CSDA cold shock domain protein A [Homo sapiens] - Gene

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Summary

Official Symbol: CSDAprovided by HGNC
Official Full Name: cold shock domain protein Aprovided by HGNC
Primary source: HGNC:2428
See related: Ensembl:ENSG00000060138; HPRD:10347; MIM:603437; Vega:OTTHUMG00000168409
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: DBPA; CSDA1; ZONAB

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Genomic context

Location :: 12p13.1

Sequence :: Chromosome: 12; NC_000012.11 (10851676..10875953, complement)

See CSDA in Epigenomics, MapViewer

Chromosome 12 - NC_000012.11 Genomic Context describing neighboring genes

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Genomic regions, transcripts, and products

Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

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Bibliography

GeneRIFs: Gene References Into Functions What's a GeneRIF?

In human skeletal muscle cells, CSDA was upregulated during hypoxia when cells were damaged and apoptosis was induced.
Title: Critical roles of cold shock domain protein A as an endogenous angiogenesis inhibitor in skeletal muscle.
ZONAB is an important component of the mechanisms that sense epithelial density and participates in the complex transcriptional networks that regulate the switch between proliferation and differentiation
Title: ZONAB promotes proliferation and represses differentiation of proximal tubule epithelial cells.
The expression of human DBPA was upregulated in gastric cancer tissues and cell lines. siRNA treatment successfully silenced DBPA expression.
Title: Upregulation of human DNA binding protein A (dbpA) in gastric cancer cells.
Overexpression of the inactive DbpA R331A mutant appears to block assembly at a late stage when the peptidyl transferase center is formed, indicating a possible role for DbpA promoting this conformational change.
Title: A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit.
The symplekin/ZONAB complex inhibits intestinal cell differentiation by the repression of AML1/Runx1.
Title: The symplekin/ZONAB complex inhibits intestinal cell differentiation by the repression of AML1/Runx1.
Observational study of gene-disease association. (HuGE Navigator)
Title: Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling.
ZONAB regulates the transcription of genes that are important for G1/S-phase progression and links tight junctions to the transcriptional control of key cell cycle regulators and epithelial cell differentiation.
Title: Regulation of PCNA and cyclin D1 expression and epithelial morphogenesis by the ZO-1-regulated transcription factor ZONAB/DbpA.
human dbpA has a role in accelerating hepatocarcinogenesis
Title: Somatic mutation and SNP in the promoter of dbpA and human hepatocarcinogenesis.
identification of complexes, binding to the vascular endothelial growth factor mRNA 5'- and 3'-UTR, that contain cold shock domain and polypyrimidine tract binding RNA binding proteins
Title: A multi-protein complex containing cold shock domain (Y-box) and polypyrimidine tract binding proteins forms on the vascular endothelial growth factor mRNA. Potential role in mRNA stabilization.

Submit: New GeneRIF Correction

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Phenotypes

Review eQTL and phenotype association data in this region using PheGenI

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Products	Interactant	Other Gene	Source	Pubs	Description
NC_000012.9	NP_005216.1	E2F1	BIND	PubMed	E2F1 interacts with the DBPA chromatin.
NC_000012.9	NP_001941.2	E2F4	BIND	PubMed	E2F4 interacts with the DBPA chromatin.
NP_003642.2	NP_005393.2	RALA	BIND	PubMed	RalA interacts with ZONAB. This interaction was modeled on a demonstrated interaction between human or canine RalA and canine ZONAB.
P16989	P49841	GSK3B	HPRD	PubMed
P16989	P28482	MAPK1	HPRD	PubMed
P16989	P25208	NFYB	HPRD	PubMed
P16989	Q15366	PCBP2	HPRD	PubMed
P16989	P11233	RALA	HPRD	PubMed
P16989	P15692	VEGFA	HPRD	PubMed
BioGRID:114101	BioGRID:124082	DOT1L	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:109187	GSK3B	BioGRID	PubMed	Biochemical Activity
BioGRID:114101	BioGRID:120160	HAUS6	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:111580	MAPK1	BioGRID	PubMed	Biochemical Activity
BioGRID:114101	BioGRID:121122	MEPCE	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:110929	NPM1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:116708	RRP1B	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:215383	Rrp1b	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:115544	SRRM1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:114101	BioGRID:112937	TJP1	BioGRID	PubMed	Reconstituted Complex
BioGRID:114101	BioGRID:113164	UBC	BioGRID	PubMed	Affinity Capture-MS

