3GP8,5FTF,5FHH,1W36


Conserved Protein Domain Family
SF1_C_RecD

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cd18809: SF1_C_RecD 
Click on image for an interactive view with Cn3D
C-terminal helicase domain of RecD family helicases
RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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.
Statistics
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PSSM-Id: 350196
Aligned: 97 rows
Threshold Bit Score: 43.3192
Created: 31-Jan-2018
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
ATP bindingDNA binding
Conserved site include 1 residue -Click on image for an interactive view with Cn3D
Feature 1:ATP binding site [chemical binding site]
Evidence:
  • Structure:5FTF; Bacteroides sp. 3_1_23 Pif1 helicase binds ADP, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                      
3GP8_A     349 NPIIQAAHGLLhgeapawgdkrlnlteiep----------------------------dggarrvalmvrelggpgAVQV 400  Deinococcus radi...
5FTF_A     192 PEFINVLNNIRnyqvtsdeldlls---------------------------------------elkdrkisssydnEYIH 232  Bacteroides sp. ...
EDZ39038   589 LGCAELTENRRqrsdwqkdasreirsgqvkeglqkylean-------misiaqdreeaikktvkawcdrfvtsdptKTLL 661  Leptospirillum s...
EDZ40407   563 VGSSELSHIRRqtleedrqairdlalgkaekalenlsar---------drihaydsgrltkdgigeavsrdlfegkISIA 633  Leptospirillum s...
EFO32990   683 TGFVELTEIRRqksvwqkaatldlahgetekaiksyedqg-------kvehaqsehdaisalvedymidwelhgegKSRM 755  Roseibium sp. Tr...
AAP22627   555 VGAAEITEVRRqkeawaraagqelargsvadglaayaer----------ghvkihdsrdaardslaaayvgdqgkgSQII 624  Pseudomonas aeru...
Q44363     524 IGYAELETIYRqreewmrkasldlargnvenalsayran---------vritgerlkaeaverliadwnhdydqtkTILI 594  Agrobacterium tu...
AAS20177   364 GSLNHAEAAATlalrdgdpsaiafyadrgrihv---------------------gdlgacadqayaawaadradgtDSVL 422  Arthrobacter aur...
P55418     524 IGYAELETIYRqreqwmcdasldlargnvgkvvdtyran---------grmmrselkaeavqnliadwdrdydptkTTLI 594  Sinorhizobium fr...
AEA82557   586 IGCSELIQIARqkdpldraisqawfegpaeqggpdaldmmkargllkmpaegskdkpidqlmrdalearasgtewnEILL 665  Pseudomonas stut...
Feature 1                                                                                      
3GP8_A     401 LTPMRKgplGMDhLNYHLQalfnpgeggvriaegearpgdtvvqtkndynneifn------------------------- 455  Deinococcus radi...
5FTF_A     233 ICTHKA---DVEkINADKLgeqeirnydivikdkfpessipcdlhlklrvgarvmslvndslkgyyngmlgivtalednv 309  Bacteroides sp. ...
EDZ39038   662 TAYKRS---DVSeLNARARetmqekgllsgprvettvrdregnsegkrefqagerlyfkknnrkl--------------g 724  Leptospirillum s...
EDZ40407   634 VSATRE---EARdINEWARihaqamglsdkngiqvatvhgerelsrgdrilctrnnrrl--------------------- 689  Leptospirillum s...
