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Conserved domains on  [gi|398366389|ref|NP_013571|]
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Y' element ATP-dependent helicase protein 1 copy 4 [Saccharomyces cerevisiae S288C]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 11423521)

DEAD/DEAH box-containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA

EC:  3.6.4.-
Gene Ontology:  GO:0016887|GO:0003676|GO:0005524
PubMed:  20206133
SCOP:  4000282|3002019

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
623-718 4.98e-14

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: 69.55  E-value: 4.98e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   623 FEIEPESKAIVVASTTNEVEELACSWRKYFRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIM 702
Cdd:pfam00271   10 LKKERGGKVLIFSQTKKTLEAELLLEKEGIKVARLHGDLSQEEREEILEDF-RKGKIDVLVATDVAERGLDLPDVDLVIN 88
                           90
                   ....*....|....*.
gi 398366389   703 LDNRLNIIELIQGVGR 718
Cdd:pfam00271   89 YDLPWNPASYIQRIGR 104
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
376-548 1.46e-12

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: 66.88  E-value: 1.46e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   376 HQLRLCHEIYMADtpSVAVQAPPGYGKTELFHLPLIALASKGDVKYVSFLFVPYTVLLANCMIRLSRCGCLNVAPVRNFI 455
Cdd:pfam00270    3 IQAEAIPAILEGR--DVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   456 eegcDGVTDLYvgIYDDLASTNFTdrIA---AWENIVECTFRTNNVKlgYLIVDEFHNFETEVYRQSQFGGITNLDFDAf 532
Cdd:pfam00270   81 ----GGDSRKE--QLEKLKGPDIL--VGtpgRLLDLLQERKLLKNLK--LLVLDEAHRLLDMGFGPDLEEILRRLPKKR- 149
                          170
                   ....*....|....*.
gi 398366389   533 eKAIFLSGTAPEAVAD 548
Cdd:pfam00270  150 -QILLLSATLPRNLED 164
 
Name Accession Description Interval E-value
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
623-718 4.98e-14

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: 69.55  E-value: 4.98e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   623 FEIEPESKAIVVASTTNEVEELACSWRKYFRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIM 702
Cdd:pfam00271   10 LKKERGGKVLIFSQTKKTLEAELLLEKEGIKVARLHGDLSQEEREEILEDF-RKGKIDVLVATDVAERGLDLPDVDLVIN 88
                           90
                   ....*....|....*.
gi 398366389   703 LDNRLNIIELIQGVGR 718
Cdd:pfam00271   89 YDLPWNPASYIQRIGR 104
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
376-548 1.46e-12

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: 66.88  E-value: 1.46e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   376 HQLRLCHEIYMADtpSVAVQAPPGYGKTELFHLPLIALASKGDVKYVSFLFVPYTVLLANCMIRLSRCGCLNVAPVRNFI 455
Cdd:pfam00270    3 IQAEAIPAILEGR--DVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   456 eegcDGVTDLYvgIYDDLASTNFTdrIA---AWENIVECTFRTNNVKlgYLIVDEFHNFETEVYRQSQFGGITNLDFDAf 532
Cdd:pfam00270   81 ----GGDSRKE--QLEKLKGPDIL--VGtpgRLLDLLQERKLLKNLK--LLVLDEAHRLLDMGFGPDLEEILRRLPKKR- 149
                          170
                   ....*....|....*.
gi 398366389   533 eKAIFLSGTAPEAVAD 548
Cdd:pfam00270  150 -QILLLSATLPRNLED 164
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
341-720 2.65e-11

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 68.13  E-value: 2.65e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  341 ISRVTRKRPREPKSTNDILVAGRKLFGSSFEFRDlHQLRLCHEI---YMADTPSVAVQAPPGYGKTELFhlplIALASKG 417
Cdd:COG1061    50 GRRLPEEDTERELAEAEALEAGDEASGTSFELRP-YQQEALEALlaaLERGGGRGLVVAPTGTGKTVLA----LALAAEL 124
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  418 DVKYVSFLFVPYTVLLANCMIRLSRcgclnVAPVRNFIEEGCDGVTDLYVGIYDDLASTNFTDRIAAwenivectfrtnn 497
Cdd:COG1061   125 LRGKRVLVLVPRRELLEQWAEELRR-----FLGDPLAGGGKKDSDAPITVATYQSLARRAHLDELGD------------- 186
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  498 vKLGYLIVDEFHNFETEVYRQSqfggitnldFDAFEKAIFL--SGTaPEAVADAALQRIGLTGLAKkSMDINELKRSE-- 573
Cdd:COG1061   187 -RFGLVIIDEAHHAGAPSYRRI---------LEAFPAAYRLglTAT-PFRSDGREILLFLFDGIVY-EYSLKEAIEDGyl 254
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  574 ----------DLSRGLSSYPT---RMFNLIKEKSEvplgHVHKIWKKVESqpeealklllalfEIEPESKAIVVASTTNE 640
Cdd:COG1061   255 appeyygirvDLTDERAEYDAlseRLREALAADAE----RKDKILRELLR-------------EHPDDRKTLVFCSSVDH 317
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  641 VEELACSWRKY-FRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRLNIIELIQGVGR- 718
Cdd:COG1061   318 AEALAELLNEAgIRAAVVTGDTPKKEREEILEAF-RDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSPREFIQRLGRg 396

