVELDNIKIVVVDEADTMLK-MGFQQQVLDILENISHD 164

                         170       180
                  ....*....|....*....|....*
gi 1060099110 159 CQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17962   165 HQTILVSATIPRGIEQLAGQLLQNP 189
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 1-183 1.74e-25

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 101.92  E-value: 1.74e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQtgrVVEQMGKFC 80
Cdd:cd17955    17 LGIKEPTPIQKLCIPEILAG--RDVIGGAKTGSGKTAAFALPILQRLSEDPYGIFALVLTPTRELAYQ---IAEQFRALG 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VDVQVMYAIrgnrIPRGTDITKQ---------IIIGTPGTVLD---------WCFKlklidltKIRVFVLDEADVMIDTQ 142
Cdd:cd17955    92 APLGLRCCV----IVGGMDMVKQalelskrphIVVATPGRLADhlrssddttKVLS-------RVKFLVLDEADRLLTGS 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1060099110 143 gFSDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17955   161 -FEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKP 200
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 1-187 8.75e-25

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 100.35  E-value: 8.75e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF------PQCLCLAPTYELALQTGRVVE 74
Cdd:cd17949     9 MGIEKPTAIQKLAIPVLLQG--RDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRvdrsdgTLALVLVPTRELALQIYEVLE 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  75 QMGKFCVDVQVMYAIRGN-------RIPRGtdITkqIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDtQGFSDH 147
Cdd:cd17949    87 KLLKPFHWIVPGYLIGGEkrksekaRLRKG--VN--ILIATPGRLLDHLKNTQSFDVSNLRWLVLDEADRLLD-MGFEKD 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1060099110 148 SIRIQRAL-------------PSECQMLLFSATFEDSVWHFAERIIPDPNVIK 187
Cdd:cd17949   162 ITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 1-183 1.12e-24

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 99.70  E-value: 1.12e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVnalelfpQCLCLAPTYELALQTGRVVEQMGKFC 80
Cdd:cd17938    17 LDWLLPTDIQAEAIPLILGG--GDVLMAAETGSGKTGAFCLPVLQIV-------VALILEPSRELAEQTYNCIENFKKYL 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  81 VD--VQVMYAIRG-------NRIPRGTDItkqiIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRI 151
Cdd:cd17938    88 DNpkLRVALLIGGvkareqlKRLESGVDI----VVGTPGRLEDL-IKTGKLDLSSVRFFVLDEADRLLS-QGNLETINRI 161

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1060099110 152 QRALPS------ECQMLLFSATFE-DSVWHFAERIIPDP 183
Cdd:cd17938   162 YNRIPKitsdgkRLQVIVCSATLHsFEVKKLADKIMHFP 200
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 1-172 1.81e-23

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 96.49  E-value: 1.81e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQ-----CLCLAPTYELALQTGRVVEQ 75
Cdd:cd17960     8 LGFTSMTPVQAATIPLFLSN--KDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKkgqvgALIISPTRELATQIYEVLQS 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  76 MGKFCVD-VQVMYAIRGNRIPRGTDITK----QIIIGTPGTVLD-WCFKLKLIDLTKIRVFVLDEADVMIDTqGFSDHSI 149
Cdd:cd17960    86 FLEHHLPkLKCQLLIGGTNVEEDVKKFKrngpNILVGTPGRLEElLSRKADKVKVKSLEVLVLDEADRLLDL-GFEADLN 164

                         170       180
                  ....*....|....*....|...
gi 1060099110 150 RIQRALPSECQMLLFSATFEDSV 172
Cdd:cd17960   165 RILSKLPKQRRTGLFSATQTDAV 187
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 2-183 4.60e-23

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 95.35  E-value: 4.60e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHPpqNLIAQSQSGTGKTAAFVLAMLSRVNAL--ELFPQCLCLAPTYELALQTGRVVEQMGKF 79
Cdd:cd17957     9 GYREPTPIQMQAIPILLHGR--DLLACAPTGSGKTLAFLIPILQKLGKPrkKKGLRALILAPTRELASQIYRELLKLSKG 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  80 CvDVQVMYAIRGNR-IPRGTDITKQ---IIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDTqGFSDHSIRIQRAL 155
Cdd:cd17957    87 T-GLRIVLLSKSLEaKAKDGPKSITkydILVSTPLRLVF-LLKQGPIDLSSVEYLVLDEADKLFEP-GFREQTDEILAAC 163

                         170       180
                  ....*....|....*....|....*....
gi 1060099110 156 PSEC-QMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17957   164 TNPNlQRSLFSATIPSEVEELARSVMKDP 192
HELICc smart00490
helicase superfamily c-terminal domain;
238-325 8.74e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 90.73  E-value: 8.74e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  238 KWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVkqgeepDYETYLHR 317
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPW------SPASYIQR 74


