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Conserved domains on  [gi|326368226|ref|NP_001191836|]
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ATP-dependent DNA helicase Q1 isoform 3 [Mus musculus]

Protein Classification

RecQ family ATP-dependent DNA helicase( domain architecture ID 1002856)

RecQ family ATP-dependent DNA helicase may catalyze critical genome maintenance reactions and have key roles in several DNA metabolic processes

EC:  3.6.4.12
Gene Ontology:  GO:0043138|GO:0016887
PubMed:  3027506

Graphical summary

 Zoom to residue level

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List of domain hits

Name Accession Description Interval E-value
recQ_fam super family cl31019
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
81-543 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


The actual alignment was detected with superfamily member TIGR00614:

Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 725.02  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   81 DVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:TIGR00614   1 KILKKYFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  161 LNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKMFMSRLEKAYeagRLTGAAVDEVHCCSQWGHDFRPDYKALGI 240
Cdd:TIGR00614  81 LNSAQTKEQQLNVLTDL--KDGKIKLLYVTPEKISASNRLLQTLEERK---GITLIAVDEAHCISQWGHDFRPDYKALGS 155
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  241 LKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSsaeDFTEDIVKLINGRYKGQSGIIY 320
Cdd:TIGR00614 156 LKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSFDRPNLYYEVRRKTP---KILEDLLRFIRKEFEGKSGIIY 232
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  321 CFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQ 400
Cdd:TIGR00614 233 CPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQ 312
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  401 ESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQQ-----KLYEMVSYCQNVSKCRRVLIAQHFDEVWNAD-----A 470
Cdd:TIGR00614 313 ESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFrtyklKLYEMMEYCLNSSTCRRLILLSYFGEKGFNKsfcimG 392
                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226  471 CNKMCDNCCKDVSFEKKNVTQHCRDLIKILKQAEG----LNEKLTPLKLIDAWMGKGAAKLRVAGVVAPAL-PREDLE 543
Cdd:TIGR00614 393 TEKCCDNCCKRLDYKTKDVTDKVYDFGPQAQKALSavgrLNQKFGMGYPVDFLRGSNSQKIRDGGFRKHSLyGRGKDE 470
 
Name Accession Description Interval E-value
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
81-543 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 725.02  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   81 DVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:TIGR00614   1 KILKKYFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  161 LNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKMFMSRLEKAYeagRLTGAAVDEVHCCSQWGHDFRPDYKALGI 240
Cdd:TIGR00614  81 LNSAQTKEQQLNVLTDL--KDGKIKLLYVTPEKISASNRLLQTLEERK---GITLIAVDEAHCISQWGHDFRPDYKALGS 155
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  241 LKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSsaeDFTEDIVKLINGRYKGQSGIIY 320
Cdd:TIGR00614 156 LKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSFDRPNLYYEVRRKTP---KILEDLLRFIRKEFEGKSGIIY 232
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  321 CFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQ 400
Cdd:TIGR00614 233 CPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQ 312
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  401 ESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQQ-----KLYEMVSYCQNVSKCRRVLIAQHFDEVWNAD-----A 470
Cdd:TIGR00614 313 ESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFrtyklKLYEMMEYCLNSSTCRRLILLSYFGEKGFNKsfcimG 392
                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226  471 CNKMCDNCCKDVSFEKKNVTQHCRDLIKILKQAEG----LNEKLTPLKLIDAWMGKGAAKLRVAGVVAPAL-PREDLE 543
Cdd:TIGR00614 393 TEKCCDNCCKRLDYKTKDVTDKVYDFGPQAQKALSavgrLNQKFGMGYPVDFLRGSNSQKIRDGGFRKHSLyGRGKDE 470
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
78-528 6.54e-172

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 498.13  E-value: 6.54e-172
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  78 KVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGIS 157
Cdd:COG0514    4 DALEVLKRVFGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALLLPGLTLVVSPLIALMKDQVDALRAAGIR 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 158 ATMLNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKmFMSRLEKAyeagRLTGAAVDEVHCCSQWGHDFRPDYKA 237
Cdd:COG0514   84 AAFLNSSLSAEERREVLRAL--RAGELKLLYVAPERLLNPR-FLELLRRL----KISLFAIDEAHCISQWGHDFRPDYRR 156
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 238 LGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSSAEDftEDIVKLINGRyKGQSG 317
Cdd:COG0514  157 LGELRERLPNVPVLALTATATPRVRADIAEQLGLEDPRVFVGSFDRPNLRLEVVPKPPDDKL--AQLLDFLKEH-PGGSG 233
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 318 IIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMEN 397
Cdd:COG0514  234 IVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEA 313
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 398 YYQESGRAGRDDSRADCILYYGFGDIFRISSMVVMEN-------VGQQKLYEMVSYCQnVSKCRRVLIAQHFDEVwNADA 470
Cdd:COG0514  314 YYQEIGRAGRDGLPAEALLLYGPEDVAIQRFFIEQSPpdeerkrVERAKLDAMLAYAE-TTGCRRQFLLRYFGEE-LAEP 391
                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226 471 CNKmCDNCCKDVsfEKKNVTQHCRdliKILKQAEGLNEKLTPLKLIDAWMGKGAAKLR 528
Cdd:COG0514  392 CGN-CDNCLGPP--ETFDGTEAAQ---KALSCVYRTGQRFGAGHVIDVLRGSKNEKIR 443
PLN03137 PLN03137
ATP-dependent DNA helicase; Q4-like; Provisional
46-597 9.26e-151

