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Conserved domains on  [gi|34189925|gb|AAH00979|]
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DDX49 protein [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase domain-containing protein( domain architecture ID 1000559)

DEAD/DEAH box helicase domain-containing protein may function as an RNA helicase

CATH:  3.40.50.300|1.20.1320.20
EC:  3.6.4.-
Gene Ontology:  GO:0005524|GO:0004386|GO:0003676
PubMed:  20206133

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SrmB super family cl33924
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-206 7.25e-65

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


The actual alignment was detected with superfamily member COG0513:

Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 207.69  E-value: 7.25e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:COG0513 109 VSIGRQIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMG---FIEDIERILKLLPKERQTLLFSA 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  81 TLTDTLRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIqrfqdEHEDW-SIIIFTNTCKTCQILCM 159
Cdd:COG0513 185 TMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKLELLRRLL-----RDEDPeRAIVFCNTKRGADRLAE 259

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 34189925 160 MLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:COG0513 260 KLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGID 306
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-206 7.25e-65

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 207.69  E-value: 7.25e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:COG0513 109 VSIGRQIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMG---FIEDIERILKLLPKERQTLLFSA 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  81 TLTDTLRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIqrfqdEHEDW-SIIIFTNTCKTCQILCM 159
Cdd:COG0513 185 TMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKLELLRRLL-----RDEDPeRAIVFCNTKRGADRLAE 259

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 34189925 160 MLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:COG0513 260 KLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGID 306
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 1-101 6.04e-49

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: 160.08  E-value: 6.04e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSN--TFSIKKIRFLVMDEADRLLEqgcTDFTVDLEAILAAVPARRQTLLF 78
Cdd:cd17955 105 MDMVKQALELSKRPHIVVATPGRLADHLRSSDdtTKVLSRVKFLVLDEADRLLT---GSFEDDLATILSALPPKRQTLLF 181

                        90       100
                ....*....|....*....|...
gi 34189925  79 SATLTDTLRELQGLATNQPFFWE 101
Cdd:cd17955 182 SATLTDALKALKELFGNKPFFWE 204
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 1-206 5.47e-42

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 148.80  E-value: 5.47e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:PRK11776 111 VPMGPQIDSLEHGAHIIVGTPGRILDHLRK-GTLDLDALNTLVLDEADRMLDMG---FQDAIDAIIRQAPARRQTLLFSA 186

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   81 TLTDTLRELQGLATNQPFFWEAQAPVSTvEQLDQRYLLVPEKVKDAYLVHLIQRFQDEhedwSIIIFTNTCKTCQILCMM 160
Cdd:PRK11776 187 TYPEGIAAISQRFQRDPVEVKVESTHDL-PAIEQRFYEVSPDERLPALQRLLLHHQPE----SCVVFCNTKKECQEVADA 261

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 34189925  161 LRKFSFPTVALHSMMKQKERFAALAKF--KSSiyRILIATDVASRGAD 206
Cdd:PRK11776 262 LNAQGFSALALHGDLEQRDRDQVLVRFanRSC--SVLVATDVAARGLD 307
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 8-89 2.33e-23

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: 92.69  E-value: 2.33e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925     8 LELSRKPHVVIATPGRLADHLRSSNTFsiKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLR 87
Cdd:pfam00270  89 LEKLKGPDILVGTPGRLLDLLQERKLL--KNLKLLVLDEAHRLLDMG---FGPDLEEILRRLPKKRQILLLSATLPRNLE 163


                  ..
gi 34189925    88 EL 89
Cdd:pfam00270 164 DL 165
DEXDc smart00487
DEAD-like helicases superfamily;
11-99 1.90e-17

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 77.92  E-value: 1.90e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925     11 SRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLRELQ 90
Cdd:smart00487 103 SGKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGG---FGDQLEKLLKLLPKNVQLLLLSATPPEEIENLL 178


                   ....*....
gi 34189925     91 GLATNQPFF 99
Cdd:smart00487 179 ELFLNDPVF 187
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-206 7.25e-65

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 207.69  E-value: 7.25e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:COG0513 109 VSIGRQIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMG---FIEDIERILKLLPKERQTLLFSA 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  81 TLTDTLRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIqrfqdEHEDW-SIIIFTNTCKTCQILCM 159
Cdd:COG0513 185 TMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKLELLRRLL-----RDEDPeRAIVFCNTKRGADRLAE 259

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 34189925 160 MLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:COG0513 260 KLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGID 306
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 1-101 6.04e-49

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: 160.08  E-value: 6.04e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSN--TFSIKKIRFLVMDEADRLLEqgcTDFTVDLEAILAAVPARRQTLLF 78
Cdd:cd17955 105 MDMVKQALELSKRPHIVVATPGRLADHLRSSDdtTKVLSRVKFLVLDEADRLLT---GSFEDDLATILSALPPKRQTLLF 181

