Cold shock domain (IPR011129)

Short name: CSD

Overlapping homologous superfamilies

Domain relationships


A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic single-strand nucleic-acid binding proteins [PMID: 1622933, PMID: 2184368, PMID: 8022259, PMID: 9586995, PMID: 10446180]. This domain, which is known as the 'cold-shock domain' (CSD) is present in the proteins listed below.

  • Escherichia coli protein CS7.4 (gene cspA) which is induced in response to low temperature (cold-shock protein) and which binds to and stimulates the transcription of the CCAAT-containing promoters of the HN-S protein and of gyrA.
  • Transcription termination factor Rho, a prokaryotic protein which facilitates transcription termination.
  • Mammalian Y box binding protein 1 (YB1). A protein that binds to the CCAAT-containing Y box of mammalian HLA class II genes.
  • Xenopus Y box binding proteins -1 and -2 (Y1 and Y2). Proteins that bind to the CCAAT-containing Y box of Xenopus hsp70 genes.
  • Xenopus B box binding protein (YB3). YB3 binds the B box promoter element of genes transcribed by RNA polymerase III.
  • Enhancer factor I subunit A (EFI-A) (dbpB). A protein that also bind to CCAAT-motif in various gene promoters.
  • DbpA, a human DNA-binding protein of unknown specificity.
  • Bacillus subtilis cold-shock proteins cspB and cspC.
  • Streptomyces clavuligerus protein SC 7.0.
  • E. coli proteins cspB, cspC, cspD, cspE and cspF.
  • Unr, a mammalian gene encoded upstream of the N-ras gene. Unr contains nine repeats that are similar to the CSD domain. The function of Unr is not yet known but it could be a multivalent DNA-binding protein.
  • PPPin, a mammalian brain-specific protein that binds to histone mRNA and which is thought to play a role in the regulation of brain development.

GO terms

Biological Process

No terms assigned in this category.

Molecular Function

GO:0003676 nucleic acid binding

Cellular Component

No terms assigned in this category.

Contributing signatures

Signatures from InterPro member databases are used to construct an entry.