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Conserved domains on  [gi|6683747|gb|AAF23354|]
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hqp0256 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];
3-272 6.98e-81

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: 249.68  E-value: 6.98e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:COG0513 114 QIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRK 192

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   83 LQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFK-------------------------------------------- 118
Cdd:COG0513 193 LAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKlellrrllrdedperaivfcntkrgadrlaeklqkrgisaaalh 272

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747  119 -----SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVEL 193
Cdd:COG0513 273 gdlsqGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRL 352

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747  194 FQRIEHLIGKKLPgfptqddEVMMLTERVAEAQRFARMElrehGEKKKRSREDAGDNDDTEGAIGVRNKvAGGKMKKRK 272
Cdd:COG0513 353 LRAIEKLIGQKIE-------EEELPGFEPVEEKRLERLK----PKIKEKLKGKKAGRGGRPGPKGERKA-RRGKRRRRK 419
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
3-272 6.98e-81

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 249.68  E-value: 6.98e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:COG0513 114 QIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRK 192

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   83 LQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFK-------------------------------------------- 118
Cdd:COG0513 193 LAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKlellrrllrdedperaivfcntkrgadrlaeklqkrgisaaalh 272

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747  119 -----SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVEL 193
Cdd:COG0513 273 gdlsqGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRL 352

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747  194 FQRIEHLIGKKLPgfptqddEVMMLTERVAEAQRFARMElrehGEKKKRSREDAGDNDDTEGAIGVRNKvAGGKMKKRK 272
Cdd:COG0513 353 LRAIEKLIGQKIE-------EEELPGFEPVEEKRLERLK----PKIKEKLKGKKAGRGGRPGPKGERKA-RRGKRRRRK 419
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 1-95 3.55e-70

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: 214.87  E-value: 3.55e-70
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    1 MSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKV 80
Cdd:cd17954 109 MAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKV 188

                        90
                ....*....|....*
gi 6683747   81 QKLQRAALKNPVKCA 95
Cdd:cd17954 189 AKLQRASLKNPVKIE 203
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 3-205 8.30e-47

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 162.28  E-value: 8.30e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     3 QSLALAKKPHIIIATPGRLIDHLEntKG-FNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:PRK11776 116 QIDSLEHGAHIIVGTPGRILDHLR--KGtLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIA 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    82 KLQRAALKNPVKCAVSSKYQTvEKLQQYYIFIPSKFKSKRLGSL-------------N---------------------- 126
Cdd:PRK11776 194 AISQRFQRDPVEVKVESTHDL-PAIEQRFYEVSPDERLPALQRLllhhqpescvvfcNtkkecqevadalnaqgfsalal 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   127 --------------KFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVE 192
Cdd:PRK11776 273 hgdleqrdrdqvlvRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQ 352

                        250
                 ....*....|...
gi 6683747   193 LFQRIEHLIGKKL 205
Cdd:PRK11776 353 RANAIEDYLGRKL 365
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 1-83 5.96e-24

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: 94.62  E-value: 5.96e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747      1 MSQSLALAKKPHIIIATPGRLIDHLENTKgfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKV 80
Cdd:pfam00270  85 RKEQLEKLKGPDILVGTPGRLLDLLQERK--LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSATLPRNL 162


                  ...
gi 6683747     81 QKL 83
Cdd:pfam00270 163 EDL 165
DEXDc smart00487
DEAD-like helicases superfamily;
9-109 2.28e-22

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 91.78  E-value: 2.28e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747       9 KKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAAL 88
Cdd:smart00487 104 GKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFL 182

                           90       100
                   ....*....|....*....|.
gi 6683747      89 KNPVKcaVSSKYQTVEKLQQY 109
Cdd:smart00487 183 NDPVF--IDVGFTPLEPIEQF 201
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
3-272 6.98e-81

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 249.68  E-value: 6.98e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:COG0513 114 QIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRK 192

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   83 LQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFK-------------------------------------------- 118
Cdd:COG0513 193 LAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKlellrrllrdedperaivfcntkrgadrlaeklqkrgisaaalh 272

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747  119 -----SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVEL 193
Cdd:COG0513 273 gdlsqGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRL 352

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747  194 FQRIEHLIGKKLPgfptqddEVMMLTERVAEAQRFARMElrehGEKKKRSREDAGDNDDTEGAIGVRNKvAGGKMKKRK 272
Cdd:COG0513 353 LRAIEKLIGQKIE-------EEELPGFEPVEEKRLERLK----PKIKEKLKGKKAGRGGRPGPKGERKA-RRGKRRRRK 419
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 1-95 3.55e-70