ATP-dependent DNA helicase; Q4-like; Provisional


Pssm-ID: 215597 [Multi-domain]  Cd Length: 1195  Bit Score: 465.91  E-value: 9.26e-151
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   46 IKQYLEDSSAEASSDldtspAAWNKEDFPWFGKVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQL 125
Cdd:PLN03137  420 VPKFIDVTYTEGSND-----KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQL 494
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  126 PALCSDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKIAKSKMFMSRLE 205
Cdd:PLN03137  495 PALICPGITLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLE 574
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  206 KAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPN 285
Cdd:PLN03137  575 NLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRPN 654
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  286 LFYEVRQKPSSAedfTEDIVKLINGRYKGQSGIIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANEL 365
Cdd:PLN03137  655 LWYSVVPKTKKC---LEDIDKFIKENHFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEI 731
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  366 QVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQ-------- 437
Cdd:PLN03137  732 NIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYIRVKHMISQGGVEQspmamgyn 811
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  438 -------------QKLYEMVSYCQNVSKCRRVLIAQHFDEVWNADACNKMCDNCCKDVSFEKKNVTQHCRDLIKILKQAe 504
Cdd:PLN03137  812 rmassgriletntENLLRMVSYCENEVDCRRFLQLVHFGEKFDSTNCKKTCDNCSSSKSLIDKDVTEIARQLVELVKLT- 890
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  505 glNEKLTPLKLIDAWMGK----------------GAAKlrvagvvapALPREDLERIVAHALLQQYLKEDYSFT-AYATI 567
Cdd:PLN03137  891 --GERFSSAHILEVYRGSlnqyvkkhrhetlslhGAGK---------HLSKGEASRILHYLVTEDILAEDVKKSdLYGSV 959
                         570       580       590
                  ....*....|....*....|....*....|..
gi 326368226  568 -SYLKVG-PRACLLSNEAHAVTMQVKKSAQSS 597
Cdd:PLN03137  960 sSLLKVNeSKAYKLFSGGQTIIMRFPSSVKAS 991
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
74-282 3.20e-150

DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 432.17  E-value: 3.20e-150
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  74 PWFGKVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQ 153
Cdd:cd18015    1 PWSGKVKDTLKNVFKLEKFRPLQLETINATMAGRDVFLVMPTGGGKSLCYQLPALCSDGFTLVVSPLISLMEDQLMALKK 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 154 LGISATMLNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKIAKSKMFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRP 233
Cdd:cd18015   81 LGISATMLNASSSKEHVKWVHAALTDKNSELKLLYVTPEKIAKSKRFMSKLEKAYNAGRLARIAIDEVHCCSQWGHDFRP 160
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 326368226 234 DYKALGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFN 282
Cdd:cd18015  161 DYKKLGILKRQFPNVPILGLTATATSKVLKDVQKILCIQKCLTFTASFN 209
DpdF NF041063
protein DpdF;
114-423 1.55e-42

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 164.31  E-value: 1.55e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 114 PTGGGKSLCYQLPALCS---DGFTLVICPLISL---MEDQLM-VLKQLGISATMLNA---SSSKEhvkwVHAEMVN--KN 181
Cdd:NF041063 166 PTGSGKSLVAQAPALLAsrqGGLTLVVVPTVALaidQERRAReLLRRAGPDLGGPLAwhgGLSAE----ERAAIRQriRD 241
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 182 SQLKLIYVTPEKIAKSkmFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLMG-------LT 254
Cdd:NF041063 242 GTQRILFTSPESLTGS--LRPALFDAAEAGLLRYLVVDEAHLVDQWGDGFRPEFQLLAGLRRSLLRLAPSGrpfrtllLS 319
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 255 ATATNHVLKDVQKILCV-GKCLTFTASFNRPNLFYEVRQKPSsAEDFTEDIVKLIngRYKGQSGIIYCFSQKDSEQITIS 333
Cdd:NF041063 320 ATLTESTLDTLETLFGPpGPFIVVSAVQLRPEPAYWVAKCDS-EEERRERVLEAL--RHLPRPLILYVTKVEDAEAWLQR 396
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 334 LQKLGIH-AGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRA 412
Cdd:NF041063 397 LRAAGFRrVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEVGRGGRDGKAS 476
                        330
                 ....*....|.
gi 326368226 413 DCILYYGFGDI 423
Cdd:NF041063 477 LSLLIYTPDDL 487
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
93-268 4.62e-26

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: 104.63  E-value: 4.62e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   93 RPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPAL------CSDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSS 166
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALealdklDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  167 KEHVKWvhaEMVNKNSQLKLIYVTPEKIAKskmfMSRLEKAYEAGRLTgaAVDEVHCCSQWGhdFRPDYKAlgILKRQFP 246
Cdd:pfam00270  81 GGDSRK---EQLEKLKGPDILVGTPGRLLD----LLQERKLLKNLKLL--VLDEAHRLLDMG--FGPDLEE--ILRRLPK 147
                         170       180
                  ....*....|....*....|..
gi 326368226  247 NASLMGLTATATnhvlKDVQKI 268
Cdd:pfam00270 148 KRQILLLSATLP----RNLEDL 165
HELICc smart00490
helicase superfamily c-terminal domain;
328-408 4.85e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 90.35  E-value: 4.85e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   328 EQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80

