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Protein

Single-stranded DNA-binding protein

Gene

ssb

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism (By similarity). Essential for ionizing radiation resistance. Stimulates the 5'-3' DNA helicase activity of RecD-like helicase. Stimulates RecA protein-promoted DNA three-strand exchange reactions in vitro with both D.radiodurans and E.coli-derived RecA. Complements an ssb deletion in E.coli, but does not complement a ddrb disruption in D.radiodurans.UniRule annotation4 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciDRAD243230:GH46-105-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Single-stranded DNA-binding proteinUniRule annotation
Short name:
SSBUniRule annotation
Gene namesi
Name:ssb
Ordered Locus Names:DR_0099
OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Taxonomic identifieri243230 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
Proteomesi
  • UP000002524 Componenti: Chromosome I

Subcellular locationi

  • Cytoplasm 1 Publication

  • Note: During log phase, present in multiple foci. 1 hour after irradiation most foci are condensed in the center of the cell's nucleoid, they dissipate by 2 hours later.

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Essential, it cannot be knocked out. As SSB levels are depleted growth slows, tolerance to ionizing radiation and UV light decreases rapidly. Cannot be complemented by ddrB.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 301301Single-stranded DNA-binding proteinPRO_0000096147Add
BLAST

Proteomic databases

PRIDEiQ9RY51.

Expressioni

Inductioni

Constitutively expressed, highly up-regulated following ionizing radiation for at least 12 hours (at protein level).1 Publication

Interactioni

Subunit structurei

Homodimer. Binds ssDNA. Interacts with DdrB.5 Publications

Protein-protein interaction databases

STRINGi243230.DR_0100.

Structurei

Secondary structure

1
301
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 1612Combined sources
Beta strandi19 – 224Combined sources
Beta strandi28 – 3912Combined sources
Beta strandi49 – 6012Combined sources
Helixi61 – 688Combined sources
Beta strandi76 – 8813Combined sources
Beta strandi96 – 10813Combined sources
Beta strandi115 – 1173Combined sources
Beta strandi123 – 1264Combined sources
Beta strandi129 – 13810Combined sources
Beta strandi143 – 1464Combined sources
Beta strandi152 – 16514Combined sources
Beta strandi171 – 18313Combined sources
Helixi185 – 1906Combined sources
Beta strandi198 – 20912Combined sources
Beta strandi219 – 23012Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1SE8X-ray1.80A1-301[»]
3UDGX-ray2.40A/B/C1-301[»]
3UFMX-ray1.95B290-301[»]
ProteinModelPortaliQ9RY51.
SMRiQ9RY51. Positions 3-233.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9RY51.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini5 – 110106SSB 1UniRule annotationAdd
BLAST
Domaini129 – 232104SSB 2UniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi296 – 3016Important for interaction with partner proteinsUniRule annotation

Sequence similaritiesi

Contains 2 SSB domains.UniRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG4107YH6. Bacteria.
COG0629. LUCA.
InParanoidiQ9RY51.
KOiK03111.
OMAiARGMNHV.
OrthoDBiEOG6M9F32.

Family and domain databases

Gene3Di2.40.50.140. 3 hits.
HAMAPiMF_00984. SSB.
InterProiIPR012340. NA-bd_OB-fold.
IPR000424. Primosome_PriB/ssb.
IPR011344. ssDNA-bd.
[Graphical view]
PANTHERiPTHR10302. PTHR10302. 1 hit.
PfamiPF00436. SSB. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 2 hits.
TIGRFAMsiTIGR00621. ssb. 2 hits.
PROSITEiPS50935. SSB. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9RY51-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARGMNHVYL IGALARDPEL RYTGNGMAVF EATVAGEDRV IGNDGRERNL
60 70 80 90 100
PWYHRVSILG KPAEWQAERN LKGGDAVVVE GTLEYRQWEA PEGGKRSAVN
110 120 130 140 150
VKALRMEQLG TQPELIQDAG GGVRMSGAMN EVLVLGNVTR DPEIRYTPAG
160 170 180 190 200
DAVLSLSIAV NENYQDRQGQ RQEKVHYIDA TLWRDLAENM KELRKGDPVM
210 220 230 240 250
IMGRLVNEGW TDKDGNKRNS TRVEATRVEA LARGAGNANS GYAAATPAAP
260 270 280 290 300
RTQTASSAAR PTSGGYQSQP SRAANTGSRS GGLDIDQGLD DFPPEEDDLP

F
Length:301
Mass (Da):32,722
Last modified:October 3, 2003 - v2
Checksum:i21B2090C970E1B0E
GO

Sequence cautioni

The sequence AAF09692.1 differs from that shown. Reason: Frameshift at positions 93 and 169. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY293617 Genomic DNA. Translation: AAQ18705.1.
AJ564860 Genomic DNA. Translation: CAD92322.1.
AE000513 Genomic DNA. Translation: AAF09692.1. Frameshift.
PIRiA75559.
RefSeqiNP_293825.1. NC_001263.1.