                  ..
gi 398366389  719 LR 720
Cdd:COG1061   397 LR 398
HELICc smart00490
helicase superfamily c-terminal domain;
642-722 1.05e-09

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 56.45  E-value: 1.05e-09
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    642 EELACSWRKY-FRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRLNIIELIQGVGR-L 719
Cdd:smart00490    1 EELAELLKELgIKVARLHGGLSQEEREEILDKF-NNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRaG 79

                    ...
gi 398366389    720 RDG 722
Cdd:smart00490   80 RAG 82
DEXDc smart00487
DEAD-like helicases superfamily;
370-550 5.83e-08

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 54.42  E-value: 5.83e-08
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    370 FEFRDlHQLRLCHEIyMADTPSVAVQAPPGYGKTELFHLPLIALASKGDVKYVSFLfVPYTVLLANCMIRLsrcgclnva 449
Cdd:smart00487    7 EPLRP-YQKEAIEAL-LSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVL-VPTRELAEQWAEEL--------- 74
                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    450 pvRNFIEEGCDGVTDLYVGiyddlasTNFTDRIAAWEN----IVECTF----------RTNNVKLGYLIVDEFHNFETEV 515
Cdd:smart00487   75 --KKLGPSLGLKVVGLYGG-------DSKREQLRKLESgktdILVTTPgrlldllendKLSLSNVDLVILDEAHRLLDGG 145
                           170       180       190
                    ....*....|....*....|....*....|....*..
gi 398366389    516 YRQSqfggITNLDFDAFEKA--IFLSGTAPEAVADAA 550
Cdd:smart00487  146 FGDQ----LEKLLKLLPKNVqlLLLSATPPEEIENLL 178
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
625-739 8.95e-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: 8.95e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  625 IEpESKAIVVASTTNEVEELACSWRKYFRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQL-MMVIML 703
Cdd:cd18811    36 IE-ESEKLDLKAAVAMYEYLKERFRPELNVGLLHGRLKSDEKDAVMAEF-REGEVDILVSTTVIEVGVDVPNAtVMVIED 113
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 398366389  704 DNRLNIIELIQGVGRLRDGGL---CYLLSR-KNSWAARNR 739
Cdd:cd18811   114 AERFGLSQLHQLRGRVGRGDHqsyCLLVYKdPLTETAKQR 153
PTZ00424 PTZ00424
helicase 45; Provisional
629-718 1.57e-04

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 45.97  E-value: 1.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  629 SKAIVVASTTNEVEELACSWR-KYFRVVWIHGKLGAAEKVSRTKEFVTdGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRL 707
Cdd:PTZ00424  268 TQAIIYCNTRRKVDYLTKKMHeRDFTVSCMHGDMDQKDRDLIMREFRS-GSTRVLITTDLLARGIDVQQVSLVINYDLPA 346
                          90
                  ....*....|.
gi 398366389  708 NIIELIQGVGR 718
Cdd:PTZ00424  347 SPENYIHRIGR 357
 
Name Accession Description Interval E-value
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
623-718 4.98e-14

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: 69.55  E-value: 4.98e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   623 FEIEPESKAIVVASTTNEVEELACSWRKYFRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIM 702
Cdd:pfam00271   10 LKKERGGKVLIFSQTKKTLEAELLLEKEGIKVARLHGDLSQEEREEILEDF-RKGKIDVLVATDVAERGLDLPDVDLVIN 88
                           90
                   ....*....|....*.
gi 398366389   703 LDNRLNIIELIQGVGR 718
Cdd:pfam00271   89 YDLPWNPASYIQRIGR 104
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
376-548 1.46e-12