                   .
gi 326368226   408 D 408
Cdd:smart00490  81 A 81
 
Name Accession Description Interval E-value
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
81-543 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 725.02  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   81 DVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:TIGR00614   1 KILKKYFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  161 LNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKMFMSRLEKAYeagRLTGAAVDEVHCCSQWGHDFRPDYKALGI 240
Cdd:TIGR00614  81 LNSAQTKEQQLNVLTDL--KDGKIKLLYVTPEKISASNRLLQTLEERK---GITLIAVDEAHCISQWGHDFRPDYKALGS 155
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  241 LKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSsaeDFTEDIVKLINGRYKGQSGIIY 320
Cdd:TIGR00614 156 LKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSFDRPNLYYEVRRKTP---KILEDLLRFIRKEFEGKSGIIY 232
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  321 CFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQ 400
Cdd:TIGR00614 233 CPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQ 312
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  401 ESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQQ-----KLYEMVSYCQNVSKCRRVLIAQHFDEVWNAD-----A 470
Cdd:TIGR00614 313 ESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFrtyklKLYEMMEYCLNSSTCRRLILLSYFGEKGFNKsfcimG 392
                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226  471 CNKMCDNCCKDVSFEKKNVTQHCRDLIKILKQAEG----LNEKLTPLKLIDAWMGKGAAKLRVAGVVAPAL-PREDLE 543
Cdd:TIGR00614 393 TEKCCDNCCKRLDYKTKDVTDKVYDFGPQAQKALSavgrLNQKFGMGYPVDFLRGSNSQKIRDGGFRKHSLyGRGKDE 470
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
78-528 6.54e-172

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 498.13  E-value: 6.54e-172
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  78 KVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGIS 157
Cdd:COG0514    4 DALEVLKRVFGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALLLPGLTLVVSPLIALMKDQVDALRAAGIR 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 158 ATMLNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKmFMSRLEKAyeagRLTGAAVDEVHCCSQWGHDFRPDYKA 237
Cdd:COG0514   84 AAFLNSSLSAEERREVLRAL--RAGELKLLYVAPERLLNPR-FLELLRRL----KISLFAIDEAHCISQWGHDFRPDYRR 156
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 238 LGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSSAEDftEDIVKLINGRyKGQSG 317
Cdd:COG0514  157 LGELRERLPNVPVLALTATATPRVRADIAEQLGLEDPRVFVGSFDRPNLRLEVVPKPPDDKL--AQLLDFLKEH-PGGSG 233
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 318 IIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMEN 397
Cdd:COG0514  234 IVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEA 313
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 398 YYQESGRAGRDDSRADCILYYGFGDIFRISSMVVMEN-------VGQQKLYEMVSYCQnVSKCRRVLIAQHFDEVwNADA 470
Cdd:COG0514  314 YYQEIGRAGRDGLPAEALLLYGPEDVAIQRFFIEQSPpdeerkrVERAKLDAMLAYAE-TTGCRRQFLLRYFGEE-LAEP 391
                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226 471 CNKmCDNCCKDVsfEKKNVTQHCRdliKILKQAEGLNEKLTPLKLIDAWMGKGAAKLR 528
Cdd:COG0514  392 CGN-CDNCLGPP--ETFDGTEAAQ---KALSCVYRTGQRFGAGHVIDVLRGSKNEKIR 443
PLN03137 PLN03137
ATP-dependent DNA helicase; Q4-like; Provisional
46-597 9.26e-151

ATP-dependent DNA helicase; Q4-like; Provisional


Pssm-ID: 215597 [Multi-domain]  Cd Length: 1195  Bit Score: 465.91  E-value: 9.26e-151
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   46 IKQYLEDSSAEASSDldtspAAWNKEDFPWFGKVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQL 125
Cdd:PLN03137  420 VPKFIDVTYTEGSND-----KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQL 494
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  126 PALCSDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKIAKSKMFMSRLE 205
Cdd:PLN03137  495 PALICPGITLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLE 574
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  206 KAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPN 285
Cdd:PLN03137  575 NLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRPN 654
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  286 LFYEVRQKPSSAedfTEDIVKLINGRYKGQSGIIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANEL 365
Cdd:PLN03137  655 LWYSVVPKTKKC---LEDIDKFIKENHFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEI 731
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  366 QVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQ-------- 437
Cdd:PLN03137  732 NIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYIRVKHMISQGGVEQspmamgyn 811
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  438 -------------QKLYEMVSYCQNVSKCRRVLIAQHFDEVWNADACNKMCDNCCKDVSFEKKNVTQHCRDLIKILKQAe 504
Cdd:PLN03137  812 rmassgriletntENLLRMVSYCENEVDCRRFLQLVHFGEKFDSTNCKKTCDNCSSSKSLIDKDVTEIARQLVELVKLT- 890
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  505 glNEKLTPLKLIDAWMGK----------------GAAKlrvagvvapALPREDLERIVAHALLQQYLKEDYSFT-AYATI 567
Cdd:PLN03137  891 --GERFSSAHILEVYRGSlnqyvkkhrhetlslhGAGK---------HLSKGEASRILHYLVTEDILAEDVKKSdLYGSV 959
                         570       580       590
                  ....*....|....*....|....*....|..
gi 326368226  568 -SYLKVG-PRACLLSNEAHAVTMQVKKSAQSS 597
Cdd:PLN03137  960 sSLLKVNeSKAYKLFSGGQTIIMRFPSSVKAS 991
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
74-282 3.20e-150

DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 432.17  E-value: 3.20e-150
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  74 PWFGKVKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQ 153
Cdd:cd18015    1 PWSGKVKDTLKNVFKLEKFRPLQLETINATMAGRDVFLVMPTGGGKSLCYQLPALCSDGFTLVVSPLISLMEDQLMALKK 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 154 LGISATMLNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKIAKSKMFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRP 233
Cdd:cd18015   81 LGISATMLNASSSKEHVKWVHAALTDKNSELKLLYVTPEKIAKSKRFMSKLEKAYNAGRLARIAIDEVHCCSQWGHDFRP 160
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 326368226 234 DYKALGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFN 282
Cdd:cd18015  161 DYKKLGILKRQFPNVPILGLTATATSKVLKDVQKILCIQKCLTFTASFN 209
recQ TIGR01389
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ...
80-478 3.74e-125

ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273594 [Multi-domain]  Cd Length: 591  Bit Score: 382.11  E-value: 3.74e-125
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   80 KDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISAT 159
Cdd:TIGR01389   2 QQVLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLLKGLTVVISPLISLMKDQVDQLRAAGVAAA 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  160 MLNASSSKEHVKwvHAEMVNKNSQLKLIYVTPEKIaKSKMFMSRLEkayeagRLTGA--AVDEVHCCSQWGHDFRPDYKA 237
Cdd:TIGR01389  82 YLNSTLSAKEQQ--DIEKALVNGELKLLYVAPERL-EQDYFLNMLQ------RIPIAlvAVDEAHCVSQWGHDFRPEYQR 152
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  238 LGILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEVRQKPSSAEDFTEDIVKlingrYKGQSG 317
Cdd:TIGR01389 153 LGSLAERFPQVPRIALTATADAETRQDIRELLRLADANEFITSFDRPNLRFSVVKKNNKQKFLLDYLKK-----HRGQSG 227
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  318 IIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMEN 397
Cdd:TIGR01389 228 IIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLES 307
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  398 YYQESGRAGRDDSRADCILYYGFGDI----FRISSMVVMENVGQ---QKLYEMVSYCQNVsKCRRVLIAQHFDEVWNADA 470
Cdd:TIGR01389 308 YYQEAGRAGRDGLPAEAILLYSPADIallkRRIEQSEADDDYKQierEKLRAMIAYCETQ-TCRRAYILRYFGENEVEPC 386

                  ....*...
gi 326368226  471 CNkmCDNC 478
Cdd:TIGR01389 387 GN--CDNC 392
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
80-481 1.26e-116

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 360.57  E-value: 1.26e-116
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  80 KDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISAT 159
Cdd:PRK11057  14 KQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLANGVAAA 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 160 MLNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAKSKmFMSRLEKAyeagRLTGAAVDEVHCCSQWGHDFRPDYKALG 239
Cdd:PRK11057  94 CLNSTQTREQQLEVMAGC--RTGQIKLLYIAPERLMMDN-FLEHLAHW----NPALLAVDEAHCISQWGHDFRPEYAALG 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 240 ILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFNRPNLFYEV--RQKPssaedfTEDIVKLINGRyKGQSG 317
Cdd:PRK11057 167 QLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYTLveKFKP------LDQLMRYVQEQ-RGKSG 239
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 318 IIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMEN 397
Cdd:PRK11057 240 IIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIES 319
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 398 YYQESGRAGRDDSRADCILYYGFGDIFRISSMVVMENVGQQ------KLYEMVSYCQnVSKCRRVLIAQHFDEvwnadAC 471
Cdd:PRK11057 320 YYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEEKPAGQQqdierhKLNAMGAFAE-AQTCRRLVLLNYFGE-----GR 393
                        410
                 ....*....|..
gi 326368226 472 NKMCDNC--CKD 481
Cdd:PRK11057 394 QEPCGNCdiCLD 405
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
80-282 1.93e-94

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 288.66  E-value: 1.93e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  80 KDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISAT 159
Cdd:cd17920    1 EQILKEVFGYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLPALLLDGVTLVVSPLISLMQDQVDRLQQLGIRAA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 160 MLNASSSKEHVKWVHAEMvnKNSQLKLIYVTPEKIAkSKMFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALG 239
Cdd:cd17920   81 ALNSTLSPEEKREVLLRI--KNGQYKLLYVTPERLL-SPDFLELLQRLPERKRLALIVVDEAHCVSQWGHDFRPDYLRLG 157
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 326368226 240 ILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFN 282
Cdd:cd17920  158 RLRRALPGVPILALTATATPEVREDILKRLGLRNPVIFRASFD 200
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
283-418 5.74e-72

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


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 227.86  E-value: 5.74e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 283 RPNLFYEVRQKPSSAEDFteDIVKLINGRYKGQSGIIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSA 362
Cdd:cd18794    1 RPNLFYSVRPKDKKDEKL--DLLKRIKVEHLGGSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLR 78
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 326368226 363 NELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRADCILYY 418
Cdd:cd18794   79 DKIQVIVATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECILFY 134
DEXHc_RecQ2_BLM cd18016
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ...
81-282 7.71e-71

DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom syndrome protein homolog or BLM) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations in RecQ2 cause Bloom syndrome.


Pssm-ID: 350774 [Multi-domain]  Cd Length: 208  Bit Score: 227.79  E-value: 7.71e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  81 DVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:cd18016    7 KIFHKKFGLHQFRTNQLEAINAALLGEDCFVLMPTGGGKSLCYQLPACVSPGVTVVISPLRSLIVDQVQKLTSLDIPATY 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 161 LNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKIAKSKMFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALGI 240
Cdd:cd18016   87 LTGDKTDAEATKIYLQLSKKDPIIKLLYVTPEKISASNRLISTLENLYERKLLARFVIDEAHCVSQWGHDFRPDYKRLNM 166
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 326368226 241 LKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFN 282
Cdd:cd18016  167 LRQKFPSVPMMALTATATPRVQKDILNQLKMLRPQVFTMSFN 208
DEXHc_RecQ3 cd18017
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ...
81-282 6.22e-54

DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ATP-dependent helicase or WRN) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Werner's syndrome.