                        90       100
                ....*....|....*....|...
gi 34189925  79 SATLTDTLRELQGLATNQPFFWE 101
Cdd:cd17955 182 SATLTDALKALKELFGNKPFFWE 204
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 1-206 5.47e-42

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 148.80  E-value: 5.47e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:PRK11776 111 VPMGPQIDSLEHGAHIIVGTPGRILDHLRK-GTLDLDALNTLVLDEADRMLDMG---FQDAIDAIIRQAPARRQTLLFSA 186

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   81 TLTDTLRELQGLATNQPFFWEAQAPVSTvEQLDQRYLLVPEKVKDAYLVHLIQRFQDEhedwSIIIFTNTCKTCQILCMM 160
Cdd:PRK11776 187 TYPEGIAAISQRFQRDPVEVKVESTHDL-PAIEQRFYEVSPDERLPALQRLLLHHQPE----SCVVFCNTKKECQEVADA 261

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 34189925  161 LRKFSFPTVALHSMMKQKERFAALAKF--KSSiyRILIATDVASRGAD 206
Cdd:PRK11776 262 LNAQGFSALALHGDLEQRDRDQVLVRFanRSC--SVLVATDVAARGLD 307
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 1-97 4.50e-40

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: 137.45  E-value: 4.50e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQgctDFTVDLEAILAAVPARRQTLLFSA 80
Cdd:cd17954 106 MDMMAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNM---DFEPEIDKILKVIPRERTTYLFSA 182

                        90
                ....*....|....*..
gi 34189925  81 TLTDTLRELQGLATNQP 97
Cdd:cd17954 183 TMTTKVAKLQRASLKNP 199
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 1-89 2.75e-32

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: 116.77  E-value: 2.75e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:cd00268 100 APIKKQIEALKKGPDIVVGTPGRLLDLIER-GKLDLSNVKYLVLDEADRMLDMG---FEEDVEKILSALPKDRQTLLFSA 175


                ....*....
gi 34189925  81 TLTDTLREL 89
Cdd:cd00268 176 TLPEEVKEL 184
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 1-97 5.64e-32

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: 116.20  E-value: 5.64e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:cd17947  99 LSLKAQEAALRARPDIVIATPGRLIDHLRNSPSFDLDSIEILVLDEADRMLEEG---FADELKEILRLCPRTRQTMLFSA 175

                        90
                ....*....|....*..
gi 34189925  81 TLTDTLRELQGLATNQP 97
Cdd:cd17947 176 TMTDEVKDLAKLSLNKP 192
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 16-206 6.41e-31

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 118.51  E-value: 6.41e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   16 VVIATPGRLADHLRSSNtFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLT-DTLRELQGLAT 94
Cdd:PRK11192 126 IVVATPGRLLQYIKEEN-FDCRAVETLILDEADRMLDMG---FAQDIETIAAETRWRKQTLLFSATLEgDAVQDFAERLL 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   95 NQPFFWEAQAPVSTVEQLDQRYLLVPEKV-KDAYLVHLIQRFQDEhedwSIIIFTNTCKTCQILCMMLRKFSFPTVALHS 173
Cdd:PRK11192 202 NDPVEVEAEPSRRERKKIHQWYYRADDLEhKTALLCHLLKQPEVT----RSIVFVRTRERVHELAGWLRKAGINCCYLEG 277

                        170       180       190
                 ....*....|....*....|....*....|...
gi 34189925  174 MMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:PRK11192 278 EMVQAKRNEAIKRLTDGRVNVLVATDVAARGID 310
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 6-211 1.20e-30

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 118.37  E-value: 1.20e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    6 QALELSRKPHVVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:PRK10590 118 QMMKLRGGVDVLVATPGRLLD-LEHQNAVKLDQVEILVLDEADRMLDMG---FIHDIRRVLAKLPAKRQNLLFSATFSDD 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   86 LRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIQRfqdehEDWS-IIIFTNTCKTCQILCMMLRKF 164
Cdd:PRK10590 194 IKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSQMIGK-----GNWQqVLVFTRTKHGANHLAEQLNKD 268

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 34189925  165 SFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGADQPPLP 211
Cdd:PRK10590 269 GIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELP 315
PTZ00110 PTZ00110
helicase; Provisional
 6-206 5.73e-29

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 114.49  E-value: 5.73e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    6 QALELSRKPHVVIATPGRLADHLRSSNTfSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTdt 85
Cdd:PTZ00110 246 QIYALRRGVEILIACPGRLIDFLESNVT-NLRRVTYLVLDEADRMLDMG---FEPQIRKIVSQIRPDRQTLMWSATWP-- 319

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   86 lRELQGLATNQPffweAQAPV---------STVEQLDQRYLLVPEKVKDAYLVHLIQRFQDEHEdwSIIIFTNTCKTCQI 156
Cdd:PTZ00110 320 -KEVQSLARDLC----KEEPVhvnvgsldlTACHNIKQEVFVVEEHEKRGKLKMLLQRIMRDGD--KILIFVETKKGADF 392