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: 214.87  E-value: 3.55e-70
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    1 MSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKV 80
Cdd:cd17954 109 MAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKV 188

                        90
                ....*....|....*
gi 6683747   81 QKLQRAALKNPVKCA 95
Cdd:cd17954 189 AKLQRASLKNPVKIE 203
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 3-205 8.30e-47

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 162.28  E-value: 8.30e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     3 QSLALAKKPHIIIATPGRLIDHLEntKG-FNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:PRK11776 116 QIDSLEHGAHIIVGTPGRILDHLR--KGtLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIA 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    82 KLQRAALKNPVKCAVSSKYQTvEKLQQYYIFIPSKFKSKRLGSL-------------N---------------------- 126
Cdd:PRK11776 194 AISQRFQRDPVEVKVESTHDL-PAIEQRFYEVSPDERLPALQRLllhhqpescvvfcNtkkecqevadalnaqgfsalal 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   127 --------------KFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVE 192
Cdd:PRK11776 273 hgdleqrdrdqvlvRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQ 352

                        250
                 ....*....|...
gi 6683747   193 LFQRIEHLIGKKL 205
Cdd:PRK11776 353 RANAIEDYLGRKL 365
PTZ00110 PTZ00110
helicase; Provisional
 2-187 3.06e-45

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 159.55  E-value: 3.06e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     2 SQSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:PTZ00110 245 GQIYALRRGVEILIACPGRLIDFLESNVT-NLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQ 323

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    82 KLQRAALKN-PVKCAVSS-KYQTVEKLQQYYIFIPSKFKSKRLGS----------------------------------- 124
Cdd:PTZ00110 324 SLARDLCKEePVHVNVGSlDLTACHNIKQEVFVVEEHEKRGKLKMllqrimrdgdkilifvetkkgadfltkelrldgwp 403

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747   125 ----------------LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVT 187
Cdd:PTZ00110 404 alcihgdkkqeertwvLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLT 482
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 1-265 6.43e-41

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 146.24  E-value: 6.43e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     1 MSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVIpRDRK-TFLFSATMT-K 78
Cdd:PRK11192 114 MNHAEVFSENQDIVVATPGRLLQYIKEEN-FDCRAVETLILDEADRMLDMGFAQDIETIAAET-RWRKqTLLFSATLEgD 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    79 KVQKLQRAALKNPVKCAVSSKYQTVEKLQQYY--------------------------IF------------------IP 114
Cdd:PRK11192 192 AVQDFAERLLNDPVEVEAEPSRRERKKIHQWYyraddlehktallchllkqpevtrsiVFvrtrervhelagwlrkagIN 271

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   115 SKF------KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQ 188
Cdd:PRK11192 272 CCYlegemvQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLVEA 351

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   189 YDVELFQRIEHLIGKKL-PGF-----PTQDDEVMMLTERVAEAQRFARMELREHGEKKKRSREDAGDNDdtegAIGVRNK 262
Cdd:PRK11192 352 HDHLLLGKIERYIEEPLkARVidelrPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTK----NIGKRRK 427


                 ...
gi 6683747   263 VAG 265
Cdd:PRK11192 428 PSG 430
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 3-206 5.99e-40

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 146.53  E-value: 5.99e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     3 QSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:PRK11634 118 QLRALRQGPQIVVGTPGRLLDHLKRGT-LDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRR 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    83 LQRAALKNPVKCAVSSKYQTVEKLQQYY-------------------------IFIPSK--------------FKSKRLG 123
Cdd:PRK11634 197 ITRRFMKEPQEVRIQSSVTTRPDISQSYwtvwgmrknealvrfleaedfdaaiIFVRTKnatlevaealerngYNSAALN 276

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   124 ----------SLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVEL 193
Cdd:PRK11634 277 gdmnqalreqTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRERRL 356

                        250
                 ....*....|...
gi 6683747   194 FQRIEHLIGKKLP 206
Cdd:PRK11634 357 LRNIERTMKLTIP 369
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 3-93 8.45e-39

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: 134.49  E-value: 8.45e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:cd00268 105 QIEALKKGPDIVVGTPGRLLDLIERGK-LDLSNVKYLVLDEADRMLDMGFEEDVEKILSALPKDRQTLLFSATLPEEVKE 183