Pssm-ID: 350775 [Multi-domain]  Cd Length: 193  Bit Score: 182.67  E-value: 6.22e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  81 DVLQNVFKLQKFRPLQLETI-NVTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISAT 159
Cdd:cd18017    2 NALNEYFGHSSFRPVQWKVIrSVLEERRDNLVVMATGYGKSLCYQYPSVLLNSLTLVISPLISLMEDQVLQLVMSNIPAC 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 160 MLNASSSKEHVKwvhaemVNKNSQLKLIYVTPEKIAKSKMFMSRLEKayeagRLTGAAVDEVHCCSQWGHDFRPDYKALG 239
Cdd:cd18017   82 FLGSAQSQNVLD------DIKMGKIRVIYVTPEFVSKGLELLQQLRN-----GITLIAIDEAHCVSQWGHDFRSSYRHLG 150
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 326368226 240 ILKRQFPNASLMGLTATATNHVLKDVQKILCVGKCLTFTASFN 282
Cdd:cd18017  151 SIRNRLPNVPIVALTATATPSVRDDIIKNLNLRNPQITCTSFD 193
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
82-269 2.81e-52

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 178.22  E-value: 2.81e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  82 VLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALC----SDGFTLVICPLISLMEDQLMVLKQLgIS 157
Cdd:cd18018    3 LLRRVFGHPSFRPGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPALLlrrrGPGLTLVVSPLIALMKDQVDALPRA-IK 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 158 ATMLNaSSSKEHVKWVHAEMVNKNsQLKLIYVTPEKIAkSKMFMSRLEkayEAGRLTGAAVDEVHCCSQWGHDFRPDYKA 237
Cdd:cd18018   82 AAALN-SSLTREERRRILEKLRAG-EVKILYVSPERLV-NESFRELLR---QTPPISLLVVDEAHCISEWSHNFRPDYLR 155
                        170       180       190
                 ....*....|....*....|....*....|...
gi 326368226 238 LGILKRQFPNA-SLMGLTATATNHVLKDVQKIL 269
Cdd:cd18018  156 LCRVLRELLGApPVLALTATATKRVVEDIASHL 188
DEXHc_RecQ5 cd18014
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ ...
80-280 8.93e-49

DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350772 [Multi-domain]  Cd Length: 205  Bit Score: 169.19  E-value: 8.93e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  80 KDVLQNVFKLQKFR-PLQLETIN-VTMARKDIFLVMPTGGGKSLCYQLPALCSDGFTLVICPLISLMEDQLMVLKQLGIS 157
Cdd:cd18014    1 RSTLKKVFGHSDFKsPLQEKATMaVVKGNKDVFVCMPTGAGKSLCYQLPALLAKGITIVISPLIALIQDQVDHLKTLKIR 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 158 ATMLNASSSKEHVKWVHAEMVNKNSQLKLIYVTPEKiAKSKMFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKA 237
Cdd:cd18014   81 VDSLNSKLSAQERKRIIADLESEKPQTKFLYITPEM-AATSSFQPLLSSLVSRNLLSYLVVDEAHCVSQWGHDFRPDYLR 159
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 326368226 238 LGILKRQFPNASLMGLTATATNHVLKDVQKILCVGK-CLTFTAS 280
Cdd:cd18014  160 LGALRSRYGHVPWVALTATATPQVQEDIFAQLRLKKpVAIFKTP 203
DpdF NF041063
protein DpdF;
114-423 1.55e-42

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 164.31  E-value: 1.55e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 114 PTGGGKSLCYQLPALCS---DGFTLVICPLISL---MEDQLM-VLKQLGISATMLNA---SSSKEhvkwVHAEMVN--KN 181
Cdd:NF041063 166 PTGSGKSLVAQAPALLAsrqGGLTLVVVPTVALaidQERRAReLLRRAGPDLGGPLAwhgGLSAE----ERAAIRQriRD 241
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 182 SQLKLIYVTPEKIAKSkmFMSRLEKAYEAGRLTGAAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLMG-------LT 254
Cdd:NF041063 242 GTQRILFTSPESLTGS--LRPALFDAAEAGLLRYLVVDEAHLVDQWGDGFRPEFQLLAGLRRSLLRLAPSGrpfrtllLS 319
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 255 ATATNHVLKDVQKILCV-GKCLTFTASFNRPNLFYEVRQKPSsAEDFTEDIVKLIngRYKGQSGIIYCFSQKDSEQITIS 333
Cdd:NF041063 320 ATLTESTLDTLETLFGPpGPFIVVSAVQLRPEPAYWVAKCDS-EEERRERVLEAL--RHLPRPLILYVTKVEDAEAWLQR 396
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 334 LQKLGIH-AGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRA 412
Cdd:NF041063 397 LRAAGFRrVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEVGRGGRDGKAS 476
                        330
                 ....*....|.
gi 326368226 413 DCILYYGFGDI 423
Cdd:NF041063 477 LSLLIYTPDDL 487
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
107-256 2.56e-27

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: 107.49  E-value: 2.56e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 107 KDIFLVMPTGGGKSLCYQLPALCSD----GFTLVICPLISLMEDQLMVLKQL---GISATMLNASSSKEHVKwvhaemVN 179
Cdd:cd00046    2 ENVLITAPTGSGKTLAALLAALLLLlkkgKKVLVLVPTKALALQTAERLRELfgpGIRVAVLVGGSSAEERE------KN 75
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 326368226 180 KNSQLKLIYVTPEKIAKSKMFMSRLEKAyeagRLTGAAVDEVHCCSQWGHDFRPDYkaLGILKRQFPNASLMGLTAT 256
Cdd:cd00046   76 KLGDADIIIATPDMLLNLLLREDRLFLK----DLKLIIVDEAHALLIDSRGALILD--LAVRKAGLKNAQVILLSAT 146
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
93-268 4.62e-26