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 34189925  157 LCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:PTZ00110 393 LTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLD 442
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 6-206 1.54e-28

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 113.40  E-value: 1.54e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    6 QALELSRKPHVVIATPGRLADHLRSSnTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:PRK11634 118 QLRALRQGPQIVVGTPGRLLDHLKRG-TLDLSKLSGLVLDEADEMLRMG---FIEDVETIMAQIPEGHQTALFSATMPEA 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   86 LRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVhliqRFQdEHEDW-SIIIFTNTCKTCQILCMMLRKF 164
Cdd:PRK11634 194 IRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKNEALV----RFL-EAEDFdAAIIFVRTKNATLEVAEALERN 268

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 34189925  165 SFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:PRK11634 269 GYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLD 310
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 112-206 2.79e-28

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: 104.51  E-value: 2.79e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925 112 LDQRYLLVPEKVKDAYLvhlIQRFQDEHEDWSIIIFTNTCKTCQILCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSI 191
Cdd:cd18787   1 IKQLYVVVEEEEKKLLL---LLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGK 77

                        90
                ....*....|....*
gi 34189925 192 YRILIATDVASRGAD 206
Cdd:cd18787  78 VRVLVATDVAARGLD 92
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 11-98 1.14e-23

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: 94.57  E-value: 1.14e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  11 SRKPHVVIATPGRLADHLRSS---NTFsiKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPAR----RQTLLFSATLT 83
Cdd:cd17964 118 RGRPDILVATPGRLIDHLENPgvaKAF--TDLDYLVLDEADRLLDMG---FRPDLEQILRHLPEKnadpRQTLLFSATVP 192

                        90
                ....*....|....*
gi 34189925  84 DTLRELQGLATNQPF 98
Cdd:cd17964 193 DEVQQIARLTLKKDY 207
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 16-204 1.50e-23

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 98.87  E-value: 1.50e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   16 VVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPAR--RQTLLFSATLTDTLRELQGLA 93
Cdd:PRK04537 137 VIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLG---FIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEH 213

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   94 TNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIQRfqdeHEDWSIIIFTNTCKTCQILCMMLRKFSFPTVALHS 173
Cdd:PRK04537 214 MNEPEKLVVETETITAARVRQRIYFPADEEKQTLLLGLLSR----SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSG 289

                        170       180       190
                 ....*....|....*....|....*....|.
gi 34189925  174 MMKQKERFAALAKFKSSIYRILIATDVASRG 204
Cdd:PRK04537 290 DVPQKKRESLLNRFQKGQLEILVATDVAARG 320
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 8-89 2.33e-23

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: 92.69  E-value: 2.33e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925     8 LELSRKPHVVIATPGRLADHLRSSNTFsiKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLR 87
Cdd:pfam00270  89 LEKLKGPDILVGTPGRLLDLLQERKLL--KNLKLLVLDEAHRLLDMG---FGPDLEEILRRLPKKRQILLLSATLPRNLE 163


                  ..
gi 34189925    88 EL 89
Cdd:pfam00270 164 DL 165
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 5-99 6.39e-23

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: 92.42  E-value: 6.39e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   5 AQALELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTD 84
Cdd:cd17942 104 AEAEKLGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIG---FEEEMRQIIKLLPKRRQTMLFSATQTR 180

                        90
                ....*....|....*.
gi 34189925  85 TLRELQGLA-TNQPFF 99
Cdd:cd17942 181 KVEDLARISlKKKPLY 196
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 10-83 6.63e-23

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: 93.46  E-value: 6.63e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  10 LSRKPHVVIATPGRLADHLRSSNTF--SIKKIRFLVMDEADRLLEQGCTDftvDLEAILAAVPA-------RRQTLLFSA 80
Cdd:cd17946 115 LKKRPEIVVATPGRLWELIQEGNEHlaNLKSLRFLVLDEADRMLEKGHFA---ELEKILELLNKdragkkrKRQTFVFSA 191


                ...
gi 34189925  81 TLT 83
Cdd:cd17946 192 TLT 194
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 16-99 1.06e-22

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: 92.26  E-value: 1.06e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  16 VVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAV-------------PARRQTLLFSATL 82
Cdd:cd17949 119 ILIATPGRLLDHLKNTQSFDVSNLRWLVLDEADRLLDMG---FEKDITKILELLddkrskaggekskPSRRQTVLVSATL 195

                        90
                ....*....|....*..
gi 34189925  83 TDTLRELQGLATNQPFF 99
Cdd:cd17949 196 TDGVKRLAGLSLKDPVY 212
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 3-99 2.84e-20