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: 66.88  E-value: 1.46e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   376 HQLRLCHEIYMADtpSVAVQAPPGYGKTELFHLPLIALASKGDVKYVSFLFVPYTVLLANCMIRLSRCGCLNVAPVRNFI 455
Cdd:pfam00270    3 IQAEAIPAILEGR--DVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389   456 eegcDGVTDLYvgIYDDLASTNFTdrIA---AWENIVECTFRTNNVKlgYLIVDEFHNFETEVYRQSQFGGITNLDFDAf 532
Cdd:pfam00270   81 ----GGDSRKE--QLEKLKGPDIL--VGtpgRLLDLLQERKLLKNLK--LLVLDEAHRLLDMGFGPDLEEILRRLPKKR- 149
                          170
                   ....*....|....*.
gi 398366389   533 eKAIFLSGTAPEAVAD 548
Cdd:pfam00270  150 -QILLLSATLPRNLED 164
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
341-720 2.65e-11

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 68.13  E-value: 2.65e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  341 ISRVTRKRPREPKSTNDILVAGRKLFGSSFEFRDlHQLRLCHEI---YMADTPSVAVQAPPGYGKTELFhlplIALASKG 417
Cdd:COG1061    50 GRRLPEEDTERELAEAEALEAGDEASGTSFELRP-YQQEALEALlaaLERGGGRGLVVAPTGTGKTVLA----LALAAEL 124
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  418 DVKYVSFLFVPYTVLLANCMIRLSRcgclnVAPVRNFIEEGCDGVTDLYVGIYDDLASTNFTDRIAAwenivectfrtnn 497
Cdd:COG1061   125 LRGKRVLVLVPRRELLEQWAEELRR-----FLGDPLAGGGKKDSDAPITVATYQSLARRAHLDELGD------------- 186
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  498 vKLGYLIVDEFHNFETEVYRQSqfggitnldFDAFEKAIFL--SGTaPEAVADAALQRIGLTGLAKkSMDINELKRSE-- 573
Cdd:COG1061   187 -RFGLVIIDEAHHAGAPSYRRI---------LEAFPAAYRLglTAT-PFRSDGREILLFLFDGIVY-EYSLKEAIEDGyl 254
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  574 ----------DLSRGLSSYPT---RMFNLIKEKSEvplgHVHKIWKKVESqpeealklllalfEIEPESKAIVVASTTNE 640
Cdd:COG1061   255 appeyygirvDLTDERAEYDAlseRLREALAADAE----RKDKILRELLR-------------EHPDDRKTLVFCSSVDH 317
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  641 VEELACSWRKY-FRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRLNIIELIQGVGR- 718
Cdd:COG1061   318 AEALAELLNEAgIRAAVVTGDTPKKEREEILEAF-RDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSPREFIQRLGRg 396

                  ..
gi 398366389  719 LR 720
Cdd:COG1061   397 LR 398
HELICc smart00490
helicase superfamily c-terminal domain;
642-722 1.05e-09

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 56.45  E-value: 1.05e-09
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    642 EELACSWRKY-FRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRLNIIELIQGVGR-L 719
Cdd:smart00490    1 EELAELLKELgIKVARLHGGLSQEEREEILDKF-NNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRaG 79

                    ...
gi 398366389    720 RDG 722
Cdd:smart00490   80 RAG 82
DEXDc smart00487
DEAD-like helicases superfamily;
370-550 5.83e-08

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 54.42  E-value: 5.83e-08
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    370 FEFRDlHQLRLCHEIyMADTPSVAVQAPPGYGKTELFHLPLIALASKGDVKYVSFLfVPYTVLLANCMIRLsrcgclnva 449
Cdd:smart00487    7 EPLRP-YQKEAIEAL-LSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVL-VPTRELAEQWAEEL--------- 74
                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389    450 pvRNFIEEGCDGVTDLYVGiyddlasTNFTDRIAAWEN----IVECTF----------RTNNVKLGYLIVDEFHNFETEV 515
Cdd:smart00487   75 --KKLGPSLGLKVVGLYGG-------DSKREQLRKLESgktdILVTTPgrlldllendKLSLSNVDLVILDEAHRLLDGG 145
                           170       180       190
                    ....*....|....*....|....*....|....*..
gi 398366389    516 YRQSqfggITNLDFDAFEKA--IFLSGTAPEAVADAA 550
Cdd:smart00487  146 FGDQ----LEKLLKLLPKNVqlLLLSATPPEEIENLL 178
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
625-739 8.95e-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: 8.95e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  625 IEpESKAIVVASTTNEVEELACSWRKYFRVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQL-MMVIML 703
Cdd:cd18811    36 IE-ESEKLDLKAAVAMYEYLKERFRPELNVGLLHGRLKSDEKDAVMAEF-REGEVDILVSTTVIEVGVDVPNAtVMVIED 113
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 398366389  704 DNRLNIIELIQGVGRLRDGGL---CYLLSR-KNSWAARNR 739
Cdd:cd18811   114 AERFGLSQLHQLRGRVGRGDHqsyCLLVYKdPLTETAKQR 153
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
623-718 9.62e-05