                   ....*...
gi 1060099110  318 IGRTGRFG 325
Cdd:smart00490  75 IGRAGRAG 82
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 1-179 2.97e-22

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 93.54  E-value: 2.97e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAhpPQNLIAQSQSGTGKTAAFVLAMLSRVNAL--------ELFPQCLCLAPTYELALQtgrV 72
Cdd:cd17945     8 LGYKEPTPIQRQAIPIGLQ--NRDIIGIAETGSGKTAAFLIPLLVYISRLppldeetkDDGPYALILAPTRELAQQ---I 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  73 VEQMGKFCV--DVQVMYAIRG-------NRIPRGTDitkqIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDtQG 143
Cdd:cd17945    83 EEETQKFAKplGIRVVSIVGGhsieeqaFSLRNGCE----ILIATPGRLLD-CLERRLLVLNQCTYVVLDEADRMID-MG 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1060099110 144 FSDHSIRIQRALPSEC--------------------QMLLFSATFEDSVwhfaERI 179
Cdd:cd17945   157 FEPQVTKILDAMPVSNkkpdteeaeklaasgkhryrQTMMFTATMPPAV----EKI 208
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 3-176 4.54e-22

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 93.95  E-value: 4.54e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   3 FNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRV----------------NALELFPQCLCLAPTYELA 66
Cdd:cd18051    41 YTKPTPVQKHAIPIIKSK--RDLMACAQTGSGKTAAFLLPILSQIyeqgpgeslpsesgyyGRRKQYPLALVLAPTRELA 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  67 LQtgrVVEQMGKF----CVDVQVMYAirgnriprGTDITKQI---------IIGTPGTVLDWCFKLKlIDLTKIRVFVLD 133
Cdd:cd18051   119 SQ---IYDEARKFayrsRVRPCVVYG--------GADIGQQMrdlergchlLVATPGRLVDMLERGK-IGLDYCKYLVLD 186

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1060099110 134 EADVMIDtQGFSDHSIRI--QRALP--SECQMLLFSATFEDSVWHFA 176
Cdd:cd18051   187 EADRMLD-MGFEPQIRRIveQDTMPptGERQTLMFSATFPKEIQMLA 232
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 1-183 5.26e-22

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 92.43  E-value: 5.26e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-----PQCLCLAPTYELALQtgrVVEQ 75
Cdd:cd17966     8 QGFTEPTAIQAQGWPMALSG--RDMVGIAQTGSGKTLAFLLPAIVHINAQPPLergdgPIVLVLAPTRELAQQ---IQQE 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  76 MGKFCVDVQV-MYAIRGNrIPRGTDITK-----QIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDH-- 147
Cdd:cd17966    83 ANKFGGSSRLrNTCVYGG-APKGPQIRDlrrgvEICIATPGRLIDF-LDQGKTNLRRVTYLVLDEADRMLD-MGFEPQir 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1060099110 148 ----SIRIQRalpsecQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17966   160 kivdQIRPDR------QTLMWSATWPKEVRRLAEDFLKDY 193
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 2-186 3.13e-21

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 90.04  E-value: 3.13e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQ----CLCLAPTYELALQTGRVVEQMG 77
Cdd:cd17941     9 GFIKMTEIQRDSIPHALQG--RDILGAAKTGSGKTLAFLVPLLEKLYRERWTPEdglgALIISPTRELAMQIFEVLRKVG 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  78 KFcvdvQVMYA---IRGN-------RIPRgtditKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVMIDTqGFSDH 147
Cdd:cd17941    87 KY----HSFSAgliIGGKdvkeekeRINR-----MNILVCTPGRLLQHMDETPGFDTSNLQMLVLDEADRILDM-GFKET 156

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1060099110 148 SIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17941   157 LDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYI 195
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 2-186 2.65e-20

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 87.47  E-value: 2.65e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRV-NALELFPQ----CLCLAPTYELALQTGRVVEQM 76
Cdd:cd17952     9 EYEQPTPIQAQALPVALSG--RDMIGIAKTGSGKTAAFIWPMLVHImDQRELEKGegpiAVIVAPTRELAQQIYLEAKKF 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  77 GK-FCVDVQVMYAIRG-----NRIPRGTDitkqIIIGTPGTVLDwCFKLKLIDLTKIRVFVLDEADVMIDTqGFSDHSIR 150
Cdd:cd17952    87 GKaYNLRVVAVYGGGSkweqaKALQEGAE----IVVATPGRLID-MVKKKATNLQRVTYLVLDEADRMFDM-GFEYQVRS 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1060099110 151 IQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17952   161 IVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRV 196
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 1-183 3.94e-19

