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P0A968

- CSPD_ECOLI

UniProt

P0A968 - CSPD_ECOLI

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Protein
Cold shock-like protein CspD
Gene
cspD, cspH, ybjA, b0880, JW0864
Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Inhibits DNA replication at both initiation and elongation steps, most probably by binding to the opened, single-stranded regions at replication forks. Plays a regulatory role in chromosomal replication in nutrient-depleted cells.2 Publications
Involved in persister cell formation, acting downstream of mRNA interferase (toxin) MqsR. Overproduction is toxic.2 Publications

GO - Molecular functioni

  1. RNA binding Source: EcoCyc
  2. single-stranded DNA binding Source: EcoCyc

GO - Biological processi

  1. negative regulation of DNA replication Source: EcoCyc
  2. regulation of transcription, DNA-templated Source: InterPro
  3. response to starvation Source: EcoliWiki
Complete GO annotation...

Keywords - Molecular functioni

DNA replication inhibitor, Toxin

Keywords - Ligandi

DNA-binding, RNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG11111-MONOMER.
ECOL316407:JW0864-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Cold shock-like protein CspD
Short name:
CSP-D
Gene namesi
Name:cspD
Synonyms:cspH, ybjA
Ordered Locus Names:b0880, JW0864
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG11111. cspD.

Subcellular locationi

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Deletion represses the production of persister cells.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 7474Cold shock-like protein CspD
PRO_0000100248Add
BLAST

Proteomic databases

PaxDbiP0A968.
PRIDEiP0A968.

Expressioni

Inductioni

Not induced by cold-shock. Stationary-phase and starvation inducible, as well as by oxidative stress (30 mM H2O2). Repressed by MqsA and MqsRA toxin-antitoxin system.1 Publication

Gene expression databases

GenevestigatoriP0A968.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

DIPiDIP-47833N.
IntActiP0A968. 39 interactions.
MINTiMINT-1219798.
STRINGi511145.b0880.

Structurei

3D structure databases

ProteinModelPortaliP0A968.
SMRiP0A968. Positions 1-64.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini4 – 6461CSD
Add
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1278.
HOGENOMiHOG000070674.
KOiK03704.
OMAiQQVQFDV.
OrthoDBiEOG618R0J.
PhylomeDBiP0A968.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR019844. Cold-shock_CS.
IPR012156. Cold_shock_CspA.
IPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012751. CspD.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF00313. CSD. 1 hit.
[Graphical view]
PIRSFiPIRSF002599. Cold_shock_A. 1 hit.
PRINTSiPR00050. COLDSHOCK.
SMARTiSM00357. CSP. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR02381. cspD. 1 hit.
PROSITEiPS00352. COLD_SHOCK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0A968-1 [UniParc]FASTAAdd to Basket

« Hide

MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF   50
DVHQGPKGNH ASVIVPVEVE AAVA 74
Length:74
Mass (Da):7,969
Last modified:July 19, 2005 - v1
Checksum:iC74AB028135BC22C
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti19 – 191C → E AA sequence 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M31045 Genomic DNA. No translation available.
U00096 Genomic DNA. Translation: AAC73967.1.
AP009048 Genomic DNA. Translation: BAA35599.1.
PIRiH64826.
RefSeqiNP_415401.1. NC_000913.3.
YP_489153.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC73967; AAC73967; b0880.
BAA35599; BAA35599; BAA35599.
GeneIDi12934143.
945669.
KEGGiecj:Y75_p0853.
eco:b0880.
PATRICi32116969. VBIEscCol129921_0910.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M31045 Genomic DNA. No translation available.
U00096 Genomic DNA. Translation: AAC73967.1 .
AP009048 Genomic DNA. Translation: BAA35599.1 .
PIRi H64826.
RefSeqi NP_415401.1. NC_000913.3.
YP_489153.1. NC_007779.1.