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: 86.15  E-value: 2.84e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   3 MVAQALELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQ----------------GCTDFTVDLEAIL 66
Cdd:cd17956 116 LVDTSGRYLSRVDILVATPGRLVDHLNSTPGFTLKHLRFLVIDEADRLLNQsfqdwletvmkalgrpTAPDLGSFGDANL 195

                        90       100       110
                ....*....|....*....|....*....|....
gi 34189925  67 AAVPARR-QTLLFSATLTDTLRELQGLATNQPFF 99
Cdd:cd17956 196 LERSVRPlQKLLFSATLTRDPEKLSSLKLHRPRL 229
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 1-98 8.60e-20

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: 84.17  E-value: 8.60e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDftvDLEAILAAVPARRQTLLFSA 80
Cdd:cd17961 108 SSDSVQRALLAEKPDIVVSTPARLLSHLESGSLLLLSTLKYLVIDEADLVLSYGYEE---DLKSLLSYLPKNYQTFLMSA 184

                        90
                ....*....|....*...
gi 34189925  81 TLTDTLRELQGLATNQPF 98
Cdd:cd17961 185 TLSEDVEALKKLVLHNPA 202
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 3-97 9.83e-20

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: 84.28  E-value: 9.83e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   3 MVAQALELSRKPHVVIATPGRLADHLRSSNtFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATL 82
Cdd:cd17959 111 LEEQFEALASNPDIIIATPGRLLHLLVEMN-LKLSSVEYVVFDEADRLFEMG---FAEQLHEILSRLPENRQTLLFSATL 186

                        90
                ....*....|....*
gi 34189925  83 TDTLRELQGLATNQP 97
Cdd:cd17959 187 PKLLVEFAKAGLNEP 201
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 13-89 1.18e-19

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: 83.78  E-value: 1.18e-19
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 34189925  13 KPHVVIATPGRLADHLRSSNT-FSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLREL 89
Cdd:cd17960 116 GPNILVGTPGRLEELLSRKADkVKVKSLEVLVLDEADRLLDLG---FEADLNRILSKLPKQRRTGLFSATQTDAVEEL 190
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 1-88 2.04e-19

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: 83.16  E-value: 2.04e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSA 80
Cdd:cd17951 110 MSVKEQLEVIRKGVHIVVATPGRLMDML-NKKKINLDICRYLCLDEADRMIDMG---FEEDIRTIFSYFKGQRQTLLFSA 185


                ....*...
gi 34189925  81 TLTDTLRE 88
Cdd:cd17951 186 TMPKKIQN 193
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 16-99 3.40e-19

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: 82.72  E-value: 3.40e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  16 VVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLRELQGLATN 95
Cdd:cd17941 114 ILVCTPGRLLQHMDETPGFDTSNLQMLVLDEADRILDMG---FKETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLK 190


                ....
gi 34189925  96 QPFF 99
Cdd:cd17941 191 NPEY 194
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 2-93 2.84e-18

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: 80.61  E-value: 2.84e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   2 DMVAQALELSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAA----VPARRQTLL 77
Cdd:cd17967 117 DVVHQQLQLLRGCDILVATPGRLVDFI-ERGRISLSSIKFLVLDEADRMLDMG---FEPQIRKIVEHpdmpPKGERQTLM 192

                        90
                ....*....|....*.
gi 34189925  78 FSATLTdtlRELQGLA 93
Cdd:cd17967 193 FSATFP---REIQRLA 205
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 1-204 3.04e-18

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 83.42  E-value: 3.04e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    1 MDMVAQALEL-SRKPHVVIATPGRLADHLRSSNTFsIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVP--ARRQTLL 77
Cdd:PRK01297 200 MDFDKQLKQLeARFCDILVATPGRLLDFNQRGEVH-LDMVEVMVLDEADRMLDMG---FIPQVRQIIRQTPrkEERQTLL 275

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   78 FSATLTDTLRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIQRfqdehEDWS-IIIFTNTCKTCQI 156
Cdd:PRK01297 276 FSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSDKYKLLYNLVTQ-----NPWErVMVFANRKDEVRR 350

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 34189925  157 LCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRG 204
Cdd:PRK01297 351 IEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRG 398
PTZ00424 PTZ00424
helicase 45; Provisional
 15-206 1.13e-17

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 81.41  E-value: 1.13e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   15 HVVIATPGRLAD-----HLRssntfsIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLREL 89
Cdd:PTZ00424 148 HMVVGTPGRVYDmidkrHLR------VDDLKLFILDEADEMLSRG---FKGQIYDVFKKLPPDVQVALFSATMPNEILEL 218

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   90 QGLATNQPFFWEAQAPVSTVEQLDQRYLLVPekvKDAYLvhlIQRFQDEHEDWSI---IIFTNTCKTCQILCMMLRKFSF 166
Cdd:PTZ00424 219 TTKFMRDPKRILVKKDELTLEGIRQFYVAVE---KEEWK---FDTLCDLYETLTItqaIIYCNTRRKVDYLTKKMHERDF 292