Function	Evidence Code	Pubs
DNA binding	IEA Inferred from Electronic Annotation more info
double-stranded DNA binding	TAS Traceable Author Statement more info	PubMed
mRNA 3'-UTR binding	IEA Inferred from Electronic Annotation more info
sequence-specific DNA binding transcription factor activity	NAS Non-traceable Author Statement more info	PubMed
single-stranded DNA binding	IEA Inferred from Electronic Annotation more info
transcription corepressor activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
fertilization	IEA Inferred from Electronic Annotation more info
in utero embryonic development	IEA Inferred from Electronic Annotation more info
male gonad development	IEA Inferred from Electronic Annotation more info
negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
negative regulation of skeletal muscle tissue development	IEA Inferred from Electronic Annotation more info
negative regulation of transcription from RNA polymerase II promoter	IEA Inferred from Electronic Annotation more info
organ regeneration	IEA Inferred from Electronic Annotation more info
positive regulation of organ growth	IEA Inferred from Electronic Annotation more info
regulation of transcription, DNA-dependent	NAS Non-traceable Author Statement more info	PubMed
response to cold	TAS Traceable Author Statement more info	PubMed
spermatogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
cytoplasm	IDA Inferred from Direct Assay more info	PubMed
gap junction	IEA Inferred from Electronic Annotation more info
nucleus	IEA Inferred from Electronic Annotation more info
polysome	IEA Inferred from Electronic Annotation more info

General protein information

Preferred Names: DNA-binding protein A

Names: DNA-binding protein A; cold-shock domain protein A; cold-shock domain containing A1; cold shock domain-containing protein A; single-strand DNA-binding protein NF-GMB; ZO-1-associated nucleic acid-binding protein

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NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001145426.1 → NP_001138898.1 DNA-binding protein A isoform b

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting protein (isoform b) is shorter compared to isoform a.

Source sequence(s)

AA621593, AC021049, AU117252, BC015913

Consensus CDS

CCDS44831.1

UniProtKB/Swiss-Prot

P16989

Related

ENSP00000279550, OTTHUMP00000238732, ENST00000279550, OTTHUMT00000399627

Conserved Domains (1) summary

cd04458
Location:93 – 159
Blast Score: 195

CSP_CDS; Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. ...
NM_003651.4 → NP_003642.3 DNA-binding protein A isoform a

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).

Source sequence(s)

AA621593, AU117252, BC015564

Consensus CDS

CCDS8630.1

UniProtKB/Swiss-Prot

P16989

Related

ENSP00000228251, OTTHUMP00000238733, ENST00000228251, OTTHUMT00000399628

Conserved Domains (1) summary

cd04458
Location:93 – 159
Blast Score: 196

CSP_CDS; Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. ...

RefSeqs of Annotated Genomes: Build 37.3

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh37.p5 Primary Assembly

Genomic

NC_000012.11 Reference GRCh37.p5 Primary Assembly

Range

10851676..10875953, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate HuRef

Genomic

AC_000144.1 Alternate HuRef

Range

10580443..10604713, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

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Related Sequences

Nucleotide		Protein
Heading	Accession and Version	Protein
genomic	AC021049.12 (26266..50486)	None
genomic	CH471094.1	EAW96201.1
		EAW96202.1
		EAW96203.1
		EAW96204.1
		EAW96205.1
genomic	L29064.1	AAA79243.1
mRNA	AA621593.1	None
mRNA	AB209896.1	BAD93133.1
mRNA	AK314846.1	BAG37363.1
mRNA	AU117252.1	None
mRNA	BC008801.2	AAH08801.1
mRNA	BC009744.2	AAH09744.1
mRNA	BC015564.1	AAH15564.1
mRNA	BC015913.1	AAH15913.1
mRNA	BC021926.1	AAH21926.1
mRNA	BC150580.1	None
mRNA	M24069.1	AAA35749.1
mRNA	X72712.1	CAA51261.1
mRNA	X95325.1	CAA64631.1
other-genetic	DQ892686.2	ABM83612.1
other-genetic	DQ895930.2	ABM86856.1

Protein Accession	Links
Protein Accession	GenPept Link	UniProtKB Link
P16989.4	GenPept	UniProtKB/Swiss-Prot:P16989
Q59EB5	GenPept	UniProtKB/TrEMBL:Q59EB5
Q96GD7	GenPept	UniProtKB/TrEMBL:Q96GD7