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Protein

Cold shock domain-containing protein C2

Gene

CSDC2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

RNA-binding factor which binds specifically to the very 3'-UTR ends of both histone H1 and H3.3 mRNAs, encompassing the polyadenylation signal. Might play a central role in the negative regulation of histone variant synthesis in the developing brain (By similarity).By similarity

GO - Molecular functioni

  • DNA binding Source: InterPro
  • RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Cold shock domain-containing protein C2
Alternative name(s):
RNA-binding protein PIPPin
Gene namesi
Name:CSDC2
Synonyms:PIPPIN
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 22

Organism-specific databases

HGNCiHGNC:30359. CSDC2.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

  • Note: PIPPin-RNA complexes are located to the nucleus.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142672071.

Polymorphism and mutation databases

BioMutaiCSDC2.
DMDMi32129852.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 153153Cold shock domain-containing protein C2PRO_0000100351Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei19 – 191PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9Y534.
MaxQBiQ9Y534.
PaxDbiQ9Y534.
PRIDEiQ9Y534.

PTM databases

iPTMnetiQ9Y534.
PhosphoSiteiQ9Y534.

Expressioni

Gene expression databases

BgeeiQ9Y534.
CleanExiHS_CSDC2.
ExpressionAtlasiQ9Y534. baseline and differential.
GenevisibleiQ9Y534. HS.

Organism-specific databases

HPAiHPA003073.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
MEOX2A4D1273EBI-1763657,EBI-10172134
PPP2R1AA8K7B75EBI-1763657,EBI-10174513

Protein-protein interaction databases

BioGridi118102. 2 interactions.
IntActiQ9Y534. 3 interactions.
STRINGi9606.ENSP00000302485.

Structurei

3D structure databases

ProteinModelPortaliQ9Y534.
SMRiQ9Y534. Positions 49-147.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini68 – 13568CSDAdd
BLAST

Sequence similaritiesi

Contains 1 CSD (cold-shock) domain.Curated

Phylogenomic databases

eggNOGiKOG3070. Eukaryota.
COG1278. LUCA.
GeneTreeiENSGT00390000000022.
HOGENOMiHOG000059524.
HOVERGENiHBG050947.
InParanoidiQ9Y534.
OMAiTFPFQRE.
OrthoDBiEOG7N63PN.
PhylomeDBiQ9Y534.
TreeFamiTF324381.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR019844. Cold-shock_CS.
IPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF00313. CSD. 1 hit.
[Graphical view]
SMARTiSM00357. CSP. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
PROSITEiPS00352. COLD_SHOCK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9Y534-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTSESTSPPV VPPLHSPKSP VWPTFPFHRE GSRVWERGGV PPRDLPSPLP
60 70 80 90 100
TKRTRTYSAT ARASAGPVFK GVCKQFSRSQ GHGFITPENG SEDIFVHVSD
110 120 130 140 150
IEGEYVPVEG DEVTYKMCPI PPKNQKFQAV EVVLTQLAPH TPHETWSGQV

VGS
Length:153
Mass (Da):16,786
Last modified:November 1, 1999 - v1
Checksum:iF0CB947289356E93
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB027011 mRNA. Translation: BAA84704.1.
CR456457 mRNA. Translation: CAG30343.1.
AL834417 mRNA. Translation: CAD39079.2.
AL023553 Genomic DNA. Translation: CAB46024.1.
BC067113 mRNA. Translation: AAH67113.1.
CCDSiCCDS14019.1.
RefSeqiNP_055275.1. NM_014460.3.
UniGeneiHs.310893.

Genome annotation databases

EnsembliENST00000306149; ENSP00000302485; ENSG00000172346.
GeneIDi27254.
KEGGihsa:27254.
UCSCiuc003bak.2. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB027011 mRNA. Translation: BAA84704.1.
CR456457 mRNA. Translation: CAG30343.1.
AL834417 mRNA. Translation: CAD39079.2.
AL023553 Genomic DNA. Translation: CAB46024.1.
BC067113 mRNA. Translation: AAH67113.1.
CCDSiCCDS14019.1.
RefSeqiNP_055275.1. NM_014460.3.
UniGeneiHs.310893.

3D structure databases

ProteinModelPortaliQ9Y534.
SMRiQ9Y534. Positions 49-147.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi118102. 2 interactions.
IntActiQ9Y534. 3 interactions.
STRINGi9606.ENSP00000302485.

PTM databases

iPTMnetiQ9Y534.
PhosphoSiteiQ9Y534.

Polymorphism and mutation databases

BioMutaiCSDC2.
DMDMi32129852.

Proteomic databases

EPDiQ9Y534.
MaxQBiQ9Y534.
PaxDbiQ9Y534.
PRIDEiQ9Y534.

Protocols and materials databases

DNASUi27254.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000306149; ENSP00000302485; ENSG00000172346.
GeneIDi27254.
KEGGihsa:27254.
UCSCiuc003bak.2. human.

Organism-specific databases

CTDi27254.
GeneCardsiCSDC2.
HGNCiHGNC:30359. CSDC2.
HPAiHPA003073.
neXtProtiNX_Q9Y534.
PharmGKBiPA142672071.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3070. Eukaryota.
COG1278. LUCA.
GeneTreeiENSGT00390000000022.
HOGENOMiHOG000059524.
HOVERGENiHBG050947.
InParanoidiQ9Y534.
OMAiTFPFQRE.
OrthoDBiEOG7N63PN.
PhylomeDBiQ9Y534.
TreeFamiTF324381.

