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Q9Y2T7 (YBOX2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 104. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Y-box-binding protein 2
Alternative name(s):
Contrin
DNA-binding protein C
Short name=Dbpc
Germ cell-specific Y-box-binding protein
MSY2 homolog
Gene names
Name:YBX2
Synonyms:CSDA3, MSY2
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length364 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Major constituent of messenger ribonucleoprotein particles (mRNPs). Involved in the regulation of the stability and/or translation of germ cell mRNAs. Binds to Y-box consensus promoter element. Binds to full length mRNA with high affinity in a sequence-independent manner. Binds to short RNA sequences containing the consensus site 5'-UCCAUCA-3' with low affinity and limited sequence specificity. Its binding with maternal mRNAs is necessary for its cytoplasmic retention. May mark specific mRNAs (those transcribed from Y-box promoters) in the nucleus for cytoplasmic storage, thereby linking transcription and mRNA storage/translational delay By similarity.

Subunit structure

Found in a mRNP complex with PABPC1 and YBX3 By similarity.

Subcellular location

Cytoplasm. Nucleus Ref.4.

Tissue specificity

Expressed in oocytes and testicular germ cells in the stage of spermatogonia to spermatocyte. Also observed placental trophoblasts, as well as in vascular smooth muscle cells in the pulmonary artery, myocardium, and skeletal muscle. Undetectable in epithelial cells in respiratory, gastrointestinal, and urogenital tracts. Up-regulated in various carcinomas and germ cell tumors (at protein level). Ref.1 Ref.4

Post-translational modification

Phosphorylated during oocyte maturation and dephosphorylated following egg activation. Phosphorylated in vitro by a kinase activity associated with testicular mRNPs. Dephosphorylation leads to a decrease in its affinity to bind RNA in vitro By similarity.

Sequence similarities

Contains 1 CSD (cold-shock) domain.

Ontologies

Keywords
   Cellular componentCytoplasm
Nucleus
   Coding sequence diversityPolymorphism
   LigandDNA-binding
RNA-binding
   PTMPhosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processmRNA stabilization

Inferred from electronic annotation. Source: Ensembl

negative regulation of binding

Inferred from electronic annotation. Source: Ensembl

negative regulation of translation

Inferred from electronic annotation. Source: Ensembl

oocyte development

Inferred from electronic annotation. Source: Ensembl

regulation of transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

spermatid development

Inferred from electronic annotation. Source: Ensembl

spermatogenesis

Traceable author statement Ref.1. Source: ProtInc

transcription from RNA polymerase II promoter

Traceable author statement Ref.1. Source: ProtInc

translational attenuation

Traceable author statement Ref.1. Source: ProtInc

   Cellular_componentcytoplasm

Traceable author statement Ref.1. Source: ProtInc

nucleus

Traceable author statement Ref.1. Source: ProtInc

polysome

Inferred from electronic annotation. Source: Ensembl

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

chromatin binding

Inferred from electronic annotation. Source: Ensembl

lipid binding

Inferred from electronic annotation. Source: Ensembl

mRNA 3'-UTR binding

Inferred from electronic annotation. Source: Ensembl

ribonucleoprotein complex binding

Inferred from electronic annotation. Source: Ensembl

translation regulator activity

Inferred from electronic annotation. Source: Ensembl

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 364364Y-box-binding protein 2
PRO_0000100225

Regions

Domain93 – 16371CSD
Region87 – 16983Required for cytoplasmic retention By similarity
Region217 – 364148Required for mRNA-binding
Compositional bias35 – 6733Gly-rich
Compositional bias185 – 352168Pro-rich

Natural variations

Natural variant91G → V. Ref.1 Ref.2 Ref.3
Corresponds to variant rs222859 [ dbSNP | Ensembl ].
VAR_027916
Natural variant631S → P.
Corresponds to variant rs8069533 [ dbSNP | Ensembl ].
VAR_027917

Sequences

Sequence LengthMass (Da)Tools
Q9Y2T7 [UniParc].