Genome annotation databases

EnsemblBacteriaiAAF09692; AAF09692; DR_0099.
GeneIDi1799251.
KEGGidra:DR_0099.
PATRICi21627676. VBIDeiRad64572_0263.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY293617 Genomic DNA. Translation: AAQ18705.1.
AJ564860 Genomic DNA. Translation: CAD92322.1.
AE000513 Genomic DNA. Translation: AAF09692.1. Frameshift.
PIRiA75559.
RefSeqiNP_293825.1. NC_001263.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1SE8X-ray1.80A1-301[»]
3UDGX-ray2.40A/B/C1-301[»]
3UFMX-ray1.95B290-301[»]
ProteinModelPortaliQ9RY51.
SMRiQ9RY51. Positions 3-233.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243230.DR_0100.

Proteomic databases

PRIDEiQ9RY51.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF09692; AAF09692; DR_0099.
GeneIDi1799251.
KEGGidra:DR_0099.
PATRICi21627676. VBIDeiRad64572_0263.

Phylogenomic databases

eggNOGiENOG4107YH6. Bacteria.
COG0629. LUCA.
InParanoidiQ9RY51.
KOiK03111.
OMAiARGMNHV.
OrthoDBiEOG6M9F32.

Enzyme and pathway databases

BioCyciDRAD243230:GH46-105-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ9RY51.

Family and domain databases

Gene3Di2.40.50.140. 3 hits.
HAMAPiMF_00984. SSB.
InterProiIPR012340. NA-bd_OB-fold.
IPR000424. Primosome_PriB/ssb.
IPR011344. ssDNA-bd.
[Graphical view]
PANTHERiPTHR10302. PTHR10302. 1 hit.
PfamiPF00436. SSB. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 2 hits.
TIGRFAMsiTIGR00621. ssb. 2 hits.
PROSITEiPS50935. SSB. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The single-stranded DNA-binding protein of Deinococcus radiodurans."
    Eggington J.M., Haruta N., Wood E.A., Cox M.M.
    BMC Microbiol. 4:2-2(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, SUBUNIT.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  2. "Single-stranded DNA-binding protein of Deinococcus radiodurans: a biophysical characterization."
    Witte G., Urbanke C., Curth U.
    Nucleic Acids Res. 33:1662-1670(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], SUBUNIT, DNA-BINDING.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  4. "DNA helicase activity of the RecD protein from Deinococcus radiodurans."
    Wang J., Julin D.A.
    J. Biol. Chem. 279:52024-52032(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS AN SSB PROTEIN, DNA-BINDING.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  5. "DdrB stimulates single-stranded DNA annealing and facilitates RecA-independent DNA repair in Deinococcus radiodurans."
    Xu G., Lu H., Wang L., Chen H., Xu Z., Hu Y., Tian B., Hua Y.
    DNA Repair 9:805-812(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH DDRB.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  6. "The essential role of the Deinococcus radiodurans ssb gene in cell survival and radiation tolerance."
    Lockhart J.S., DeVeaux L.C.
    PLoS ONE 8:E71651-E71651(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  7. "Crystal structure of the Deinococcus radiodurans single-stranded DNA-binding protein suggests a mechanism for coping with DNA damage."
    Bernstein D.A., Eggington J.M., Killoran M.P., Misic A.M., Cox M.M., Keck J.L.
    Proc. Natl. Acad. Sci. U.S.A. 101:8575-8580(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS), SUBUNIT.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  8. "Identification of the SSB-interaction platform of Deinococcus radiodurans uracil-DNA glycosylase."
    George N.P., Keck J.L.
    Submitted (NOV-2011) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.95 ANGSTROMS) OF 290-301.
  9. "Structure and cellular dynamics of Deinococcus radiodurans single-stranded DNA (ssDNA)-binding protein (SSB)-DNA complexes."
    George N.P., Ngo K.V., Chitteni-Pattu S., Norais C.A., Battista J.R., Cox M.M., Keck J.L.
    J. Biol. Chem. 287:22123-22132(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.40 ANGSTROMS) IN COMPLEX WITH SSDNA, SUBUNIT, SUBCELLULAR LOCATION, INDUCTION.

Entry informationi

Entry nameiSSB_DEIRA
AccessioniPrimary (citable) accession number: Q9RY51
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2003
Last sequence update: October 3, 2003
Last modified: July 6, 2016
This is version 109 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.