3D structure databases

ProteinModelPortali P0A968.
SMRi P0A968. Positions 1-64.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-47833N.
IntActi P0A968. 39 interactions.
MINTi MINT-1219798.
STRINGi 511145.b0880.

Proteomic databases

PaxDbi P0A968.
PRIDEi P0A968.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC73967 ; AAC73967 ; b0880 .
BAA35599 ; BAA35599 ; BAA35599 .
GeneIDi 12934143.
945669.
KEGGi ecj:Y75_p0853.
eco:b0880.
PATRICi 32116969. VBIEscCol129921_0910.

Organism-specific databases

EchoBASEi EB1102.
EcoGenei EG11111. cspD.

Phylogenomic databases

eggNOGi COG1278.
HOGENOMi HOG000070674.
KOi K03704.
OMAi QQVQFDV.
OrthoDBi EOG618R0J.
PhylomeDBi P0A968.

Enzyme and pathway databases

BioCyci EcoCyc:EG11111-MONOMER.
ECOL316407:JW0864-MONOMER.

Miscellaneous databases

PROi P0A968.

Gene expression databases

Genevestigatori P0A968.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
InterProi IPR019844. Cold-shock_CS.
IPR012156. Cold_shock_CspA.
IPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012751. CspD.
IPR012340. NA-bd_OB-fold.
[Graphical view ]
Pfami PF00313. CSD. 1 hit.
[Graphical view ]
PIRSFi PIRSF002599. Cold_shock_A. 1 hit.
PRINTSi PR00050. COLDSHOCK.
SMARTi SM00357. CSP. 1 hit.
[Graphical view ]
SUPFAMi SSF50249. SSF50249. 1 hit.
TIGRFAMsi TIGR02381. cspD. 1 hit.
PROSITEi PS00352. COLD_SHOCK. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The ATP-dependent Clp protease of Escherichia coli. Sequence of clpA and identification of a Clp-specific substrate."
    Gottesman S., Clark W.P., Maurizi M.R.
    J. Biol. Chem. 265:7886-7893(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "Small genes/gene-products in Escherichia coli K-12."
    Wasinger V.C., Humphery-Smith I.
    FEMS Microbiol. Lett. 169:375-382(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-20.
    Strain: K12.
  6. "The product of unr, the highly conserved gene upstream of N-ras, contains multiple repeats similar to the cold-shock domain (CSD), a putative DNA-binding motif."
    Doniger J., Landsman D., Gonda M.A., Wistow G.
    New Biol. 4:389-395(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: SIMILARITY TO OTHER CSD PROTEINS.
  7. "CspD, a novel DNA replication inhibitor induced during the stationary phase in Escherichia coli."
    Yamanaka K., Zheng W., Crooke E., Wang Y.-H., Inouye M.
    Mol. Microbiol. 39:1572-1584(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  8. "Toxins Hha and CspD and small RNA regulator Hfq are involved in persister cell formation through MqsR in Escherichia coli."
    Kim Y., Wood T.K.
    Biochem. Biophys. Res. Commun. 391:209-213(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN PERSISTER CELL FORMATION, DISRUPTION PHENOTYPE.
    Strain: K12 / BW25113.
  9. "Escherichia coli toxin/antitoxin pair MqsR/MqsA regulate toxin CspD."
    Kim Y., Wang X., Zhang X.S., Grigoriu S., Page R., Peti W., Wood T.K.
    Environ. Microbiol. 12:1105-1121(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS A TOXIN, INDUCTION.
    Strain: K12 / BW25113.

Entry informationi

Entry nameiCSPD_ECOLI
AccessioniPrimary (citable) accession number: P0A968
Secondary accession number(s): P24245
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2005
Last sequence update: July 19, 2005
Last modified: May 14, 2014
This is version 77 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Binds single-stranded DNA and RNA, but not double-stranded DNA, through hydrophobic interactions without sequence specificity, resulting in a packed structure.

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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