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: 43.65  E-value: 9.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  623 FEIEPESKAIVVASTTNEVEELAcswrKYFR-----VVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQL 697
Cdd:cd18787    22 LEKLKPGKAIIFVNTKKRVDRLA----ELLEelgikVAALHGDLSQEERERALKKF-RSGKVRVLVATDVAARGLDIPGV 96
                          90       100
                  ....*....|....*....|.
gi 398366389  698 MMVIMLDNRLNIIELIQGVGR 718
Cdd:cd18787    97 DHVINYDLPRDAEDYVHRIGR 117
PTZ00424 PTZ00424
helicase 45; Provisional
629-718 1.57e-04

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 45.97  E-value: 1.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  629 SKAIVVASTTNEVEELACSWR-KYFRVVWIHGKLGAAEKVSRTKEFVTdGSMRVLIGTKLVTEGIDIKQLMMVIMLDNRL 707
Cdd:PTZ00424  268 TQAIIYCNTRRKVDYLTKKMHeRDFTVSCMHGDMDQKDRDLIMREFRS-GSTRVLITTDLLARGIDVQQVSLVINYDLPA 346
                          90
                  ....*....|.
gi 398366389  708 NIIELIQGVGR 718
Cdd:PTZ00424  347 SPENYIHRIGR 357
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
678-728 1.78e-04

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: 41.15  E-value: 1.78e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 398366389  678 SMRVLIGTKLVTEGIDIKQLMMVIMLDNRLNIIELIQGVGRLR----DGGLCYLL 728
Cdd:cd18785    22 SLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGrggkDEGEVILF 76
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
640-730 6.81e-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: 41.87  E-value: 6.81e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  640 EVEELACSWRKYF---RVVWIHGKLGAAEKVSRTKEFvTDGSMRVLIGTKLVTEGIDIKQL-MMVIMLDNRLNIIELIQ- 714
Cdd:cd18792    46 SIEALAEELKELVpeaRVALLHGKMTEDEKEAVMLEF-REGEYDILVSTTVIEVGIDVPNAnTMIIEDADRFGLSQLHQl 124
                          90
                  ....*....|....*...
gi 398366389  715 -G-VGRLRDGGLCYLLSR 730
Cdd:cd18792   125 rGrVGRGKHQSYCYLLYP 142
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
624-701 3.76e-03

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 41.29  E-value: 3.76e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  624 EIEPESKAIVVASTTNEVEELACSWRKY-FRVVWIHGKLGAAEkvsRTK---EFvTDGSMRVLIGTKLVTEGIDIKQLMM 699
Cdd:COG0513   237 RDEDPERAIVFCNTKRGADRLAEKLQKRgISAAALHGDLSQGQ---RERaldAF-RNGKIRVLVATDVAARGIDIDDVSH 312

                  ..
gi 398366389  700 VI 701
Cdd:COG0513   313 VI 314
SF2_C_EcoAI-like cd18799
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family ...
628-720 4.09e-03

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


Pssm-ID: 350186 [Multi-domain]  Cd Length: 116  Bit Score: 38.69  E-value: 4.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  628 ESKAIVVASTTNEVEELAcswrKYFRVVWIHgklgAAEKVSRTKEFVTDGSM-----------RVLIGTKLVTEGIDIKQ 696
Cdd:cd18799     6 EIKTLIFCVSIEHAEFMA----EAFNEAGID----AVALNSDYSDRERGDEAlillffgelkpPILVTVDLLTTGVDIPE 77
                          90       100
                  ....*....|....*....|....*
gi 398366389  697 LMMVIMLDNRLNIIELIQGVGR-LR 720
Cdd:cd18799    78 VDNVVFLRPTESRTLFLQMLGRgLR 102
PRK10917 PRK10917
ATP-dependent DNA helicase RecG; Provisional
625-739 5.66e-03

ATP-dependent DNA helicase RecG; Provisional


Pssm-ID: 236794 [Multi-domain]  Cd Length: 681  Bit Score: 41.29  E-value: 5.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366389  625 IEpESKAIVVASttneVEELACSWRKYF---RVVWIHGKLGAAEKVSRTKEFVtDGSMRVLIGTKLVTEGIDIKQL-MMV 700
Cdd:PRK10917  481 IE-ESEKLDLQS----AEETYEELQEAFpelRVGLLHGRMKPAEKDAVMAAFK-AGEIDILVATTVIEVGVDVPNAtVMV 554
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 398366389  701 IMLDNRLNIIELIQ--G-VGRlrdGGL---CYLLSR-KNSWAARNR 739
Cdd:PRK10917  555 IENAERFGLAQLHQlrGrVGR---GAAqsyCVLLYKdPLSETARER 597
 
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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