Last modified October 17, 2006. Version 2.
Checksum: 0B16DEF46F4634FA

FASTA36438,518
        10         20         30         40         50         60 
MSEVEAAAGA TAVPAATVPA TAAGVVAVVV PVPAGEPQKG GGAGGGGGAA SGPAAGTPSA 

        70         80         90        100        110        120 
PGSRTPGNPA TAVSGTPAPP ARSQADKPVL AIQVLGTVKW FNVRNGYGFI NRNDTKEDVF 

       130        140        150        160        170        180 
VHQTAIKRNN PRKFLRSVGD GETVEFDVVE GEKGAEATNV TGPGGVPVKG SRYAPNRRKS 

       190        200        210        220        230        240 
RRFIPRPPSV APPPMVAEIP SAGTGPGSKG ERAEDSGQRP RRWCPPPFFY RRRFVRGPRP 

       250        260        270        280        290        300 
PNQQQPIEGT DRVEPKETAP LEGHQQQGDE RVPPPRFRPR YRRPFRPRPR QQPTTEGGDG 

       310        320        330        340        350        360 
ETKPSQGPAD GSRPEPQRPR NRPYFQRRRQ QAPGPQQAPG PRQPAAPETS APVNSGDPTT 


TILE 

« Hide

References

« Hide 'large scale' references
[1]"Contrin, the human homologue of a germ-cell Y-box-binding protein: cloning, expression, and chromosomal localization."
Tekur S., Pawlak A., Guellaen G., Hecht N.B.
J. Androl. 20:135-144(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, VARIANT VAL-9.
[2]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT VAL-9.
[3]"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], VARIANT VAL-9.
Tissue: Brain.
[4]"Expression of Y-box-binding protein dbpC/contrin, a potentially new cancer/testis antigen."
Kohno Y., Matsuki Y., Tanimoto A., Izumi H., Uchiumi T., Kohno K., Shimajiri S., Sasaguri Y.
Br. J. Cancer 94:710-716(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: TISSUE SPECIFICITY, SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF096834 mRNA. Translation: AAD30662.1.
CH471108 Genomic DNA. Translation: EAW90223.1.
CH471108 Genomic DNA. Translation: EAW90224.1.
BC033800 mRNA. Translation: AAH33800.1.
BC047760 mRNA. Translation: AAH47760.1.
RefSeqNP_057066.2. NM_015982.3.
UniGeneHs.567494.

3D structure databases

ProteinModelPortalQ9Y2T7.
SMRQ9Y2T7. Positions 87-164.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid119277. 4 interactions.
IntActQ9Y2T7. 2 interactions.
STRING9606.ENSP00000007699.

PTM databases

PhosphoSiteQ9Y2T7.

Polymorphism databases

DMDM116242847.

Proteomic databases

PaxDbQ9Y2T7.
PRIDEQ9Y2T7.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000007699; ENSP00000007699; ENSG00000006047.
GeneID51087.
KEGGhsa:51087.
UCSCuc002gfq.2. human.

Organism-specific databases

CTD51087.
GeneCardsGC17M007191.
HGNCHGNC:17948. YBX2.
HPACAB012332.
HPA053904.
HPA056744.
MIM611447. gene.
neXtProtNX_Q9Y2T7.
PharmGKBPA142670560.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG1278.
HOGENOMHOG000116439.
HOVERGENHBG079361.
InParanoidQ9Y2T7.
KOK09277.
OMAMEGTDGV.
OrthoDBEOG7TBC44.
PhylomeDBQ9Y2T7.
TreeFamTF317306.

Gene expression databases

BgeeQ9Y2T7.
CleanExHS_YBX2.
GenevestigatorQ9Y2T7.

Family and domain databases

Gene3D2.40.50.140. 1 hit.
InterProIPR019844. Cold-shock_CS.
IPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamPF00313. CSD. 1 hit.
[Graphical view]
PRINTSPR00050. COLDSHOCK.
SMARTSM00357. CSP. 1 hit.
[Graphical view]
SUPFAMSSF50249. SSF50249. 1 hit.
PROSITEPS00352. COLD_SHOCK. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSYBX2. human.
GeneWikiYBX2.
GenomeRNAi51087.
NextBio53755.
PROQ9Y2T7.
SOURCESearch...

Entry information

Entry nameYBOX2_HUMAN
AccessionPrimary (citable) accession number: Q9Y2T7
Secondary accession number(s): D3DTP1, Q8N4P0
Entry history
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: October 17, 2006
Last modified: February 19, 2014
This is version 104 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 17

Human chromosome 17: entries, gene names and cross-references to MIM