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: 104.63  E-value: 4.62e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   93 RPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPAL------CSDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSS 166
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALealdklDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  167 KEHVKWvhaEMVNKNSQLKLIYVTPEKIAKskmfMSRLEKAYEAGRLTgaAVDEVHCCSQWGhdFRPDYKAlgILKRQFP 246
Cdd:pfam00270  81 GGDSRK---EQLEKLKGPDILVGTPGRLLD----LLQERKLLKNLKLL--VLDEAHRLLDMG--FGPDLEE--ILRRLPK 147
                         170       180
                  ....*....|....*....|..
gi 326368226  247 NASLMGLTATATnhvlKDVQKI 268
Cdd:pfam00270 148 KRQILLLSATLP----RNLEDL 165
HELICc smart00490
helicase superfamily c-terminal domain;
328-408 4.85e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 90.35  E-value: 4.85e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   328 EQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80

                   .
gi 326368226   408 D 408
Cdd:smart00490  81 A 81
DEXDc smart00487
DEAD-like helicases superfamily;
87-291 2.88e-21

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 92.17  E-value: 2.88e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226    87 FKLQKFRPLQLETINVTMAR-KDIFLVMPTGGGKSLCYQLPALC-----SDGFTLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:smart00487   4 FGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEalkrgKGGRVLVLVPTRELAEQWAEELKKLGPSLGL 83
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   161 LNASSSKEHVKWVHAEMVNKNsQLKLIYVTPEKIAksKMFMSRLEKAYEAGRLtgaAVDEVHCCSQWGhdFRPDYKalGI 240
Cdd:smart00487  84 KVVGLYGGDSKREQLRKLESG-KTDILVTTPGRLL--DLLENDKLSLSNVDLV---ILDEAHRLLDGG--FGDQLE--KL 153
                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 326368226   241 LKRQFPNASLMGLTATATNHVLKDVQKILcvgKCLTFTASFNRPNLFYEVR 291
Cdd:smart00487 154 LKLLPKNVQLLLLSATPPEEIENLLELFL---NDPVFIDVGFTPLEPIEQF 201
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
302-407 2.74e-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: 86.50  E-value: 2.74e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  302 EDIVKLINGRYKGQSgIIYCFSQKDSEqITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKP 381
Cdd:pfam00271   4 EALLELLKKERGGKV-LIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLP 81
                          90       100
                  ....*....|....*....|....*.
gi 326368226  382 DVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:pfam00271  82 DVDLVINYDLPWNPASYIQRIGRAGR 107
RecQ_Zn_bind pfam16124
RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ.
420-479 8.73e-17

RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ.


Pssm-ID: 465031 [Multi-domain]  Cd Length: 66  Bit Score: 75.02  E-value: 8.73e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 326368226  420 FGDIFRISSMVVMEN-------VGQQKLYEMVSYCQNVSKCRRVLIAQHFDEVWNADACnKMCDNCC 479
Cdd:pfam16124   1 YQDVVRLRFLIEQSEadeerkeVELQKLQAMVAYCENTTDCRRKQLLRYFGEEFDSEPC-GNCDNCL 66
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
362-418 1.01e-11

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: 60.80  E-value: 1.01e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226 362 ANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSR-ADCILYY 418
Cdd:cd18785   20 ASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKDeGEVILFV 77
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
296-407 2.25e-11

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: 61.37  E-value: 2.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 296 SAEDFTEDIVKLINGRYKGQSGIIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVAT-VAf 374
Cdd:cd18787    9 EEEEKKLLLLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRVLVATdVA- 87
                         90       100       110
                 ....*....|....*....|....*....|...
gi 326368226 375 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:cd18787   88 ARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGR 120
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
111-407 2.98e-11

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 66.20  E-value: 2.98e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 111 LVMPTGGGKSL----CYQlpALCSDGFTLVICPLISLMEdQLM--VLKQLGISATMLNASSSKEHVkwvhaemvnknsql 184
Cdd:COG1061  105 VVAPTGTGKTVlalaLAA--ELLRGKRVLVLVPRRELLE-QWAeeLRRFLGDPLAGGGKKDSDAPI-------------- 167
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 185 klIYVTPEKIAKSKMFmSRLEKAYeagrlTGAAVDEVHccsqwgHDFRPDYKAlgILKRqFPNASLMGLTATATNHVLKD 264
Cdd:COG1061  168 --TVATYQSLARRAHL-DELGDRF-----GLVIIDEAH------HAGAPSYRR--ILEA-FPAAYRLGLTATPFRSDGRE 230
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 265 VQKILCVGKCLTFTAS-------------FNRPNLFYEVRQKPSSAEDFTEDIV------------KLINGRYKGQSGII 319
Cdd:COG1061  231 ILLFLFDGIVYEYSLKeaiedgylappeyYGIRVDLTDERAEYDALSERLREALaadaerkdkilrELLREHPDDRKTLV 310
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 320 YCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYY 399
Cdd:COG1061  311 FCSSVDHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSPREFI 390

                 ....*...
gi 326368226 400 QesgRAGR 407
Cdd:COG1061  391 Q---RLGR 395
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
287-407 2.71e-09

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 59.78  E-value: 2.71e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 287 FYEVRQKpssaeDFTEDIVKLINgRYKGQSGIIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQ 366
Cdd:COG0513  220 YYLVDKR-----DKLELLRRLLR-DEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIR 293
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 326368226 367 VVVAT-VAfGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:COG0513  294 VLVATdVA-ARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGR 334
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
312-409 4.28e-09

Superfamily II helicase, archaea-specific [Replication, recombination and repair];