EFO32990   756 ALAHRRq--DVFaINKAIRsarhsagelenervfdtdfgkrvfakgdrvlitrndydlnvkn------------------ 815  Roseibium sp. Tr...
AAP22627   625 LAHSNK---DVQaLNEAVRearkergelrgtarfmterggrefapgdrivflkndrdlg--------------------- 680  Pseudomonas aeru...
Q44363     595 LAHLRR---DVRmLNVMAReklvergmvgeghlfrtadgerrfdagdqivflknegslgl-------------------- 651  Agrobacterium tu...
AAS20177   423 IAPTRD---LVAeLNTRARndrlagqpdkeigrvltladgtkvsagdriitrendrrlrisrt----------------- 482  Arthrobacter aur...
P55418     595 LAHLRR---DVRmLNQMARaklvergivdagfsfkaedgnrrfapgdqivflknegalgv-------------------- 651  Sinorhizobium fr...
AEA82557   666 LADRNQ---SVRsLNNKVRehrfatgeldkaqhiripvetgrgdyadldlapgdrimlrknekvggepvyn---gdratl 739  Pseudomonas stut...
Feature 1                                                             #                        
3GP8_A     456 ----------gtlgmvlkaegarltvdfdgnvveltgaelfnlqlGYALTVHRAQGSEWGTVLGVLheahmpmlsRNLVY 525  Deinococcus radi...
5FTF_A     310 itvrmdngrtikferytwsntqytlkdnecvkeeigsctqfpltlAWAITIHKSQGLTFDKIIIHVsht----fcPGQLY 385  Bacteroides sp. ...
EDZ39038   725 vmngdtgtlahidvtsngkdcmftvrmdngkeicfdprdyeqidyGYAVTIHKSQGETVDFSSNLVtg-----mgLNALY 799  Leptospirillum s...
EDZ40407   690 -----evmngdfgtvreirnghlrieldrggfrevdplvyshldyGYAATCHKLQGATVERCHIYApeng--msgREWAY 762  Leptospirillum s...
EFO32990   816 ---gmlgwvteidgdkftvqlhnaentksprsvtfdtkrfssfdhGYATTVHKSQGATVDHAFVLKsrt----mdKHLSY 888  Roseibium sp. Tr...
AAP22627   681 ------vkngtlgtveraedgslavrldsgearrfqaaqyaavdhGYAVTIHKAQGVTVDRAYLLAtpg----mdRSLAY 750  Pseudomonas aeru...
Q44363     652 ----kngmighvvvaaanrivatvgegdqrrqviveqrfynnldhGYATTIHKSQGATVDRVKVLAsls----ldRHLTY 723  Agrobacterium tu...
AAS20177   483 -nwvkngdrwhvknvntdgsltvihdklgktitlpadyvsktvqlGYATTVHGAQGITTGTCHVVLtgd----edRNLLY 557  Arthrobacter aur...
P55418     652 ----kngmrgkvveaaqnrivaeigevehrrqvmvesrfynnldhGYATTIHKSQGATVDRVKVLAsls----ldRHLTY 723  Sinorhizobium fr...
AEA82557   740 tkiervqtgvddsgepiydtkitarldrtkeevswdlsdyasidhAYAMTVHKSQGLTVDRAFYLTsds----tdRRLAY 815  Pseudomonas stut...
Feature 1                      
3GP8_A     526 TALTRARD--RFFSAG 539  Deinococcus radiodurans R1
5FTF_A     386 VALSRCRTleGIVSDA 401  Bacteroides sp. 3_1_23
EDZ39038   800 VQLTRHRD--GTQIVL 813  Leptospirillum sp. Group II '5-way CG'
EDZ40407   763 VAASRARE--SFYIHV 776  Leptospirillum sp. Group II '5-way CG'
EFO32990   889 VAMTRHKQ--DLRIYD 902  Roseibium sp. TrichSKD4
AAP22627   751 VGMTRHRE--AATLFA 764  Pseudomonas aeruginosa
Q44363     724 VAMTRHRE--DLQLYY 737  Agrobacterium tumefaciens
AAS20177   558 VALSRGKF--ANHLYL 571  Arthrobacter aurescens
P55418     724 VAMTRHRE--DLGVYY 737  Sinorhizobium fredii NGR234
AEA82557   816 VAYTRSRY--ACSFYI 829  Pseudomonas stutzeri DSM 4166

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