                        90
                ....*....|.
gi 6683747   83 LQRAALKNPVK 93
Cdd:cd00268 184 LAKKFLKNPVR 194
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 2-93 9.64e-38

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: 131.61  E-value: 9.64e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    2 SQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:cd17947 103 AQEAALRARPDIVIATPGRLIDHLRNSPSFDLDSIEILVLDEADRMLEEGFADELKEILRLCPRTRQTMLFSATMTDEVK 182

                        90
                ....*....|..
gi 6683747   82 KLQRAALKNPVK 93
Cdd:cd17947 183 DLAKLSLNKPVR 194
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 119-186 3.65e-36

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: 125.31  E-value: 3.65e-36
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6683747  119 SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV 186
Cdd:cd18787  64 EERERALKKFRSGKVRVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 3-274 1.34e-35

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 133.92  E-value: 1.34e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     3 QSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPR--DRKTFLFSATMTKKV 80
Cdd:PRK04537 127 QRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPErgTRQTLLFSATLSHRV 206

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    81 QKLQRAALKNPVKCAVSSKYQTVEKLQQ--YY-----------------------IFIPSKF------------------ 117
Cdd:PRK04537 207 LELAYEHMNEPEKLVVETETITAARVRQriYFpadeekqtlllgllsrsegartmVFVNTKAfvervartlerhgyrvgv 286

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   118 ------KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDV 191
Cdd:PRK04537 287 lsgdvpQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFACERYA 366

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   192 ELFQRIEHLIGKKLPGFPTQDDEVMML--TERVAEAQRFARMELREH-GEKKKRSREDAGDNDDTEGaiGVRNKVAGGKM 268
Cdd:PRK04537 367 MSLPDIEAYIEQKIPVEPVTAELLTPLprPPRVPVEGEEADDEAGDSvGTIFREAREQRAAEEQRRG--GGRSGPGGGSR 444


                 ....*.
gi 6683747   269 KKRKGR 274
Cdd:PRK04537 445 SGSVGG 450
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 1-95 8.70e-35

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: 124.26  E-value: 8.70e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    1 MSQSLALAKKPHIIIATPGRLIDHLENTKG--FNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTK 78
Cdd:cd17955 108 VKQALELSKRPHIVVATPGRLADHLRSSDDttKVLSRVKFLVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTD 187

                        90
                ....*....|....*..
gi 6683747   79 KVQKLQRAALKNPVKCA 95
Cdd:cd17955 188 ALKALKELFGNKPFFWE 204
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 13-205 1.69e-34

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 129.65  E-value: 1.69e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    13 IIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPR--DRKTFLFSATMTKKVQKLQRAALKN 90
Cdd:PRK01297 216 ILVATPGRLLDFNQR-GEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTD 294

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    91 PVKCAVSSKYQTVEKLQQ--YYIFIPSKFK-----------------------------------------------SKR 121
Cdd:PRK01297 295 PAIVEIEPENVASDTVEQhvYAVAGSDKYKllynlvtqnpwervmvfanrkdevrrieerlvkdginaaqlsgdvpqHKR 374

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   122 LGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLI 201
Cdd:PRK01297 375 IKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELL 454


                 ....
gi 6683747   202 GKKL 205
Cdd:PRK01297 455 GRKI 458
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 13-206 7.87e-34

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 127.62  E-value: 7.87e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    13 IIIATPGRLIDhLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 92
Cdd:PRK10590 128 VLVATPGRLLD-LEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPL 206

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    93 KCAVSSKYQTVEKLQQYYIFIPSKFKSKRLG--------------------------SLNK------------------- 127
Cdd:PRK10590 207 EIEVARRNTASEQVTQHVHFVDKKRKRELLSqmigkgnwqqvlvftrtkhganhlaeQLNKdgirsaaihgnksqgartr 286

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   128 ----FKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGK 203
Cdd:PRK10590 287 aladFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKK 366


                 ...
gi 6683747   204 KLP 206
Cdd:PRK10590 367 EIP 369
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 7-91 9.98e-33

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: 118.62  E-value: 9.98e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRA 86
Cdd:cd17942 109 LGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQIIKLLPKRRQTMLFSATQTRKVEDLARI 188


                ....*
gi 6683747   87 ALKNP 91
Cdd:cd17942 189 SLKKK 193
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 2-206 9.06e-32