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 85.12  E-value: 3.94e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-----PQCLCLAPTYELALQtgrVVEQ 75
Cdd:cd17953    30 LGYEKPTPIQAQALPAIMSG--RDVIGIAKTGSGKTLAFLLPMFRHIKDQRPVkpgegPIGLIMAPTRELALQ---IYVE 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  76 MGKFC--VDVQVMYAIRGNRIP-------RGTDItkqiIIGTPGTVLDWcfkL-----KLIDLTKIRVFVLDEADVMIDT 141
Cdd:cd17953   105 CKKFSkaLGLRVVCVYGGSGISeqiaelkRGAEI----VVCTPGRMIDI---LtanngRVTNLRRVTYVVLDEADRMFDM 177

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1060099110 142 qGFSDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17953   178 -GFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKP 218
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 1-183 1.88e-18

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 82.51  E-value: 1.88e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVL-AMLSRVNALELF-----PQCLCLAPTYELALQTGRVVE 74
Cdd:cd17958     8 QGFEKPSPIQSQAWPIILQG--IDLIGVAQTGTGKTLAYLLpGFIHLDLQPIPReqrngPGVLVLTPTRELALQIEAECS 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  75 QMGKFCVDVQVMYAiRGNRIPRGTDITK--QIIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQ 152
Cdd:cd17958    86 KYSYKGLKSVCVYG-GGNRNEQIEDLSKgvDIIIATPGRLNDLQMN-NVINLKSITYLVLDEADRMLD-MGFEPQIRKIL 162

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1060099110 153 RALPSECQMLLFSATFEDSVWHFAERIIPDP 183
Cdd:cd17958   163 LDIRPDRQTIMTSATWPDGVRRLAQSYLKDP 193
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 3-182 5.97e-18

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 81.98  E-value: 5.97e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   3 FNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-----PQCLCLAPTYELALQTGRVVEQMG 77
Cdd:cd18049    44 FTEPTAIQAQGWPVALSG--LDMVGVAQTGSGKTLSYLLPAIVHINHQPFLergdgPICLVLAPTRELAQQVQQVAAEYG 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  78 KFC-VDVQVMY--AIRGNRIpRGTDITKQIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQRA 154
Cdd:cd18049   122 RACrLKSTCIYggAPKGPQI-RDLERGVEICIATPGRLIDF-LEAGKTNLRRCTYLVLDEADRMLD-MGFEPQIRKIVDQ 198

                         170       180
                  ....*....|....*....|....*...
gi 1060099110 155 LPSECQMLLFSATFEDSVWHFAERIIPD 182
Cdd:cd18049   199 IRPDRQTLMWSATWPKEVRQLAEDFLKD 226
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 1-186 1.03e-17

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 80.46  E-value: 1.03e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLsrVNALEL----------FPQCLCLAPTYELALQTG 70
Cdd:cd17951     8 KGIKKPTPIQMQGLPTILSG--RDMIGIAFTGSGKTLVFTLPLI--MFALEQekklpfikgeGPYGLIVCPSRELARQTH 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  71 RVVEQMGKFCVD-----VQVMYAIRGNRIPRGTDITKQ---IIIGTPGTVLDWCFKlKLIDLTKIRVFVLDEADVMIDtQ 142
Cdd:cd17951    84 EVIEYYCKALQEggypqLRCLLCIGGMSVKEQLEVIRKgvhIVVATPGRLMDMLNK-KKINLDICRYLCLDEADRMID-M 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1060099110 143 GFSDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17951   162 GFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 1-196 1.46e-17

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 80.10  E-value: 1.46e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQ----CLCLAPTYELALQTGRVVEQM 76
Cdd:cd17942     8 MGFTKMTEIQAKSIPPLLEG--RDVLGAAKTGSGKTLAFLIPAIELLYKLKFKPRngtgVIIISPTRELALQIYGVAKEL 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  77 GKFcvDVQVMYAIRG--NRIPRGTDITK--QIIIGTPGTVLD-------WCFKlklidltKIRVFVLDEADVMIDtQGFS 145
Cdd:cd17942    86 LKY--HSQTFGIVIGgaNRKAEAEKLGKgvNILVATPGRLLDhlqntkgFLYK-------NLQCLIIDEADRILE-IGFE 155

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1060099110 146 DHSIRIQRALPSECQMLLFSATfedsvwhfAERIIPDPNVIKLRKEELTLN 196
Cdd:cd17942   156 EEMRQIIKLLPKRRQTMLFSAT--------QTRKVEDLARISLKKKPLYVG 198
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 3-182 1.87e-17