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 59.52  E-value: 4.28e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 312 YKGQSgIIYCFSQKDSEQITislQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRfVIHHS- 390
Cdd:COG1202  426 YRGQT-IIFTNSRRRCHEIA---RALGYKAAPYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVDFPASQ-VIFDSl 500
                         90       100
                 ....*....|....*....|...
gi 326368226 391 -MSK---SMENYYQESGRAGRDD 409
Cdd:COG1202  501 aMGIewlSVQEFHQMLGRAGRPD 523
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
304-417 6.83e-09

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


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 55.25  E-value: 6.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 304 IVKLINGRYKGQSgIIYCFSQKDSEQITISLQKLGIHagtyHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPdV 383
Cdd:cd18795   34 LLKIETVSEGKPV-LVFCSSRKECEKTAKDLAGIAFH----HAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLP-A 107
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 326368226 384 RFVIHHSMSK---------SMENYYQESGRAGRD--DSRADCILY 417
Cdd:cd18795  108 RTVIIKGTQRydgkgyrelSPLEYLQMIGRAGRPgfDTRGEAIIM 152
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
318-412 1.87e-08

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


Pssm-ID: 350184 [Multi-domain]  Cd Length: 146  Bit Score: 53.80  E-value: 1.87e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 318 IIYCFSQKDSEQITI----SLQKLGIHAGT---YHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHS 390
Cdd:cd18797   39 IVFCRSRKLAELLLRylkaRLVEEGPLASKvasYRAGYLAEDRREIEAELFNGELLGVVATNALELGIDIGGLDAVVLAG 118
                         90       100
                 ....*....|....*....|..
gi 326368226 391 MSKSMENYYQESGRAGRDDSRA 412
Cdd:cd18797  119 YPGSLASLWQQAGRAGRRGKDS 140
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
96-412 3.21e-07

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


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 53.69  E-value: 3.21e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  96 QLETINVTMARKDIFLVMPTGGGKSLCYQLPALCS-----DGFTLVICPLISLMEDQLMVLKQL------GISATMLNAS 164
Cdd:COG1205   61 QAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEAlledpGATALYLYPTKALARDQLRRLRELaealglGVRVATYDGD 140
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 165 SSKEHVKWVHaemvnKNSQlkLIYVTPEKI--------AKSKMFMSRLEkaYeagrltgAAVDEVHCcsqwghdfrpdYK 236
Cdd:COG1205  141 TPPEERRWIR-----EHPD--IVLTNPDMLhygllphhTRWARFFRNLR--Y-------VVIDEAHT-----------YR 193
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 237 -ALG-----ILKR------------QFpnaslMGLTATATN---HVLK----DVQkilCVGKC------LTFtaSFNRPN 285
Cdd:COG1205  194 gVFGshvanVLRRlrricrhygsdpQF-----ILASATIGNpaeHAERltgrPVT---VVDEDgsprgeRTF--VLWNPP 263
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 286 LFYEVRQKPSSAE--DFTEDIVKlingryKGQSGIIYCFSQKDSEQITISLQK------LGIHAGTYHANMEPEDKTKVH 357
Cdd:COG1205  264 LVDDGIRRSALAEaaRLLADLVR------EGLRTLVFTRSRRGAELLARYARRalrepdLADRVAAYRAGYLPEERREIE 337
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 326368226 358 TQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRA 412
Cdd:COG1205  338 RGLRSGELLGVVSTNALELGIDIGGLDAVVLAGYPGTRASFWQQAGRAGRRGQDS 392
PTZ00424 PTZ00424
helicase 45; Provisional
318-407 2.23e-06

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 50.21  E-value: 2.23e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 318 IIYCFSQKDSEQITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMEN 397
Cdd:PTZ00424 271 IIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPEN 350
                         90
                 ....*....|
gi 326368226 398 YYQESGRAGR 407
Cdd:PTZ00424 351 YIHRIGRSGR 360
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
96-173 1.20e-05

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 46.04  E-value: 1.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  96 QLETINVTMARKDIFLVMPTGGGKSLCYQLP---ALCSDGFT--LVICPLISLMEDQLMVLKQL------GISATMLNAS 164
Cdd:cd17923    5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPileALLRDPGSraLYLYPTKALAQDQLRSLRELleqlglGIRVATYDGD 84

                 ....*....
gi 326368226 165 SSKEHVKWV 173
Cdd:cd17923   85 TPREERRAI 93
RQC pfam09382
RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a ...
484-576 1.83e-05

RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure. The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.


Pssm-ID: 462780 [Multi-domain]  Cd Length: 108  Bit Score: 44.07  E-value: 1.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  484 FEKKNVTQHCRDLIKILKQaegLNEKLTPLKLIDAWMGKGAAKLR--------VAGVVAPaLPREDLERIVAHALLQQYL 555
Cdd:pfam09382   2 PETVDVTEEAQKILSCVYR---TGQRFGAGHLIDVLRGSKNKKIRqlghdklsTFGIGKD-LSKKEWRRIIRQLIAEGYL 77
                          90       100
                  ....*....|....*....|.
gi 326368226  556 KEDYSFTayatiSYLKVGPRA 576
Cdd:pfam09382  78 EVDIEFY-----SVLKLTPKA 93
PTZ00110 PTZ00110
helicase; Provisional
263-407 2.95e-05

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 47.08  E-value: 2.95e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 263 KDVQKI---LC--------VGKcLTFTASFN-RPNLF-YEVRQKPSSAEDFTEDIVKlingryKGQSGIIYCFSQKDSEQ 329
Cdd:PTZ00110 320 KEVQSLardLCkeepvhvnVGS-LDLTACHNiKQEVFvVEEHEKRGKLKMLLQRIMR------DGDKILIFVETKKGADF 392
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 326368226 330 ITISLQKLGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 407
Cdd:PTZ00110 393 LTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGR 470
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
345-445 3.94e-05