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 34189925  167 PTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:PTZ00424 293 TVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGID 332
DEXDc smart00487
DEAD-like helicases superfamily;
11-99 1.90e-17

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 77.92  E-value: 1.90e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925     11 SRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLRELQ 90
Cdd:smart00487 103 SGKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGG---FGDQLEKLLKLLPKNVQLLLLSATPPEEIENLL 178


                   ....*....
gi 34189925     91 GLATNQPFF 99
Cdd:smart00487 179 ELFLNDPVF 187
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 6-93 4.88e-17

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: 76.64  E-value: 4.88e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLRSSNTfSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTdt 85
Cdd:cd17966 106 QIRDLRRGVEICIATPGRLIDFLDQGKT-NLRRVTYLVLDEADRMLDMG---FEPQIRKIVDQIRPDRQTLMWSATWP-- 179


                ....*...
gi 34189925  86 lRELQGLA 93
Cdd:cd17966 180 -KEVRRLA 186
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 4-89 4.09e-16

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: 74.22  E-value: 4.09e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   4 VAQALELSRKPHVVIATPGRLAdHLRSSNTFSIKKIRFLVMDEADRLLEQgctDFTVDLEAILAAVPARRQTLLFSATLT 83
Cdd:cd17943  99 VKEDKKKLKGCHIAVGTPGRIK-QLIELGALNVSHVRLFVLDEADKLMEG---SFQKDVNWIFSSLPKNKQVIAFSATYP 174


                ....*.
gi 34189925  84 DTLREL 89
Cdd:cd17943 175 KNLDNL 180
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 124-204 4.61e-16

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: 71.86  E-value: 4.61e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   124 KDAYLVHLIQrfqdEHEDWSIIIFTNTCKTCQIlCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASR 203
Cdd:pfam00271   2 KLEALLELLK----KERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAER 76


                  .
gi 34189925   204 G 204
Cdd:pfam00271  77 G 77
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 8-98 6.99e-16

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: 73.49  E-value: 6.99e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   8 LELSRKPHVVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQgctDFTVDLEAILAAVPARRQTLLFSATLTDTLR 87
Cdd:cd17940 112 MRLYQTVHVLVGTPGRILD-LAKKGVADLSHCKTLVLDEADKLLSQ---DFQPIIEKILNFLPKERQILLFSATFPLTVK 187

                        90
                ....*....|.
gi 34189925  88 ELQGLATNQPF 98
Cdd:cd17940 188 NFMDRHMHNPY 198
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 11-87 2.00e-15

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: 72.76  E-value: 2.00e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 34189925  11 SRKPHVVIATPGRLADHLRSSnTFSIKKIRFLVMDEADRLLEQgcTDFTVDLEAILAAVPARRQTLLFSATLTDTLR 87
Cdd:cd17950 120 NKCPHIVVGTPGRILALVREK-KLKLSHVKHFVLDECDKMLEQ--LDMRRDVQEIFRATPHDKQVMMFSATLSKEIR 193
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 6-93 2.05e-15

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: 73.46  E-value: 2.05e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAA--VPA--RRQTLLFSAT 81
Cdd:cd18052 163 QIRQIEKGCHILVATPGRLLDFI-GRGKISLSKLKYLILDEADRMLDMG---FGPEIRKLVSEpgMPSkeDRQTLMFSAT 238

                        90
                ....*....|..
gi 34189925  82 LTDtlrELQGLA 93
Cdd:cd18052 239 FPE---EIQRLA 247
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 9-89 3.93e-15

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: 71.59  E-value: 3.93e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   9 ELSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLRE 88
Cdd:cd17939 111 KLQYGPHIVVGTPGRVFDML-QRRSLRTDKIKMFVLDEADEMLSRG---FKDQIYDIFQFLPPETQVVLFSATMPHEVLE 186


                .
gi 34189925  89 L 89
Cdd:cd17939 187 V 187
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 6-89 5.60e-15

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: 71.34  E-value: 5.60e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:cd17958 106 QIEDLSKGVDIIIATPGRLND-LQMNNVINLKSITYLVLDEADRMLDMG---FEPQIRKILLDIRPDRQTIMTSATWPDG 181


                ....
gi 34189925  86 LREL 89
Cdd:cd17958 182 VRRL 185
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 16-204 3.60e-14

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 71.16  E-value: 3.60e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   16 VVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPA--RRQTLLFSATLTDTLRELQGLA 93
Cdd:PRK04837 136 ILIGTTGRLIDYAKQ-NHINLGAIQVVVLDEADRMFDLG---FIKDIRWLFRRMPPanQRLNMLFSATLSYRVRELAFEH 211