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 121.23  E-value: 9.06e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     2 SQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIP--RDRKTFLFSATMTKK 79
Cdd:PRK04837 125 KQLKVLESGVDILIGTTGRLIDYAKQ-NHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYR 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    80 VQKLQRAALKNPVKCAVSSKYQTVEKLQQYyIFIPS---KFK-------------------------------------- 118
Cdd:PRK04837 204 VRELAFEHMNNPEYVEVEPEQKTGHRIKEE-LFYPSneeKMRllqtlieeewpdraiifantkhrceeiwghlaadghrv 282

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   119 ---------SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV-TQ 188
Cdd:PRK04837 283 glltgdvaqKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAcEE 362

                        250
                 ....*....|....*...
gi 6683747   189 YDVELfQRIEHLIGKKLP 206
Cdd:PRK04837 363 YALNL-PAIETYIGHSIP 379
PTZ00424 PTZ00424
helicase 45; Provisional
 12-198 9.58e-30

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 115.69  E-value: 9.58e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    12 HIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNP 91
Cdd:PTZ00424 148 HMVVGTPGRVYDMIDK-RHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDP 226

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    92 VKCAVSSKYQTVEKLQQYYIFIPS---KFKS--------------------KRLGSLNK--------------------- 127
Cdd:PTZ00424 227 KRILVKKDELTLEGIRQFYVAVEKeewKFDTlcdlyetltitqaiiycntrRKVDYLTKkmherdftvscmhgdmdqkdr 306

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6683747   128 ------FKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIE 198
Cdd:PTZ00424 307 dlimreFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIE 383
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 13-92 1.59e-29

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: 110.46  E-value: 1.59e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   13 IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 92
Cdd:cd17941 114 ILVCTPGRLLQHMDETPGFDTSNLQMLVLDEADRILDMGFKETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPE 193
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 7-93 4.79e-29

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: 109.20  E-value: 4.79e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHLENTKG-FNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 85
Cdd:cd17960 113 KRNGPNILVGTPGRLEELLSRKADkVKVKSLEVLVLDEADRLLDLGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIK 192


                ....*...
gi 6683747   86 AALKNPVK 93
Cdd:cd17960 193 AGLRNPVR 200
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 11-89 2.74e-27

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: 104.97  E-value: 2.74e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   11 PHIIIATPGRLIDHLENTKGFN-LRALKYLVMDEADRILNMDFETEVDKILKVIP----RDRKTFLFSATMTKKVQKLQR 85
Cdd:cd17964 121 PDILVATPGRLIDHLENPGVAKaFTDLDYLVLDEADRLLDMGFRPDLEQILRHLPeknaDPRQTLLFSATVPDEVQQIAR 200


                ....
gi 6683747   86 AALK 89
Cdd:cd17964 201 LTLK 204
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 3-93 6.73e-27

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: 103.60  E-value: 6.73e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:cd17966 106 QIRDLRRGVEICIATPGRLIDFLDQGKT-NLRRVTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRR 184

                        90
                ....*....|.
gi 6683747   83 LQRAALKNPVK 93
Cdd:cd17966 185 LAEDFLKDYIQ 195
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 2-92 1.01e-25

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: 100.49  E-value: 1.01e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    2 SQSLALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:cd17951 114 EQLEVIRKGVHIVVATPGRLMDML-NKKKINLDICRYLCLDEADRMIDMGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQ 192

                        90
                ....*....|.
gi 6683747   82 KLQRAALKNPV 92
Cdd:cd17951 193 NFAKSALVKPV 203
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 13-92 1.33e-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: 1.33e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   13 IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVI-------------PRDRKTFLFSATMTKK 79
Cdd:cd17949 119 ILIATPGRLLDHLKNTQSFDVSNLRWLVLDEADRLLDMGFEKDITKILELLddkrskaggekskPSRRQTVLVSATLTDG 198

                        90
                ....*....|...
gi 6683747   80 VQKLQRAALKNPV 92
Cdd:cd17949 199 VKRLAGLSLKDPV 211
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 3-92 7.09e-25

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: 98.55  E-value: 7.09e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIP------------------ 64
Cdd:cd17945 109 QAFSLRNGCEILIATPGRLLDCLER-RLLVLNQCTYVVLDEADRMIDMGFEPQVTKILDAMPvsnkkpdteeaeklaasg 187