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 81.21  E-value: 1.87e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   3 FNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-----PQCLCLAPTYELALQTGRVVEQMG 77
Cdd:cd18050    82 FKEPTPIQCQGFPLALSG--RDMVGIAQTGSGKTLAYLLPAIVHINHQPYLergdgPICLVLAPTRELAQQVQQVADDYG 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  78 KfCVDVQVMYAIRGnrIPRGTDITK-----QIIIGTPGTVLDWcFKLKLIDLTKIRVFVLDEADVMIDtQGFSDHSIRIQ 152
Cdd:cd18050   160 K-SSRLKSTCIYGG--APKGPQIRDlergvEICIATPGRLIDF-LEAGKTNLRRCTYLVLDEADRMLD-MGFEPQIRKIV 234

                         170       180       190
                  ....*....|....*....|....*....|
gi 1060099110 153 RALPSECQMLLFSATFEDSVWHFAERIIPD 182
Cdd:cd18050   235 DQIRPDRQTLMWSATWPKEVRQLAEDFLRD 264
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 23-178 3.94e-17

DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and nucleolar RNA helicase 2) is an RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II. It promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) and binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs. DDX50 (also called Gu-Beta, Nucleolar Protein Gu2, and malignant cell derived RNA helicase). DDX21 and DDX50 have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. Diseases associated with DDX21 include stomach disease and cerebral creatine deficiency syndrome 3. Diseases associated with DDX50 include rectal disease. Both are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Their name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350702 [Multi-domain]  Cd Length: 202  Bit Score: 79.12  E-value: 3.94e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  23 QNLIAQSQSGTGKTAAFVLAMLSRVNALE------LFPQCLCLAPTYELALQTGR----VVEQMGKFCVDVQVMYAIRGN 92
Cdd:cd17944    28 KDLIAQARTGTGKTFSFAIPLIEKLQEDQqprkrgRAPKVLVLAPTRELANQVTKdfkdITRKLSVACFYGGTPYQQQIF 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  93 RIPRGTDitkqIIIGTPGTVLDWCFKLKLiDLTKIRVFVLDEADVMIDtQGFSDH-----SIRIQRALPSECQMLLFSAT 167
Cdd:cd17944   108 AIRNGID----ILVGTPGRIKDHLQNGRL-DLTKLKHVVLDEVDQMLD-MGFAEQveeilSVSYKKDSEDNPQTLLFSAT 181

                         170
                  ....*....|.
gi 1060099110 168 FEDSVWHFAER 178
Cdd:cd17944   182 CPDWVYNVAKK 192
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 2-201 1.59e-15

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 74.97  E-value: 1.59e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   2 GFNRPSKIQEMALPMMLaHPPQNLIAQSQSGTGKTAAF-------VLAMLSRVNALELF--PQCLCLAPTYELALQTGRV 72
Cdd:cd17946     9 GFSEPTPIQALALPAAI-RDGKDVIGAAETGSGKTLAFgipilerLLSQKSSNGVGGKQkpLRALILTPTRELAVQVKDH 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  73 VEQMGKFcVDVQVMyAIRGnriprGTDITKQ---------IIIGTPGTVLDwcfklkLID--------LTKIRVFVLDEA 135
Cdd:cd17946    88 LKAIAKY-TNIKIA-SIVG-----GLAVQKQerllkkrpeIVVATPGRLWE------LIQegnehlanLKSLRFLVLDEA 154

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1060099110 136 DVMIDTQGFSD-HSI--RIQRALPSEC---QMLLFSATFedSVWHFAeriiPDPNVIKLRKEELTLNNIRQY 201
Cdd:cd17946   155 DRMLEKGHFAElEKIleLLNKDRAGKKrkrQTFVFSATL--TLDHQL----PLKLNSKKKKKKKEKKQKLEL 220
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 24-167 1.36e-14

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 70.12  E-value: 1.36e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  24 NLIAQSQSGTGKTAAFVLAMLSRvnALELFPQCLCLAPTYELALQTGRVVEQMGKFCVDVQVMYA------IRGNRIPRg 97
Cdd:cd00046     3 NVLITAPTGSGKTLAALLAALLL--LLKKGKKVLVLVPTKALALQTAERLRELFGPGIRVAVLVGgssaeeREKNKLGD- 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1060099110  98 tditKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEADVM-IDTQGFSDHSIRIQRALPSECQMLLFSAT 167
Cdd:cd00046    80 ----ADIIIATPDMLLNLLLREDRLFLKDLKLIIVDEAHALlIDSRGALILDLAVRKAGLKNAQVILLSAT 146
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 1-181 2.50e-12

DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box polypeptide 28) plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. DDX28 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350706 [Multi-domain]  Cd Length: 231  Bit Score: 65.85  E-value: 2.50e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLAHppQNLIAQSQSGTGKTAAFVLAMLSRVNALELF-------PQCLCLAPTYELALQTGRVV 73
Cdd:cd17948     8 QGITKPTTVQKQGIPSILRG--RNTLCAAETGSGKTLTYLLPIIQRLLRYKLLaegpfnaPRGLVITPSRELAEQIGSVA 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  74 EQMGK-FCVDVQVMYAIRGNRI---PRGTDItkQIIIGTPGTVLdwcfKL---KLIDLTKIRVFVLDEADVMIDtQGFSD 146
Cdd:cd17948    86 QSLTEgLGLKVKVITGGRTKRQirnPHFEEV--DILVATPGALS----KLltsRIYSLEQLRHLVLDEADTLLD-DSFNE 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1060099110 147 -----------HSIRIQRA--LPSECQMLLFSATFEDSVWHFAERIIP 181
Cdd:cd17948   159 klshflrrfplASRRSENTdgLDPGTQLVLVSATMPSGVGEVLSKVID 206
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
176-327 1.27e-10

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 62.83  E-value: 1.27e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 176 AERIIPDPNVIKLRK--EELTLnnirqyyvlcEHRKDKY--QALCNIYGSITIGQAIIFCQTRRnakwlTVEMI-----Q 246
Cdd:COG1111   311 SKRLVSDPRFRKAMRlaEEADI----------EHPKLSKlrEILKEQLGTNPDSRIIVFTQYRD-----TAEMIveflsE 375

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 247 DGHQVSLLSGE--------LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDlPVkqgeePDYETYLHRI 318
Cdd:COG1111   376 PGIKAGRFVGQaskegdkgLTQKEQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYE-PV-----PSEIRSIQRK 449


                  ....*....
gi 1060099110 319 GRTGRFGKK 327
Cdd:COG1111   450 GRTGRKREG 458
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
32-297 4.84e-10

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 60.81  E-value: 4.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  32 GTGKT--AAFVLAMLSRVnalelfPQCLCLAPTYELALQTgrvVEQMGKFCVDVqvmyAIRGNRIprgtDITKQIIIGTP 109
Cdd:COG1061   110 GTGKTvlALALAAELLRG------KRVLVLVPRRELLEQW---AEELRRFLGDP----LAGGGKK----DSDAPITVATY 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 110 GTVLDWCFKLKLIDltKIRVFVLDEAdvmidtqgfsdHSI------RIQRALPSECqMLLFSAT--FEDSVWHFAER--- 178
Cdd:COG1061   173 QSLARRAHLDELGD--RFGLVIIDEA-----------HHAgapsyrRILEAFPAAY-RLGLTATpfRSDGREILLFLfdg 238

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 179 ----------------------IIPDPNVIKLRKEELTLNNIRQYYVLCEHRKDK-YQALCNIYGSItiGQAIIFCQTRR 235
Cdd:COG1061   239 ivyeyslkeaiedgylappeyyGIRVDLTDERAEYDALSERLREALAADAERKDKiLRELLREHPDD--RKTLVFCSSVD 316

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1060099110 236 NAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV 297
Cdd:COG1061   317 HAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAI 378
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 6-186 1.87e-09

DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 (MRH4) plays an essential role during the late stages of mitochondrial ribosome or mitoribosome assembly by promoting remodeling of the 21S rRNA-protein interactions. MRH4 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350723 [Multi-domain]  Cd Length: 251  Bit Score: 57.77  E-value: 1.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   6 PSKIQEMALPMMLAHPPQN---------------LIAqSQSGTGKTAAFVLAMLSRVNALELF----------------- 53
Cdd:cd17965    31 PSPIQTLAIKKLLKTLMRKvtkqtsneepklevfLLA-AETGSGKTLAYLAPLLDYLKRQEQEpfeeaeeeyesakdtgr 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  54 PQCLCLAPTYELALQTGRVVEQM--------GKFCVDVQVMYAIRGNRIPRGTDItkqiIIGTPGTVLDwCFKLKLIDLT 125
Cdd:cd17965   110 PRSVILVPTHELVEQVYSVLKKLshtvklgiKTFSSGFGPSYQRLQLAFKGRIDI----LVTTPGKLAS-LAKSRPKILS 184

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1060099110 126 KIRVFVLDEADVMIDtQGFSDHSIRIQRALPSECQMLLFSATFEDSVWHFAERIIPDPNVI 186
Cdd:cd17965   185 RVTHLVVDEADTLFD-RSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTLRKLFPDVVRI 244
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 1-167 2.72e-09

