1EYG,1SE8,1SE8,3ULL,1UE1,1TXY,1X3G,1Z9F,2CWA,2FXQ,2FXQ,2CWA


Conserved Protein Domain Family
SSB_OBF
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cd04496: SSB_OBF 
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SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart at forks that have stalled at sites of DNA damage. It also plays a role in the assembly of primosome during replication initiation at the bacteriophage phiX174 origin. PriB physically interacts with SSB and binds ssDNA with high affinity.
Links
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Statistics
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PSSM-Id: 239942
Aligned: 234 rows
Threshold Bit Score: 53.385
Created: 10-Jul-2006
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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Conserved site includes 21 residues -Click on image for an interactive view with Cn3D
Feature 1:ssDNA binding site [nucleic acid binding site]
Evidence:
  • Structure:1EYG_D; Escherichia coli SSB monomer binds a 35-mer ssDNA; defined at 3.5A contacts.
    - View structure with Cn3D
  • Structure:1EYG; Escherichia coli SSB homotetramer binds two 35-mer ssDNAs; defined at 3.5A contacts.
    - View structure with Cn3D
  • Comment:The E. coli SSB is a homotetramer that can bind long ssDNAs via a variety of binding modes, which differ in the number of nucleotides occluded per tetramer. The 1EYG structure shows E. coli SSB bound to two 35-mer ssDNAs.
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1            ###     #                #      ##            ## # # # #             ##    
1EYG_D        9 VILVGNLGQDPEVRYmpn-------ggAVANITLATSESwrdkat-gemkeQTEWHRVVLFGklAEVASe-yLRKGSQVY 79  Escherichia coli
CAI07508      5 FVGEGNIGSAPEYREfpngn---deprRLLRLNVYFDNPvpkkdg-eyedrGGFWAPVELWHrdAEHWQs-lYRKGMRVL 79  Azoarcus sp. EbN1
CAJ23965      5 FWGEGNVGSPPEYREfpngn---deprRLLRLNVYFDNPiprkdg-efedrGGFWAPVELWHrdAEHWKd-lYQKGMRVL 79  Xanthomonas camp...
NP_901559     4 ITFDGRLAADAELRYtps-------gePVLSFRVASDIGfge-------rkSTNWFSCQVWGkrGESLKn-yLAKGQQVT 68  Chromobacterium ...
AAP22521      5 VFWEGNIGSAPEHRSfpngn---npprQLLRLNVMFDNSipdgqg-gykdrGGFWCSVEWWHqdAQRFAe-lFAKGMRVK 79  Pseudomonas aeru...
AAW83110      5 LFVRGNLGAEFNLRPvaspk--ndeasIVLNFSVASPNFkrnaeg-ksevvSTEWISCEYWNrdAAHLHk-iLQVGMPVF 80  Neisseria gonorr...
ZP_00422154   9 FRQIGYLAADPSFRKng--------dqKVVNFRVLTNEVwkdkat-qeersRVEGFNYELWGegAEHFAe-rMKKGRRVY 78  Burkholderia vie...
ZP_00583276   6 ITLEGNIGQAPAITFlegnersrgekrPILKLNVKYDRLvngpnneglidkGGVWIAVDYWKkdGPALAq-lLQKGMRIL 84  Shewanella balti...
CAJ19941      9 VDCMGFVANEPQLRQan--------gtPVVNLVVIENEYwkdae--gtrkeRSHAHSIAFWGpyAETVSk-lVQKGSYVR 77  Xanthomonas camp...
ZP_01452127   4 YTFTGRLARDCETRFtqs-------gmAICSFSVAVDYGfgd-------nkGTNWIRCSLFGkrAEGKLpqyLLKGTQVA 69  Mariprofundus fe...

Feature 1          # # ##             # #          
1EYG_D       80 IEGQLRTRKWtdqs-gqdRYTTEVVVnvgGTMQML 113 Escherichia coli
CAI07508     80 VDGRTVRDEWedad-eneRVTFKIEA---RRVGIL 110 Azoarcus sp. EbN1
CAJ23965     80 VIGRMEREPWtdne-dqpRETWQINA---RSVGIL 110 Xanthomonas campestris pv. vesicatoria str. 85-10
NP_901559    69 VYGQLTLREWqdkd-gnkRLSPDVRV---NELSLQ 99  Chromobacterium violaceum ATCC 12472
AAP22521     80 VEGRAIMDRWpdkesgeeVQALKVEA---SRISIL 111 Pseudomonas aeruginosa
AAW83110     81 VTGEERYESYt------nRDGIEVRV---RKLRVQ 106 Neisseria gonorrhoeae
ZP_00422154  79 VVGQPRNDSYekep-gvtQYGVRIRVsrwQDLGAP 112 Burkholderia vietnamiensis G4
ZP_00583276  85 VIGEPRAEPWendq-gvmEPGFCITA---ESISIL 115 Shewanella baltica OS155
CAJ19941     78 VKGNLRYKPIegq---qyDKAAEIRG---DDFSLL 106 Xanthomonas campestris pv. vesicatoria str. 85-10
ZP_01452127  70 VSGELRVREYtdnd-gnkRTSVECNA---DSLDLI 100 Mariprofundus ferrooxydans PV-1

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