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   94 TNQPFFWEAQAPVSTVEQLdQRYLLVP---EKVkdAYLVHLIQrfqdehEDW--SIIIFTNTCKTCQILCMMLRKFSFPT 168
Cdd:PRK04837 212 MNNPEYVEVEPEQKTGHRI-KEELFYPsneEKM--RLLQTLIE------EEWpdRAIIFANTKHRCEEIWGHLAADGHRV 282

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 34189925  169 VALHSMMKQKERFAALAKFKSSIYRILIATDVASRG 204
Cdd:PRK04837 283 GLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARG 318
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 6-89 1.07e-13

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: 68.12  E-value: 1.07e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVP--------------- 70
Cdd:cd17945 109 QAFSLRNGCEILIATPGRLLDCL-ERRLLVLNQCTYVVLDEADRMIDMG---FEPQVTKILDAMPvsnkkpdteeaekla 184

                        90       100
                ....*....|....*....|....
gi 34189925  71 -----ARRQTLLFSATLTDTLREL 89
Cdd:cd17945 185 asgkhRYRQTMMFTATMPPAVEKI 208
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 2-93 2.43e-13

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: 67.37  E-value: 2.43e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   2 DMVAQALELSRKPHVVIATPGRLADHLRSSNtFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILA--AVPAR--RQTLL 77
Cdd:cd18051 144 DIGQQMRDLERGCHLLVATPGRLVDMLERGK-IGLDYCKYLVLDEADRMLDMG---FEPQIRRIVEqdTMPPTgeRQTLM 219

                        90
                ....*....|....*.
gi 34189925  78 FSATLTdtlRELQGLA 93
Cdd:cd18051 220 FSATFP---KEIQMLA 232
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 6-89 3.29e-13

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: 66.28  E-value: 3.29e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLRSSNTfSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:cd17952 106 QAKALQEGAEIVVATPGRLIDMVKKKAT-NLQRVTYLVLDEADRMFDMG---FEYQVRSIVGHVRPDRQTLLFSATFKKK 181


                ....
gi 34189925  86 LREL 89
Cdd:cd17952 182 IEQL 185
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 15-89 8.03e-13

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: 65.29  E-value: 8.03e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 34189925  15 HVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctDFTVDLEAILAAVPARRQTLLFSATLTDTLREL 89
Cdd:cd17963 113 QIVIGTPGTVLDWLKK-RQLDLKKIKILVLDEADVMLDTQ--GHGDQSIRIKRMLPRNCQILLFSATFPDSVRKF 184
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 6-89 2.00e-12

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: 64.71  E-value: 2.00e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLRSSN--TFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLT 83
Cdd:cd17953 128 QIAELKRGAEIVVCTPGRMIDILTANNgrVTNLRRVTYVVLDEADRMFDMG---FEPQIMKIVNNIRPDRQTVLFSATFP 204


                ....*.
gi 34189925  84 DTLREL 89
Cdd:cd17953 205 RKVEAL 210
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 5-82 4.73e-12

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: 63.11  E-value: 4.73e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   5 AQALELSRKPHVVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFtvdLEAILAAVPA------RRQTLLF 78
Cdd:cd17938 105 EQLKRLESGVDIVVGTPGRLED-LIKTGKLDLSSVRFFVLDEADRLLSQGNLET---INRIYNRIPKitsdgkRLQVIVC 180


                ....
gi 34189925  79 SATL 82
Cdd:cd17938 181 SATL 184
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 6-89 7.46e-12

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: 63.10  E-value: 7.46e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLRSSNTfSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:cd18049 140 QIRDLERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMG---FEPQIRKIVDQIRPDRQTLMWSATWPKE 215


                ....
gi 34189925  86 LREL 89
Cdd:cd18049 216 VRQL 219
HELICc smart00490
helicase superfamily c-terminal domain;
155-206 1.22e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 59.15  E-value: 1.22e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 34189925    155 QILCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLD 52
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 5-89 2.36e-11

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: 61.07  E-value: 2.36e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   5 AQALELSRKPHVVIATPGRLADHLRSsNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARR-QTLLFSATLT 83
Cdd:cd17957 103 KDGPKSITKYDILVSTPLRLVFLLKQ-GPIDLSSVEYLVLDEADKLFEPG---FREQTDEILAACTNPNlQRSLFSATIP 178


                ....*.
gi 34189925  84 DTLREL 89
Cdd:cd17957 179 SEVEEL 184
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 6-89 3.70e-11

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: 61.57  E-value: 3.70e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   6 QALELSRKPHVVIATPGRLADHLRSSNTfSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDT 85
Cdd:cd18050 178 QIRDLERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMG---FEPQIRKIVDQIRPDRQTLMWSATWPKE 253


                ....
gi 34189925  86 LREL 89
Cdd:cd18050 254 VRQL 257
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
15-210 1.50e-09

