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Protein

Cold shock-like protein CspD

Gene

cspD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: 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.
Involved in persister cell formation, acting downstream of mRNA interferase (toxin) MqsR. Overproduction is toxic.

GO - Molecular functioni

  • RNA binding Source: EcoCyc
  • single-stranded DNA binding Source: EcoCyc

GO - Biological processi

  • negative regulation of DNA replication Source: EcoCyc
  • regulation of transcription, DNA-templated Source: InterPro
  • 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
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11111. cspD.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
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 CspDPRO_0000100248Add
BLAST

Proteomic databases

EPDiP0A968.
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

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

BioGridi4263137. 618 interactions.
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

eggNOGiENOG4105VEQ. Bacteria.
COG1278. LUCA.
HOGENOMiHOG000070674.
InParanoidiP0A968.
KOiK03704.
OMAiTSCSHIP.
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

        10         20         30         40         50
MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF
60 70
DVHQGPKGNH ASVIVPVEVE AAVA
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:
EMBLi
GenBanki
DDBJi
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.
WP_000410785.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73967; AAC73967; b0880.
BAA35599; BAA35599; BAA35599.
GeneIDi945669.
KEGGiecj:JW0864.
eco:b0880.
PATRICi32116969. VBIEscCol129921_0910.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.
WP_000410785.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0A968.
SMRiP0A968. Positions 1-64.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263137. 618 interactions.
DIPiDIP-47833N.
IntActiP0A968. 39 interactions.
MINTiMINT-1219798.
STRINGi511145.b0880.

Proteomic databases

EPDiP0A968.
PaxDbiP0A968.
PRIDEiP0A968.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73967; AAC73967; b0880.
BAA35599; BAA35599; BAA35599.
GeneIDi945669.
KEGGiecj:JW0864.
eco:b0880.
PATRICi32116969. VBIEscCol129921_0910.

Organism-specific databases

EchoBASEiEB1102.
EcoGeneiEG11111. cspD.

Phylogenomic databases

eggNOGiENOG4105VEQ. Bacteria.
COG1278. LUCA.
HOGENOMiHOG000070674.
InParanoidiP0A968.
KOiK03704.
OMAiTSCSHIP.
PhylomeDBiP0A968.

Enzyme and pathway databases

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

Miscellaneous databases

PROiP0A968.

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]
ProtoNetiSearch...

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: September 7, 2016
This is version 90 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

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.