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IPR002059 is a Cold-shock protein, DNA-binding.
<p>When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate [[cite:PUB00004548]]. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [[cite:PUB00004718]], is increased 2-10 fold. These so-called 'cold shock' proteins (CSPs) are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid [[cite:PUB00004548]]. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [[cite:PUB00004326], [cite:PUB00004061], [cite:PUB00003861]]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [[cite:PUB00004406]] to the RNP-1 RNA-binding motif.</p> <p>CSPs include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSPs are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA [[cite:PUB00036544]]. CSPs are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD [[cite:PUB00025582]], regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.</p>
This description is obtained from EB-eye REST.
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | Nucleic acid binding | Interacting selectively and non-covalently with any nucleic acid. |
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | PREDICTED: glycine-rich protein 2-like [Cicer arietinum] gi|502144859|ref|XP_004505774.1| | 16 | ||
| – | PREDICTED: cold shock protein 1-like [Cicer arietinum] gi|502153508|ref|XP_004509364.1| | 20 | ||
| – | PREDICTED: DNA-binding protein HEXBP-like [Glycine max] gi|356559280|ref|XP_003547928.1| | 19 | ||
| – | Cold shock protein; TAIR: AT2G21060.1 glycine-rich protein 2B; Swiss-Prot: sp|Q38896|CSP4_ARATH Cold shock domain-containing protein 4; TrEMBL-Plants: tr|A0A088FZS5|A0A088FZS5_CICAR Cold shock protein; Found in the gene: LotjaGi3g1v0522700 | 20 | ||
| – | Cold shock protein, putative; TAIR: AT4G36020.1 cold shock domain protein 1; Swiss-Prot: sp|O65639|CSP1_ARATH Cold shock protein 1; TrEMBL-Plants: tr|A0A0S3R460|A0A0S3R460_PHAAN Uncharacterized protein; Found in the gene: LotjaGi4g1v0128600 | 22 | ||
| – | Cold shock protein; TAIR: AT2G21060.1 glycine-rich protein 2B; Swiss-Prot: sp|P27484|GRP2_NICSY Glycine-rich protein 2; TrEMBL-Plants: tr|F6I111|F6I111_VITVI Putative uncharacterized protein; Found in the gene: LotjaGi5g1v0160000 | 21 | ||
| – | Cold shock protein; TAIR: AT4G36020.2 cold shock domain protein 1; Swiss-Prot: sp|O65639|CSP1_ARATH Cold shock protein 1; TrEMBL-Plants: tr|V7AVE5|V7AVE5_PHAVU Uncharacterized protein; Found in the gene: LotjaGi6g1v0236800 | 20 | ||
| – | Cold shock protein; TAIR: AT4G36020.1 cold shock domain protein 1; Swiss-Prot: sp|P27484|GRP2_NICSY Glycine-rich protein 2; TrEMBL-Plants: tr|I1LPN7|I1LPN7_SOYBN Uncharacterized protein; Found in the gene: LotjaGi6g1v0237000_LC | 20 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| cd04458 | CDD | 1 | 12.50 |