                        90       100       110
                ....*....|....*....|....*....|
gi 6683747   65 --RDRKTFLFSATMTKKVQKLQRAALKNPV 92
Cdd:cd17945 188 khRYRQTMMFTATMPPAVEKIAKGYLRRPV 217
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 4-91 1.57e-24

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: 98.09  E-value: 1.57e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    4 SLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKT-------------- 69
Cdd:cd17956 120 SGRYLSRVDILVATPGRLVDHLNSTPGFTLKHLRFLVIDEADRLLNQSFQDWLETVMKALGRPTAPdlgsfgdanllers 199

                        90       100
                ....*....|....*....|....*...
gi 6683747   70 ------FLFSATMTKKVQKLQRAALKNP 91
Cdd:cd17956 200 vrplqkLLFSATLTRDPEKLSSLKLHRP 227
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 3-93 2.04e-24

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: 97.10  E-value: 2.04e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDHLEnTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:cd17952 106 QAKALQEGAEIVVATPGRLIDMVK-KKATNLQRVTYLVLDEADRMFDMGFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQ 184

                        90
                ....*....|.
gi 6683747   83 LQRAALKNPVK 93
Cdd:cd17952 185 LARDILSDPIR 195
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 2-92 2.40e-24

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: 96.88  E-value: 2.40e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    2 SQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQ 81
Cdd:cd17961 112 VQRALLAEKPDIVVSTPARLLSHLESGSLLLLSTLKYLVIDEADLVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVE 191

                        90
                ....*....|.
gi 6683747   82 KLQRAALKNPV 92
Cdd:cd17961 192 ALKKLVLHNPA 202
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 6-94 2.98e-24

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: 96.60  E-value: 2.98e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    6 ALAKKPHIIIATPGRLIDHLENTkGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 85
Cdd:cd17959 117 ALASNPDIIIATPGRLLHLLVEM-NLKLSSVEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAK 195


                ....*....
gi 6683747   86 AALKNPVKC 94
Cdd:cd17959 196 AGLNEPVLI 204
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 1-90 4.39e-24

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: 96.79  E-value: 4.39e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    1 MSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILK----VIPRDRKTFLFSATM 76
Cdd:cd17967 119 VHQQLQLLRGCDILVATPGRLVDFIERGR-ISLSSIKFLVLDEADRMLDMGFEPQIRKIVEhpdmPPKGERQTLMFSATF 197

                        90
                ....*....|....
gi 6683747   77 TKKVQKLQRAALKN 90
Cdd:cd17967 198 PREIQRLAADFLKN 211
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 1-83 5.96e-24

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: 94.62  E-value: 5.96e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747      1 MSQSLALAKKPHIIIATPGRLIDHLENTKgfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKV 80
Cdd:pfam00270  85 RKEQLEKLKGPDILVGTPGRLLDLLQERK--LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSATLPRNL 162


                  ...
gi 6683747     81 QKL 83
Cdd:pfam00270 163 EDL 165
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 7-94 5.20e-23

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: 93.98  E-value: 5.20e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHL--ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQ 84
Cdd:cd17953 132 LKRGAEIVVCTPGRMIDILtaNNGRVTNLRRVTYVVLDEADRMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALA 211

                        90
                ....*....|
gi 6683747   85 RAALKNPVKC 94
Cdd:cd17953 212 RKVLHKPIEI 221
DEXDc smart00487
DEAD-like helicases superfamily;
9-109 2.28e-22

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 91.78  E-value: 2.28e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747       9 KKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAAL 88
Cdd:smart00487 104 GKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFL 182

                           90       100
                   ....*....|....*....|.
gi 6683747      89 KNPVKcaVSSKYQTVEKLQQY 109
Cdd:smart00487 183 NDPVF--IDVGFTPLEPIEQF 201
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 3-92 2.50e-22

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: 91.37  E-value: 2.50e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    3 QSLALAKKPHIIIATPGRLIDhLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK 82
Cdd:cd17958 106 QIEDLSKGVDIIIATPGRLND-LQMNNVINLKSITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTIMTSATWPDGVRR 184

                        90
                ....*....|
gi 6683747   83 LQRAALKNPV 92
Cdd:cd17958 185 LAQSYLKDPM 194
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 13-195 1.08e-21