Miscellaneous databases

GeneWikiiCSDC2.
GenomeRNAii27254.
PROiQ9Y534.

Gene expression databases

BgeeiQ9Y534.
CleanExiHS_CSDC2.
ExpressionAtlasiQ9Y534. baseline and differential.
GenevisibleiQ9Y534. HS.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR019844. Cold-shock_CS.
IPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF00313. CSD. 1 hit.
[Graphical view]
SMARTiSM00357. CSP. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
PROSITEiPS00352. COLD_SHOCK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Human RNA-binding protein PIPPin."
    Hattori A., Seki N., Hayashi A., Kozuma S., Miyajima N., Muramatsu M., Saito T.
    Submitted (MAY-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  4. "The DNA sequence of human chromosome 22."
    Dunham I., Hunt A.R., Collins J.E., Bruskiewich R., Beare D.M., Clamp M., Smink L.J., Ainscough R., Almeida J.P., Babbage A.K., Bagguley C., Bailey J., Barlow K.F., Bates K.N., Beasley O.P., Bird C.P., Blakey S.E., Bridgeman A.M.
    , Buck D., Burgess J., Burrill W.D., Burton J., Carder C., Carter N.P., Chen Y., Clark G., Clegg S.M., Cobley V.E., Cole C.G., Collier R.E., Connor R., Conroy D., Corby N.R., Coville G.J., Cox A.V., Davis J., Dawson E., Dhami P.D., Dockree C., Dodsworth S.J., Durbin R.M., Ellington A.G., Evans K.L., Fey J.M., Fleming K., French L., Garner A.A., Gilbert J.G.R., Goward M.E., Grafham D.V., Griffiths M.N.D., Hall C., Hall R.E., Hall-Tamlyn G., Heathcott R.W., Ho S., Holmes S., Hunt S.E., Jones M.C., Kershaw J., Kimberley A.M., King A., Laird G.K., Langford C.F., Leversha M.A., Lloyd C., Lloyd D.M., Martyn I.D., Mashreghi-Mohammadi M., Matthews L.H., Mccann O.T., Mcclay J., Mclaren S., McMurray A.A., Milne S.A., Mortimore B.J., Odell C.N., Pavitt R., Pearce A.V., Pearson D., Phillimore B.J.C.T., Phillips S.H., Plumb R.W., Ramsay H., Ramsey Y., Rogers L., Ross M.T., Scott C.E., Sehra H.K., Skuce C.D., Smalley S., Smith M.L., Soderlund C., Spragon L., Steward C.A., Sulston J.E., Swann R.M., Vaudin M., Wall M., Wallis J.M., Whiteley M.N., Willey D.L., Williams L., Williams S.A., Williamson H., Wilmer T.E., Wilming L., Wright C.L., Hubbard T., Bentley D.R., Beck S., Rogers J., Shimizu N., Minoshima S., Kawasaki K., Sasaki T., Asakawa S., Kudoh J., Shintani A., Shibuya K., Yoshizaki Y., Aoki N., Mitsuyama S., Roe B.A., Chen F., Chu L., Crabtree J., Deschamps S., Do A., Do T., Dorman A., Fang F., Fu Y., Hu P., Hua A., Kenton S., Lai H., Lao H.I., Lewis J., Lewis S., Lin S.-P., Loh P., Malaj E., Nguyen T., Pan H., Phan S., Qi S., Qian Y., Ray L., Ren Q., Shaull S., Sloan D., Song L., Wang Q., Wang Y., Wang Z., White J., Willingham D., Wu H., Yao Z., Zhan M., Zhang G., Chissoe S., Murray J., Miller N., Minx P., Fulton R., Johnson D., Bemis G., Bentley D., Bradshaw H., Bourne S., Cordes M., Du Z., Fulton L., Goela D., Graves T., Hawkins J., Hinds K., Kemp K., Latreille P., Layman D., Ozersky P., Rohlfing T., Scheet P., Walker C., Wamsley A., Wohldmann P., Pepin K., Nelson J., Korf I., Bedell J.A., Hillier L.W., Mardis E., Waterston R., Wilson R., Emanuel B.S., Shaikh T., Kurahashi H., Saitta S., Budarf M.L., McDermid H.E., Johnson A., Wong A.C.C., Morrow B.E., Edelmann L., Kim U.J., Shizuya H., Simon M.I., Dumanski J.P., Peyrard M., Kedra D., Seroussi E., Fransson I., Tapia I., Bruder C.E., O'Brien K.P., Wilkinson P., Bodenteich A., Hartman K., Hu X., Khan A.S., Lane L., Tilahun Y., Wright H.
    Nature 402:489-495(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Colon.

Entry informationi

Entry nameiCSDC2_HUMAN
AccessioniPrimary (citable) accession number: Q9Y534
Secondary accession number(s): Q8ND37
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 16, 2003
Last sequence update: November 1, 1999
Last modified: June 8, 2016
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 22
    Human chromosome 22: entries, gene names and cross-references to MIM
  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.