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 57.73  E-value: 1.50e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  15 HVVIATPGRLADHLRSSNTFsiKKIRFLVMDEADRLLEQGctdftvdLEAILAAVPARRqTLLFSATL--TDTLRELQGL 92
Cdd:COG1061 166 PITVATYQSLARRAHLDELG--DRFGLVIIDEAHHAGAPS-------YRRILEAFPAAY-RLGLTATPfrSDGREILLFL 235

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  93 ATNQPF---FWEAQ-----APVSTVEQLD------QRYLLVPEKVKDAYL------VHLIQRFQDEH-EDWSIIIFTNTC 151
Cdd:COG1061 236 FDGIVYeysLKEAIedgylAPPEYYGIRVdltderAEYDALSERLREALAadaerkDKILRELLREHpDDRKTLVFCSSV 315

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 34189925 152 KTCQILCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGADQPPL 210
Cdd:COG1061 316 DHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRL 374
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 1-91 3.62e-09

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: 54.86  E-value: 3.62e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   1 MDMVAQALELSRKPHVVIATPGRLADHLRSSnTFSIKKIRFLVMDEADRLLEQGCTDFTVDleaILAAVPARRQTLLFSA 80
Cdd:cd17962  97 LPLPPQLYRLQQGVKVIIATPGRLLDILKQS-SVELDNIKIVVVDEADTMLKMGFQQQVLD---ILENISHDHQTILVSA 172

                        90
                ....*....|.
gi 34189925  81 TLTDTLRELQG 91
Cdd:cd17962 173 TIPRGIEQLAG 183
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 10-82 5.93e-09

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: 54.37  E-value: 5.93e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 34189925  10 LSRKPHVVIATPGRLADHLrSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATL 82
Cdd:cd18046 114 LQAGPHIVVGTPGRVFDMI-NRRYLRTDYIKMFVLDEADEMLSRG---FKDQIYDIFQKLPPDTQVVLLSATM 182
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
124-208 1.33e-07

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.04  E-value: 1.33e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925 124 KDAYLVHLIQRFQDEHEDWSIIIFTNTCKTCQILCMMLRKFSFPTVAL--------HSMMKQKERFAALAKFKSSIYRIL 195
Cdd:COG1111 336 KLSKLREILKEQLGTNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFvgqaskegDKGLTQKEQIEILERFRAGEFNVL 415

                        90
                ....*....|...
gi 34189925 196 IATDVASRGADQP 208
Cdd:COG1111 416 VATSVAEEGLDIP 428
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 4-206 1.47e-07

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 51.71  E-value: 1.47e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925    4 VAQALELsrkphvVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPaRRQTLLFSATLT 83
Cdd:PLN00206 243 IQQGVEL------IVGTPGRLID-LLSKHDIELDNVSVLVLDEVDCMLERG---FRDQVMQIFQALS-QPQVLLFSATVS 311

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925   84 DTLRELQGLATNQPFFWEAQAPVSTVEQLDQRYLLVPEKVKDAYLVHLIQRFQdeHEDWSIIIFTNTCKTCQILCMMLRK 163
Cdd:PLN00206 312 PEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQKLFDILKSKQ--HFKPPAVVFVSSRLGADLLANAITV 389

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 34189925  164 FS-FPTVALHSMMKQKERFAALAKFKSSIYRILIATDVASRGAD 206
Cdd:PLN00206 390 VTgLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVD 433
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 15-86 5.49e-07

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: 49.25  E-value: 5.49e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 34189925  15 HVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLE-QGCTDFTVDLEailAAVPARRQTLLFSATLTDTL 86
Cdd:cd18048 138 QIVIGTPGTVLDWCFKLRLIDVTNISVFVLDEADVMINvQGHSDHSVRVK---RSMPKECQMLLFSATFEDSV 207
PRK13766 PRK13766
Hef nuclease; Provisional
 121-208 8.19e-07

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 49.49  E-value: 8.19e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  121 EKVKDaylvhLIQRFQDEHEDWSIIIFTNTCKTCQILCMMLRKFSFPTVAL--------HSMMKQKERFAALAKFKSSIY 192
Cdd:PRK13766 350 EKLRE-----IVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFvgqaskdgDKGMSQKEQIEILDKFRAGEF 424

                         90
                 ....*....|....*.
gi 34189925  193 RILIATDVASRGADQP 208
Cdd:PRK13766 425 NVLVSTSVAEEGLDIP 440
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 16-81 1.21e-06

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: 47.92  E-value: 1.21e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 34189925  16 VVIATPGRLADHLRsSNTFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARR-----QTLLFSAT 81
Cdd:cd17944 115 ILVGTPGRIKDHLQ-NGRLDLTKLKHVVLDEVDQMLDMG---FAEQVEEILSVSYKKDsednpQTLLFSAT 181
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 15-97 2.82e-06