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 56.87  E-value: 2.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110   1 MGFNRPSKIQEMALPMMLA-------HPPQNLIAQSQSGTGKTAAFVL----AMLSRVNAlELfpQCLCLAPTYELALQt 69
Cdd:cd17956     8 NGITSAFPVQAAVIPWLLPsskstppYRPGDLCVSAPTGSGKTLAYVLpivqALSKRVVP-RL--RALIVVPTKELVQQ- 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110  70 grVVEQMGKFC--VDVQVMyAIRGNR--------IPRGT----DITKQIIIGTPGTVLDWCFKLKLIDLTKIRVFVLDEA 135
Cdd:cd17956    84 --VYKVFESLCkgTGLKVV-SLSGQKsfkkeqklLLVDTsgryLSRVDILVATPGRLVDHLNSTPGFTLKHLRFLVIDEA 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1060099110 136 DVMIDT--QGFSDHSI-RIQRA----------------LPSECQMLLFSAT 167
Cdd:cd17956   161 DRLLNQsfQDWLETVMkALGRPtapdlgsfgdanllerSVRPLQKLLFSAT 211
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 208-302 1.03e-08

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 53.36  E-value: 1.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 208 RKDKYQALCNI----YGSITIGQAIIFCQTRRNAKWLTvEMIQD--------------GHQVSLLSGELTVEQRA--SII 267
Cdd:cd18802     5 VIPKLQKLIEIlreyFPKTPDFRGIIFVERRATAVVLS-RLLKEhpstlafircgfliGRGNSSQRKRSLMTQRKqkETL 83

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1060099110 268 QRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 302
Cdd:cd18802    84 DKFRDGELNLLIATSVLEEGIDVPACNLVIRFDLP 118
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 225-326 9.62e-08

C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 50.28  E-value: 9.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 225 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPvk 304
Cdd:cd18794    31 GSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLRDKIQVIVATVAFGMGIDKPDVRFVIHYSLP-- 108

                          90       100
                  ....*....|....*....|..
gi 1060099110 305 qgeePDYETYLHRIGRTGRFGK 326
Cdd:cd18794   109 ----KSMESYYQESGRAGRDGL 126
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 227-302 2.90e-07

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 49.01  E-value: 2.90e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1060099110 227 AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEK--VLITTNVCARGIDVKQVTIVVNFDLP 302
Cdd:cd18793    30 VLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPDIrvFLLSTKAGGVGLNLTAANRVILYDPW 107
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 227-325 2.24e-06

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 49.45  E-value: 2.24e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 227 AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEK--VLITTNVCARGIDVKQVTIVVNFDLP-- 302
Cdd:COG0553   552 VLVFSQFTDTLDLLEERLEERGIEYAYLHGGTSAEERDELVDRFQEGPEApvFLISLKAGGEGLNLTAADHVIHYDLWwn 631

                          90       100
                  ....*....|....*....|....*.
gi 1060099110 303 ---VKQgeepdyetylhRIGRTGRFG 325
Cdd:COG0553   632 pavEEQ-----------AIDRAHRIG 646
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
 226-330 5.00e-06

C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. HrQ family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350184 [Multi-domain]  Cd Length: 146  Bit Score: 45.71  E-value: 5.00e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 226 QAIIFCQTRRNA----KWLTVEMIQDGHQVSLLS---GELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVN 298
Cdd:cd18797    37 KTIVFCRSRKLAelllRYLKARLVEEGPLASKVAsyrAGYLAEDRREIEAELFNGELLGVVATNALELGIDIGGLDAVVL 116

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1060099110 299 FDLPvkqgeePDYETYLHRIGRTGRFGKKGLA 330
Cdd:cd18797   117 AGYP------GSLASLWQQAGRAGRRGKDSLV 142
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 226-331 5.80e-06

ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 48.29  E-value: 5.80e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 226 QAIIFCQTRRNAKwLTVEMIQDGHQVSLLSGELTV-------EQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVN 298
Cdd:COG1205   290 RTLVFTRSRRGAE-LLARYARRALREPDLADRVAAyragylpEERREIERGLRSGELLGVVSTNALELGIDIGGLDAVVL 368

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1060099110 299 FDLPvkqgeePDYETYLHRIGRTGRFGKKGLAF 331
Cdd:COG1205   369 AGYP------GTRASFWQQAGRAGRRGQDSLVV 395
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 276-328 1.54e-05

