Homo sapiens Protein: YBX1
InnateDB Protein IDBP-97233.6
Last Modified 2014-10-13 [Report errors or provide feedback]
Gene Symbol YBX1
Protein Name Y box binding protein 1
Synonyms BP-8; CSDA2; CSDB; DBPB; MDR-NF1; NSEP-1; NSEP1; YB-1; YB1;
Species Homo sapiens
Ensembl Protein ENSP00000361626
InnateDB Gene IDBG-97231 (YBX1)
Protein Structure
UniProt Annotation
Function Mediates pre-mRNA alternative splicing regulation. Binds to splice sites in pre-mRNA and regulates splice site selection. Binds and stabilizes cytoplasmic mRNA. Contributes to the regulation of translation by modulating the interaction between the mRNA and eukaryotic initiation factors (By similarity). Regulates the transcription of numerous genes. Its transcriptional activity on the multidrug resistance gene MDR1 is enhanced in presence of the APEX1 acetylated form at 'Lys-6' and 'Lys-7'. Binds to promoters that contain a Y-box (5'-CTGATTGGCCAA-3'), such as MDR1 and HLA class II genes. Promotes separation of DNA strands that contain mismatches or are modified by cisplatin. Has endonucleolytic activity and can introduce nicks or breaks into double-stranded DNA (in vitro). May play a role in DNA repair. Component of the CRD-mediated complex that promotes MYC mRNA stability. Binds preferentially to the 5'-[CU]CUGCG-3' motif in vitro. {ECO:0000250}.The secreted form acts as an extracellular mitogen and stimulates cell migration and proliferation.
Subcellular Localization Cytoplasm. Nucleus. Cytoplasmic granule. Secreted. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs. Shuttles between nucleus and cytoplasm. Predominantly cytoplasmic in proliferating cells. Cytotoxic stress and DNA damage enhance translocation to the nucleus. Localized with DDX1, MBNL1 and TIAL1 in stress granules upon stress. Secreted by mesangial and monocytic cells after inflammatory challenges. Translocates from the cytoplasm to the nucleus after and colocalizes with APEX1 in nuclear speckles after genotoxic stress.
Disease Associations
Tissue Specificity
Number of Interactions This gene and/or its encoded proteins are associated with 195 experimentally validated interaction(s) in this database.
They are also associated with 5 interaction(s) predicted by orthology.
Experimentally validated
Total 195 [view]
Protein-Protein 193 [view]
Protein-DNA 2 [view]
Protein-RNA 0
Predicted by orthology
Total 5 [view]
Gene Ontology

Molecular Function
Accession GO Term
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003690 double-stranded DNA binding
GO:0003697 single-stranded DNA binding
GO:0003700 sequence-specific DNA binding transcription factor activity
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0044822 poly(A) RNA binding
Biological Process
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0000398 mRNA splicing, via spliceosome
GO:0001701 in utero embryonic development
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0008380 RNA splicing
GO:0010467 gene expression
GO:0051154 negative regulation of striated muscle cell differentiation
GO:0051781 positive regulation of cell division
GO:0070934 CRD-mediated mRNA stabilization
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005689 U12-type spliceosomal complex
GO:0005737 cytoplasm
GO:0010494 cytoplasmic stress granule
GO:0030529 ribonucleoprotein complex
GO:0031965 nuclear membrane
GO:0043231 intracellular membrane-bounded organelle
GO:0070062 extracellular vesicular exosome
GO:0070937 CRD-mediated mRNA stability complex
GO:0071204 histone pre-mRNA 3'end processing complex
Protein Structure and Domains
InterPro IPR002059 Cold-shock protein, DNA-binding
IPR011129 Cold shock protein
IPR012340 Nucleic acid-binding, OB-fold
PFAM PF00313
Post-translational Modifications
SwissProt P67809
PhosphoSite PhosphoSite-P67809
UniProt Splice Variant
Entrez Gene 4904
UniGene Hs.713229
RefSeq NP_004550
OMIM 154030
HPRD 01095
EMBL BC002411 BC010430 BC015208 BC020164 BC038384 BC065571 BC070084 BC071708 BC090038 BC098435 BC106045 J03827 L28809 M24070 M83234
GenPept AAA20871 AAA35750 AAA59949 AAA61308 AAH02411 AAH10430 AAH15208 AAH20164 AAH38384 AAH65571 AAH70084 AAH71708 AAH90038 AAH98435 AAI06046