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: 46.69  E-value: 2.82e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  15 HVVIATPGRLADHLRSSNtFSIKKIRFLVMDEADRLLEQGctdFTVDLEAILAAVPARRQTLLFSATLTDTLRELQGLAT 94
Cdd:cd18045 119 HIVSGTPGRVFDMIRRRS-LRTRHIKMLVLDEADEMLNKG---FKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFM 194


                ...
gi 34189925  95 NQP 97
Cdd:cd18045 195 TDP 197
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 16-89 6.18e-06

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: 46.22  E-value: 6.18e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 34189925  16 VVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQgctDFTVDLEAILAAVPARRQTLLFSAT----LTDTLREL 89
Cdd:cd17965 164 ILVTTPGKLAS-LAKSRPKILSRVTHLVVDEADTLFDR---SFLQDTTSIIKRAPKLKHLILCSATipkeFDKTLRKL 237
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 128-204 1.15e-05

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: 44.00  E-value: 1.15e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 34189925 128 LVHLIQRFQDEHEdwSIIIFTNTCKTCQILCMMLRKFSFPTVALHSMMKQKERFAALAKFK--SSIYRILIATDVASRG 204
Cdd:cd18793  16 LLELLEELREPGE--KVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNedPDIRVFLLSTKAGGVG 92
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 13-86 3.16e-05

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: 43.56  E-value: 3.16e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 34189925  13 KPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLL-EQGCTDFTVDLEAILaavPARRQTLLFSATLTDTL 86
Cdd:cd18047 119 SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIaTQGHQDQSIRIQRML---PRNCQMLLFSATFEDSV 190
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 12-81 3.85e-05

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: 42.39  E-value: 3.85e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  12 RKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGcTDFTVDLEAILAAVPARRQTLLFSAT 81
Cdd:cd00046  78 GDADIIIATPDMLLNLLLREDRLFLKDLKLIIVDEAHALLIDS-RGALILDLAVRKAGLKNAQVILLSAT 146
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 12-95 3.52e-04

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: 40.81  E-value: 3.52e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925  12 RKPH-----VVIATPGRLADhLRSSNTFSIKKIRFLVMDEADRLLEQgctDFTVDLEAILAAVP-------------ARR 73
Cdd:cd17948 109 RNPHfeevdILVATPGALSK-LLTSRIYSLEQLRHLVLDEADTLLDD---SFNEKLSHFLRRFPlasrrsentdgldPGT 184

                        90       100
                ....*....|....*....|..
gi 34189925  74 QTLLFSATLTDTLRELQGLATN 95
Cdd:cd17948 185 QLVLVSATMPSGVGEVLSKVID 206
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 113-201 1.45e-03

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: 37.96  E-value: 1.45e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925 113 DQRYLLVPEKVKDAYLVHLIQRFQDEHEDWSIIIFTNTCKTCQILCMMLRKFSFPTVALHSMMKQKERFAALAKFKSSIY 192
Cdd:cd18794   2 PNLFYSVRPKDKKDEKLDLLKRIKVEHLGGSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLRDKI 81


                ....*....
gi 34189925 193 RILIATdVA 201
Cdd:cd18794  82 QVIVAT-VA 89
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 9-84 1.61e-03

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 38.40  E-value: 1.61e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 34189925   9 ELSRKPHVVIATPGRLADHLRSSNTFSIKKIRFLVMDEAdRLLEQGctDFTVDLEAILAAVPAR---RQTLLFSATLTD 84
Cdd:cd17921  89 LLLAEADILVATPEKLDLLLRNGGERLIQDVRLVVVDEA-HLIGDG--ERGVVLELLLSRLLRInknARFVGLSATLPN 164
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 131-208 1.83e-03

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: 37.72  E-value: 1.83e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925 131 LIQRFQDEHE--DWSIIIFTNTCKTCQILCMMLRKFSfPTVALH-----------SMMKQKERFAALAKFKSSIYRILIA 197
Cdd:cd18801  18 VKEHFKKKQEgsDTRVIIFSEFRDSAEEIVNFLSKIR-PGIRATrfigqasgkssKGMSQKEQKEVIEQFRKGGYNVLVA 96

                        90
                ....*....|.
gi 34189925 198 TDVASRGADQP 208
Cdd:cd18801  97 TSIGEEGLDIG 107
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 115-208 2.85e-03

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: 37.19  E-value: 2.85e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34189925 115 RYLLVPEKVKDayLVHLIQRFQDEHEDWSIIIFTNTCKTCQILCMML----RKFSFPTVAL-----------HSMMKQKE 179
Cdd:cd18802   1 EEIVVIPKLQK--LIEILREYFPKTPDFRGIIFVERRATAVVLSRLLkehpSTLAFIRCGFligrgnssqrkRSLMTQRK 78

                        90       100
                ....*....|....*....|....*....
gi 34189925 180 RFAALAKFKSSIYRILIATDVASRGADQP 208
Cdd:cd18802  79 QKETLDKFRDGELNLLIATSVLEEGIDVP 107
 
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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