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 94.08  E-value: 1.08e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    13 IIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDrKTFLFSATMTKKVQKLQRAALKNPV 92
Cdd:PLN00206 249 LIVGTPGRLIDLL-SKHDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALSQP-QVLLFSATVSPEVEKFASSLAKDII 326

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    93 KCAVSSKYQTVEKLQQYYIFIPSKFKSKR----LGSLNKFKA-------------------------KARSI-------- 135
Cdd:PLN00206 327 LISIGNPNRPNKAVKQLAIWVETKQKKQKlfdiLKSKQHFKPpavvfvssrlgadllanaitvvtglKALSIhgeksmke 406

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6683747   136 ---------------LLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQ 195
Cdd:PLN00206 407 rrevmksflvgevpvIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFP 481
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 118-177 3.00e-20

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: 83.41  E-value: 3.00e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    118 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 177
Cdd:pfam00271  50 QEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 7-98 3.10e-19

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: 83.91  E-value: 3.10e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRA 86
Cdd:cd18049 144 LERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAED 222

                        90
                ....*....|..
gi 6683747   87 ALKNPVKCAVSS 98
Cdd:cd18049 223 FLKDYIHINIGA 234
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 12-89 4.34e-19

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: 84.25  E-value: 4.34e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKV--IPR--DRKTFLFSATMTKKVQKLQRAA 87
Cdd:cd18052 172 HILVATPGRLLDFIGRGK-ISLSKLKYLILDEADRMLDMGFGPEIRKLVSEpgMPSkeDRQTLMFSATFPEEIQRLAAEF 250


                ..
gi 6683747   88 LK 89
Cdd:cd18052 251 LK 252
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 6-93 8.12e-19

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: 81.99  E-value: 8.12e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    6 ALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 85
Cdd:cd17939 111 KLQYGPHIVVGTPGRVFDML-QRRSLRTDKIKMFVLDEADEMLSRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTK 189


                ....*...
gi 6683747   86 AALKNPVK 93
Cdd:cd17939 190 KFMRDPVR 197
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 12-96 1.87e-18

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: 82.01  E-value: 1.87e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILK--VIPR--DRKTFLFSATMTKKVQKLQRAA 87
Cdd:cd18051 157 HLLVATPGRLVDMLERGK-IGLDYCKYLVLDEADRMLDMGFEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDF 235


                ....*....
gi 6683747   88 LKNPVKCAV 96
Cdd:cd18051 236 LDNYIFLAV 244
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 7-96 5.39e-18

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: 5.39e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRA 86
Cdd:cd18050 182 LERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAED 260

                        90
                ....*....|
gi 6683747   87 ALKNPVKCAV 96
Cdd:cd18050 261 FLRDYVQINI 270
HELICc smart00490
helicase superfamily c-terminal domain;
118-177 5.75e-18

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 76.48  E-value: 5.75e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747     118 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 177
Cdd:smart00490  23 QEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 7-107 6.31e-18

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: 80.36  E-value: 6.31e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    7 LAKKPHIIIATPGRLIDHLENTKGF--NLRALKYLVMDEADRIL-NMDFEtEVDKILKVIPRD-------RKTFLFSATM 76
Cdd:cd17946 115 LKKRPEIVVATPGRLWELIQEGNEHlaNLKSLRFLVLDEADRMLeKGHFA-ELEKILELLNKDragkkrkRQTFVFSATL 193

                        90       100       110
                ....*....|....*....|....*....|.
gi 6683747   77 TKKVQklQRAALKNPVKcavSSKYQTVEKLQ 107
Cdd:cd17946 194 TLDHQ--LPLKLNSKKK---KKKKEKKQKLE 219
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 13-93 1.33e-16

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: 76.05  E-value: 1.33e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   13 IIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 92
Cdd:cd17962 112 VIIATPGRLLDIL-KQSSVELDNIKIVVVDEADTMLKMGFQQQVLDILENISHDHQTILVSATIPRGIEQLAGQLLQNPV 190


                .
gi 6683747   93 K 93
Cdd:cd17962 191 R 191
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 9-96 1.70e-16

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: 75.70  E-value: 1.70e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    9 KKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVI--PRDRKTFlFSATMTKKVQKLQRA 86
Cdd:cd17957 110 TKYDILVSTPLRLVFLLKQGP-IDLSSVEYLVLDEADKLFEPGFREQTDEILAACtnPNLQRSL-FSATIPSEVEELARS 187

