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P0A968

- CSPD_ECOLI

UniProt

P0A968 - CSPD_ECOLI

Protein

Cold shock-like protein CspD

Gene

cspD

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
  1. 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.
    Involved in persister cell formation, acting downstream of mRNA interferase (toxin) MqsR. Overproduction is toxic.

    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

    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

    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 CspDPRO_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.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

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

    Sequence similaritiesi

    Contains 1 CSD (cold-shock) domain.Curated

    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

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti19 – 191C → E AA sequence (PubMed:9868784)Curated

    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

    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: October 1, 2014
    This is version 78 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