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It 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: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 44.26  E-value: 3.94e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 345 HANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVR-FVIHHSMSKSMENYYQESGRAGRDDSRADCILYYGfgdi 423
Cdd:cd18811   68 HGRLKSDEKDAVMAEFREGEVDILVSTTVIEVGVDVPNATvMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLLVYK---- 143
                         90       100
                 ....*....|....*....|..
gi 326368226 424 frissmVVMENVGQQKLYEMVS 445
Cdd:cd18811  144 ------DPLTETAKQRLRVMTE 159
ResIII pfam04851
Type III restriction enzyme, res subunit;
91-256 8.50e-05

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 43.43  E-value: 8.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226   91 KFRPLQLETINVTMA-----RKDIFLVMPTGGGKSLCY-QLPALCSDGF----TLVICPLISLMEDQLMVLKQLGISATM 160
Cdd:pfam04851   3 ELRPYQIEAIENLLEsikngQKRGLIVMATGSGKTLTAaKLIARLFKKGpikkVLFLVPRKDLLEQALEEFKKFLPNYVE 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  161 LNASSSKEhvkwvhaEMVNKNSQLKLIYVTPEKIAKSKMFMSRLEKAYEAGRLTgaaVDEVHccsqwgHDFRPDYKAlgi 240
Cdd:pfam04851  83 IGEIISGD-------KKDESVDDNKIVVTTIQSLYKALELASLELLPDFFDVII---IDEAH------RSGASSYRN--- 143
                         170
                  ....*....|....*.
gi 326368226  241 LKRQFPNASLMGLTAT 256
Cdd:pfam04851 144 ILEYFKPAFLLGLTAT 159
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
345-419 7.03e-04

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 40.71  E-value: 7.03e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 326368226 345 HANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPDVR-FVIHHSMSKSMENYYQESGRAGRDDSRADCILYYG 419
Cdd:cd18792   67 HGKMTEDEKEAVMLEFREGEYDILVSTTVIEVGIDVPNANtMIIEDADRFGLSQLHQLRGRVGRGKHQSYCYLLYP 142
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
338-407 1.36e-03

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


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 41.85  E-value: 1.36e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 326368226 338 GIhaGTYHANMEPEDKTKVHTQWSANELQVVVATVAFGMGIDKPdVRFVIHHSMSK----SMEN-----YYQESGRAGR 407
Cdd:COG4581  301 GI--AVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMP-ARTVVFTKLSKfdgeRHRPltareFHQIAGRAGR 376
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
92-256 2.42e-03

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 38.83  E-value: 2.42e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  92 FRPLQLETINVTMA----RKDIFlVMPTGGGKSLC-YQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISAtMLNASSS 166
Cdd:cd17926    1 LRPYQEEALEAWLAhknnRRGIL-VLPTGSGKTLTaLALIAYLKELRTLIVVPTDALLDQWKERFEDFLGDS-SIGLIGG 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 167 KEHVKWVHAEMVNKNSQ-LKLIYVTPEKIAKSKMFMsrlekayeagrltgaAVDEVH--CCSQWGHdfrpdykalgILKR 243
Cdd:cd17926   79 GKKKDFDDANVVVATYQsLSNLAEEEKDLFDQFGLL---------------IVDEAHhlPAKTFSE----------ILKE 133
                        170
                 ....*....|...
gi 326368226 244 qFPNASLMGLTAT 256
Cdd:cd17926  134 -LNAKYRLGLTAT 145
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
94-417 3.67e-03

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 40.16  E-value: 3.67e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226  94 PLQLETINVTMARKDIFLVMPTGGGKSLCYQLP--ALCS-----------DGFTLVICP---LISLMEDQLMVL-KQLGI 156
Cdd:PLN00206 146 PIQMQAIPAALSGRSLLVSADTGSGKTASFLVPiiSRCCtirsghpseqrNPLAMVLTPtreLCVQVEDQAKVLgKGLPF 225
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 157 SATMLNASSskehvkwVHAEMVNKNSQ-LKLIYVTPEKIAKskmFMSRLEkaYEAGRLTGAAVDEVHCCSQWGhdFRPdy 235
Cdd:PLN00206 226 KTALVVGGD-------AMPQQLYRIQQgVELIVGTPGRLID---LLSKHD--IELDNVSVLVLDEVDCMLERG--FRD-- 289
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 236 KALGILkRQFPNASLMGLTATATNHV-------LKDVQkILCVGKCltftasfNRPN-------LFYEVRQKPS------ 295
Cdd:PLN00206 290 QVMQIF-QALSQPQVLLFSATVSPEVekfasslAKDII-LISIGNP-------NRPNkavkqlaIWVETKQKKQklfdil 360
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 326368226 296 -SAEDFTEDIVKLINGRYKgqsgiiycfSQKDSEQITISLqklGIHAGTYHANMEPEDKTKVHTQWSANELQVVVATVAF 374
Cdd:PLN00206 361 kSKQHFKPPAVVFVSSRLG---------ADLLANAITVVT---GLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVL 428
                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 326368226 375 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDSRADCILY 417
Cdd:PLN00206 429 GRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVF 471
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
79-139 5.22e-03

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: 38.72  E-value: 5.22e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 326368226  79 VKDVLQNVFKLQKFRPLQLETINVTMARKDIFLVMPTGGGKSLCYQLPALC-----------SDG-FTLVICP 139
Cdd:cd17949    1 LVSHLKSKMGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQrllsleprvdrSDGtLALVLVP 73
 
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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