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 42.69  E-value: 1.54e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1060099110 276 KVLITTNVCARGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFGKKG 328
Cdd:cd18785    24 EILVATNVLGEGIDVPSLDTVIFFDPP------SSAASYIQRVGRAGRGGKDE 70
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 203-323 2.93e-05

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 43.50  E-value: 2.93e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 203 VLCEHRKDKyQALCNiygsitiGQAIIFCQTRRNAKWLTVEMIQDGHQV--SLLSGELTVE--------QRASIIQRFRD 272
Cdd:cd18801    17 IVKEHFKKK-QEGSD-------TRVIIFSEFRDSAEEIVNFLSKIRPGIraTRFIGQASGKsskgmsqkEQKEVIEQFRK 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1060099110 273 GKEKVLITTNVCARGIDVKQVTIVVNFDL---PVKqgeepdyetYLHRIGRTGR 323
Cdd:cd18801    89 GGYNVLVATSIGEEGLDIGEVDLIICYDAspsPIR---------MIQRMGRTGR 133
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
180-330 6.46e-05

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 44.75  E-value: 6.46e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 180 IPDPNVIKL---RKeeltlnNIRqYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRN----AKWLTvemiQDGHQVS 252
Cdd:COG0514   190 LEDPRVFVGsfdRP------NLR-LEVVPKPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKveelAEWLR----EAGIRAA 258

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 253 LLSGELTVEQRASIIQRFRDGKEKVLITTNvcA--RGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFGKKGLA 330
Cdd:COG0514   259 AYHAGLDAEEREANQDRFLRDEVDVIVATI--AfgMGIDKPDVRFVIHYDLP------KSIEAYYQEIGRAGRDGLPAEA 330
PRK13766 PRK13766
Hef nuclease; Provisional
 176-323 2.31e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 43.32  E-value: 2.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 176 AERIIPDPNVIKL--RKEELTLnnirqyyvlcEHrkDKYQALCNIYGSITIGQ----AIIFCQTRRNAKWLTVEMIQDG- 248
Cdd:PRK13766  323 SKRLVEDPRFRKAvrKAKELDI----------EH--PKLEKLREIVKEQLGKNpdsrIIVFTQYRDTAEKIVDLLEKEGi 390

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 249 ------HQVSLLSGE-LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVnFDLPVkqgeePDYETYLHRIGRT 321
Cdd:PRK13766  391 kavrfvGQASKDGDKgMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVI-FYEPV-----PSEIRSIQRKGRT 464


                  ..
gi 1060099110 322 GR 323
Cdd:PRK13766  465 GR 466
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 179-323 3.07e-04

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 40.71  E-value: 3.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 179 IIPDPNVIKLRKEELTLNNIRQY-YVLCEHRKdkyqalcniygsitigqAIIFCQTRRNAKWLTV------EMIQDGHQV 251
Cdd:cd18796     9 ILPVAPEIFPWAGESGADAYAEViFLLERHKS-----------------TLVFTNTRSQAERLAQrlrelcPDRVPPDFI 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1060099110 252 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP--VKQGeepdyetyLHRIGRTGR 323
Cdd:cd18796    72 ALHHGSLSRELREEVEAALKRGDLKVVVATSSLELGIDIGDVDLVIQIGSPksVARL--------LQRLGRSGH 137
SF2_C_EcoAI-like cd18799
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family ...
 227-304 4.58e-04

C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family is composed of helicase restriction enzymes, including the HsdR subunit of restriction-modification enzymes such as Escherichia coli type I restriction enzyme EcoAI R protein (R.EcoAI). The EcoAI enzyme recognizes 5'-GAGN(7)GTCA-3'. The HsdR or R subunit is required for both nuclease and ATPase activities, but not for modification. These proteins are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350186 [Multi-domain]  Cd Length: 116  Bit Score: 39.46  E-value: 4.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 227 AIIFCQTRRNAKWLtVEMIQD-GHQVSLLSGELTVEQR--ASIIQ-RFRDGKEKVLITTNVCARGIDVKQVTIVVnFDLP 302
Cdd:cd18799     9 TLIFCVSIEHAEFM-AEAFNEaGIDAVALNSDYSDRERgdEALILlFFGELKPPILVTVDLLTTGVDIPEVDNVV-FLRP 86


                  ..
gi 1060099110 303 VK 304
Cdd:cd18799    87 TE 88
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 189-297 2.04e-03