                        90
                ....*....|
gi 6683747   87 ALKNPVKCAV 96
Cdd:cd17957 188 VMKDPIRIIV 197
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 12-93 5.32e-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: 74.26  E-value: 5.32e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDhLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNP 91
Cdd:cd17940 119 HVLVGTPGRILD-LAKKGVADLSHCKTLVLDEADKLLSQDFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNP 197


                ..
gi 6683747   92 VK 93
Cdd:cd17940 198 YE 199
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 9-92 4.92e-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: 71.99  E-value: 4.92e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    9 KKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRIL-NMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAA 87
Cdd:cd17950 121 KCPHIVVGTPGRILALVRE-KKLKLSHVKHFVLDECDKMLeQLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKF 199


                ....*
gi 6683747   88 LKNPV 92
Cdd:cd17950 200 MQDPL 204
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 6-93 2.15e-12

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: 64.39  E-value: 2.15e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    6 ALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 85
Cdd:cd18046 113 KLQAGPHIVVGTPGRVFDMI-NRRYLRTDYIKMFVLDEADEMLSRGFKDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTT 191


                ....*...
gi 6683747   86 AALKNPVK 93
Cdd:cd18046 192 KFMRDPIR 199
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 12-93 4.25e-12

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: 63.36  E-value: 4.25e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLEnTKGFNLRALKYLVMDEADRILNMD-FETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKN 90
Cdd:cd17963 113 QIVIGTPGTVLDWLK-KRQLDLKKIKILVLDEADVMLDTQgHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPN 191


                ...
gi 6683747   91 PVK 93
Cdd:cd17963 192 ANT 194
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 8-75 8.30e-11

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: 59.59  E-value: 8.30e-11
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6683747    8 AKKPHIIIATPGRlIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSAT 75
Cdd:cd17943 106 LKGCHIAVGTPGR-IKQLIELGALNVSHVRLFVLDEADKLMEGSFQKDVNWIFSSLPKNKQVIAFSAT 172
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 111-186 4.23e-10

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: 55.02  E-value: 4.23e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6683747  111 IFIPSKFKSKRLgslnkfkAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG-RSGKAITFV 186
Cdd:cd18785   8 VFTNSIEHAEEI-------ASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGkDEGEVILFV 77
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 12-92 7.79e-10

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: 57.33  E-value: 7.79e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVIPR-----DR-KTFLFSATM-TKKVQKLQ 84
Cdd:cd17938 115 DIVVGTPGRLEDLIKTGK-LDLSSVRFFVLDEADRLLSQGNLETINRIYNRIPKitsdgKRlQVIVCSATLhSFEVKKLA 193


                ....*...
gi 6683747   85 RAALKNPV 92
Cdd:cd17938 194 DKIMHFPT 201
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 12-93 1.33e-09

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: 56.71  E-value: 1.33e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNP 91
Cdd:cd18045 119 HIVSGTPGRVFDMIRR-RSLRTRHIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDP 197


                ..
gi 6683747   92 VK 93
Cdd:cd18045 198 IR 199
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 13-89 2.36e-09

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: 56.01  E-value: 2.36e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   13 IIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVI----PRDR-KTFLFSATMTKKVQKLQRAA 87
Cdd:cd17944 115 ILVGTPGRIKDHLQNGR-LDLTKLKHVVLDEVDQMLDMGFAEQVEEILSVSykkdSEDNpQTLLFSATCPDWVYNVAKKY 193


                ..
gi 6683747   88 LK 89
Cdd:cd17944 194 MK 195
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
120-187 1.29e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 55.51  E-value: 1.29e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747  120 KRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVT 187
Cdd:COG1111 399 EQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYEpVPSEIR-SIQRKGRTGR-KREGRVVVLIA 465
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 125-176 1.83e-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: 52.21  E-value: 1.83e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 6683747  125 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRtARA 176
Cdd:cd18802  83 LDKFRDGELNLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-ARA 133
PRK13766 PRK13766
Hef nuclease; Provisional
 125-188 1.14e-06

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 49.49  E-value: 1.14e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6683747   125 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVTQ 188
Cdd:PRK13766 416 LDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEpVPSEIR-SIQRKGRTGR-QEEGRVVVLIAK 478
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 125-183 2.62e-06

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: 46.19  E-value: 2.62e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 6683747  125 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARaGRSGKAI 183
Cdd:cd18801  83 IEQFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR-KRQGRVV 140
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 11-83 1.99e-05

