4NHO,1FUK,1HV8,1XTI,2DB3,2HJV,2KBF,2P6N,2RB4,2WAX,2YJT,2Z0M,3EIQ,3FHO,3SQW,4BRU,4KBF,4LJY,4W7S,5DTU,5E7I,5GI4,5IVL,5SUP,6EM3


Conserved Protein Domain Family
SF2_C_DEAD
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cd18787: SF2_C_DEAD 
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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.
Links
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Statistics
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PSSM-Id: 350174
Aligned: 402 rows
Threshold Bit Score: 92.5704
Created: 31-Jan-2018
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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ATP binding
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:ATP binding site [chemical binding site]
Evidence:
  • Structure:3SQW; Saccharomyces cerevisiae Mss116 binds AMP-PNP/Mg2+, contacts 4A
    - View structure with Cn3D
  • Structure:5SUP: Saccharomyces cerevisiae ATP-dependent RNA helicase Sub2 with bound MgBeF3-ADP; contacts at 4A
    - View structure with Cn3D
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                                      
4NHO_A     307 VEQKVFLMsesekrkkll---------aileqgfdpPIIIFVNqkkgcDVLAKSLEkm---gyNACTLHGGKGQEQREFa 374  human
3SQW_A     257 IDQSVVISekfansifaaveh---ikkqikerdsnyKAIIFAPtvkftSFLCSILKnefkkdlPILEFHGKITQNKRTSl 333  Saccharomyces ce...
Q9P7C7     639 VEQIVEVRpeeskfsrllel-----lgelynnqldvRTLVFVDrqesaDALLSDLMkr---gyTSNSIHGGKDQHDRDSt 710  fission yeast
Q7SH33     782 ITQIVEVMdegkkfnrllel-----lgelyaddddvRSLIFVErqekaDDLLRELLrr---gyGCMSIHGGKDQEDRNSt 853  Neurospora crass...
Q553B1     730 IEQFVEVRptetrfrrli--------ellsiwyhkgQILIFTNrqettDNLYRQLSns---qyQCLSLHGSKDQTDRDEt 798  Dictyostelium di...
Q62780     593 VEQQVIVIeeekkflkll--------ellghyqesgSVIIFVDkqehaDGLLKDLMra---syPCMSLHGGIDQYDRDSi 661  Norway rat
Q4TVV3     561 VEQHVIVIeeekkflkll--------eilghyqekgSVIIFVDkqehaDGLLKDLMka---syPCMSLHGGIDQYDRDSi 629  zebrafish
Q8H0U8     750 ITQLVEVRpesdrflrll--------ellgewsekgKILVFVQsqekcDALYRDMIks---syPCLSLHGGKDQTDRESt 818  thale cress
A5DDF4     488 ITQRVVLIddsgdisqkklqallkivdefsvedpegKILIFVDkqeaaDDLMVRLLnn---qiSCIVIHGGKDQVDRKHa 564  Meyerozyma guill...
ADQ18506   216 IDHSVVMVsmedkrffle---------rmitenpqqKIIVFVRtkvraERVAAAMArv---niKTVTLHSDKSHIERKAa 283  Leadbetterella b...

Feature 1                           # #                        #  ##          
4NHO_A     375 lsnlk-agakdILVATDVAGRGIDiqdVSMVVNYDmaknIEDYIHRIGRTGRAGksGVAITFL 436  human
3SQW_A     334 vkrfk-kdesgILVCTDVGARGMDfpnVHEVLQIGvpseLANYIHRIGRTARSGkeGSSVLFI 395  Saccharomyces cerevisiae S288c
Q9P7C7     711 isdyk-agvfdVLIATSVVARGLDvksLQLVVNYDcpnhMEDYVHRVGRTGRAGhtGVAVTFI 772  fission yeast
Q7SH33     854 isdfk-kgvcpILIATSIAARGLDvkqLKLVINYDapnhLEDYVHRAGRTGRAGntGTAVTFI 915  Neurospora crassa OR74A
Q553B1     799 isdfk-nkvktILIATPLASRGLDikdLNLVVNFDcpdhLEDYVHRVGRTGRAGnrGTAYTFI 860  Dictyostelium discoideum AX4
Q62780     662 indfk-ngtckLLVATSVAARGLDvkhLILVVNYScpnhYEDYVHRAGRTGRAGnkGYAYTFI 723  Norway rat
Q4TVV3     630 indfk-ngacrLLVATSVAARGLDvkqLILVVNYScpnhYEDYVHRAGRTGRAGnkGYAYTFI 691  zebrafish
Q8H0U8     819 isdfk-ndvcnLLIATSVAARGLDvkeLELVVNFDapnhYEDYVHRVGRTGRAGrkGCAVTFI 880  thale cress
A5DDF4     565 ikqfsdknglrVLIATSIAARGLDvrgLNLVINYDapshMEDYVHRVGRTGRAGatGTAVTLV 627  Meyerozyma guilliermondii ATCC 6260
ADQ18506   284 lesfk-kgetwVLIATDVSARGVDiplVEYVINYDlpdvAENYVHRIGRTGRGTqkGKAVSFC 345  Leadbetterella byssophila DSM 17132

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