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 38.38  E-value: 2.04e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 189 RKEELTLNNIRQYYVLCEHRKDKYQALCNIygsIT----IGQAIIFCQT----RRNAKWLTVEMIqdghqvsllSGELTV 260
Cdd:cd18789    13 YREYLGLGAHRKRRLLAAMNPNKLRALEEL---LKrheqGDKIIVFTDNvealYRYAKRLLKPFI---------TGETPQ 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1060099110 261 EQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV 297
Cdd:cd18789    81 SEREEILQNFREGEYNTLVVSKVGDEGIDLPEANVAI 117
SF2_C_priA cd18804
C-terminal helicase domain of ATP-dependent helicase PriA; PriA, also known as replication ...
 261-348 2.10e-03

C-terminal helicase domain of ATP-dependent helicase PriA; PriA, also known as replication factor Y or primosomal protein N', is a 3'-->5' DNA helicase that acts to remodel stalled replication forks and as a specificity factor for origin-independent assembly of a new replisome at the stalled fork. PriA is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350191 [Multi-domain]  Cd Length: 238  Bit Score: 39.15  E-value: 2.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 261 EQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV--NFD----LPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMI 334
Cdd:cd18804   131 GALEKLLDQFERGEIDILIGTQMIAKGLDFPNVTLVGilNADsglnSPDFRASERAFQLLTQVSGRAGRGDKPGKVIIQT 210

                          90
                  ....*....|....
gi 1060099110 335 EVDELPSLMKIQDH 348
Cdd:cd18804   211 YNPEHPLIQAAKEE 224
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 188-323 2.93e-03

C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 37.92  E-value: 2.93e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 188 LRKEELTLNNIRQYYVLCEHRKDKyqalcniygsitigQAIIFCQTRRNAKWLTVEMIqdGhqVSLLSGELTVEQRASII 267
Cdd:cd18795    21 VDVMNKFDSDIIVLLKIETVSEGK--------------PVLVFCSSRKECEKTAKDLA--G--IAFHHAGLTREDRELVE 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1060099110 268 QRFRDGKEKVLITT-------NVCARGIDVKQVTIvvnFDlpVKQGEEPDYETYLHRIGRTGR 323
Cdd:cd18795    83 ELFREGLIKVLVATstlaagvNLPARTVIIKGTQR---YD--GKGYRELSPLEYLQMIGRAGR 140
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 197-325 3.62e-03

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 39.31  E-value: 3.62e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 197 NIRqyYVLCEhrkdKYQALCNIYGSITiGQ----AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRD 272
Cdd:PRK11057  212 NIR--YTLVE----KFKPLDQLMRYVQ-EQrgksGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQR 284

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1060099110 273 GKEKVLITTNVCARGIDVKQVTIVVNFDLPvkqgeePDYETYLHRIGRTGRFG 325
Cdd:PRK11057  285 DDLQIVVATVAFGMGINKPNVRFVVHFDIP------RNIESYYQETGRAGRDG 331
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 102-327 3.86e-03

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 38.95  E-value: 3.86e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 102 KQIIIGTPGTVL---DWCFKLKLIDLTKI--RVFVLDEADVMID-TQGFSDHSIRIQRALPSecQMLLFSATFEDSVWHF 175
Cdd:cd09639    94 DPITVCTIDQVLksvFGEFGHYEFTLASIanSLLIFDEVHFYDEyTLALILAVLEVLKDNDV--PILLMSATLPKFLKEY 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 176 AERIIPDPNviklrKEELTLNNIRQY-YVLCEHRKDKYQALCN--IYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQ-- 250
Cdd:cd09639   172 AEKIGYVEE-----NEPLDLKPNERApFIKIESDKVGEISSLErlLEFIKKGGSVAIIVNTVDRAQEFYQQLKEKGPEee 246

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 251 VSLLSGELT----VEQRASIIQRFRDGKEKVLITTNVCARGIDvkqvtivVNFDLPVKQGEEPDyeTYLHRIGRTGRFGK 326
Cdd:cd09639   247 IMLIHSRFTekdrAKKEAELLLEFKKSEKFVIVATQVIEASLD-------ISVDVMITELAPID--SLIQRLGRLHRYGE 317


                  .
gi 1060099110 327 K 327
Cdd:cd09639   318 K 318
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
 204-297 6.80e-03

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 38.32  E-value: 6.80e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1060099110 204 LCEHRKDKYQALcniygsitigqaiIFCQTrrnakwltvemIQDGHQVS-LLSGEL------TV----EQRASIIQRFRD 272
Cdd:COG4098   312 LKKRLKEGRQLL-------------IFVPT-----------IELLEQLVaLLQKLFpeeriaGVhaedPERKEKVQAFRD 367

                          90       100
                  ....*....|....*....|....*
gi 1060099110 273 GKEKVLITTNVCARGIDVKQVTIVV 297
Cdd:COG4098   368 GEIPILVTTTILERGVTFPNVDVAV 392
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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