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: 44.66  E-value: 1.99e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   11 PHIIIATPGrLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILK-----------VIPRDRKT--FLFSATMT 77
Cdd:cd17948 116 VDILVATPG-ALSKLLTSRIYSLEQLRHLVLDEADTLLDDSFNEKLSHFLRrfplasrrsenTDGLDPGTqlVLVSATMP 194


                ....*.
gi 6683747   78 KKVQKL 83
Cdd:cd17948 195 SGVGEV 200
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 10-91 3.60e-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: 3.60e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   10 KPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEAD-RILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAAL 88
Cdd:cd18047 119 SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADvMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVV 198


                ...
gi 6683747   89 KNP 91
Cdd:cd18047 199 PDP 201
SF2_C_priA cd18804
C-terminal helicase domain of ATP-dependent helicase PriA; PriA, also known as replication ...
 115-199 8.96e-05

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: 42.62  E-value: 8.96e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747  115 SKFKSKRLGSLNKFKAKARSILLATDVASRGLDIPHVD--VVVNFDIPTHSKDY---------IHRV-GRTARAGRSGKA 182
Cdd:cd18804 127 TRKKGALEKLLDQFERGEIDILIGTQMIAKGLDFPNVTlvGILNADSGLNSPDFraserafqlLTQVsGRAGRGDKPGKV 206

                        90
                ....*....|....*....
gi 6683747  183 I--TFVTQYDveLFQRIEH 199
Cdd:cd18804 207 IiqTYNPEHP--LIQAAKE 223
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 8-75 9.54e-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: 41.62  E-value: 9.54e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    8 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDK--ILKVIPRDRKTFLFSAT 75
Cdd:cd00046  77 LGDADIIIATPDMLLNLLLREDRLFLKDLKLIIVDEAHALLIDSRGALILDlaVRKAGLKNAQVILLSAT 146
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 12-91 1.06e-04

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: 42.70  E-value: 1.06e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   12 HIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMD-FETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKN 90
Cdd:cd18048 138 QIVIGTPGTVLDWCFKLRLIDVTNISVFVLDEADVMINVQgHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPD 217


                .
gi 6683747   91 P 91
Cdd:cd18048 218 P 218
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
125-256 1.09e-04

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 43.47  E-value: 1.09e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747  125 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDiPTHSK-DYIHRVGRTARAGRSGKA---ITFVTQyDVELFQRIEHL 200
Cdd:COG1061 348 LEAFRDGELRILVTVDVLNEGVDVPRLDVAILLR-PTGSPrEFIQRLGRGLRPAPGKEDalvYDFVGN-DVPVLEELAKD 425

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 6683747  201 IGKKLPGFPTQDDEVMMLTERVAEAQRFARMELREHGEKKKRSREDAGDNDDTEGA 256
Cdd:COG1061 426 LRDLAGYRVEFLDEEESEELALLIAVKPALEVKGELEEELLEELELLEDALLLVLA 481
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 135-252 9.15e-04

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 40.47  E-value: 9.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747   135 ILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRiehLIGKKLPGfPTQDDE 214
Cdd:PRK11057 289 IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRR---CLEEKPAG-QQQDIE 364

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 6683747   215 VMMLTER--VAEAQRFARMELREH-GEkkkrSREDAGDNDD 252
Cdd:PRK11057 365 RHKLNAMgaFAEAQTCRRLVLLNYfGE----GRQEPCGNCD 401
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 5-85 3.47e-03

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: 38.13  E-value: 3.47e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6683747    5 LALAKKPHIIIATPGrLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQ 84
Cdd:cd17965 156 LAFKGRIDILVTTPG-KLASLAKSRPKILSRVTHLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTL 234


                .
gi 6683747   85 R 85
Cdd:cd17965 235 R 235
PRK05580 PRK05580
primosome assembly protein PriA; Validated
 125-183 9.32e-03

primosome assembly protein PriA; Validated


Pssm-ID: 235514 [Multi-domain]  Cd Length: 679  Bit Score: 37.44  E-value: 9.32e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6683747   125 LNKFKAKARSILLATDVASRGLDIPHVD--VVVNFDIPTHSKDY---------IHRV-GRTARAGRSGKAI 183
Cdd:PRK05580 473 LAQFARGEADILIGTQMLAKGHDFPNVTlvGVLDADLGLFSPDFrasertfqlLTQVaGRAGRAEKPGEVL 543
 
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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