Seroatlas · Human Serome Atlas

YBX1

Y-box-binding protein 1

Also known as: BP-8, CSDA2, CSDB, DBPB, MDR-NF1, NSEP-1, NSEP1, YB-1, YB1, YBOX1_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
P67809
Gene
YBX1
Ensembl
ENSG00000065978
Chromosome
1
Canonical length
324 aa
Protein class
Cancer-related genes, Plasma proteins, Predicted intracellular proteins, Transcription factors
Subcellular location
Endoplasmic reticulum,Vesicles,Plasma membrane,Cytosol
Secretome location
Intracellular and membrane
Quaternary structure
Homodimer

OverviewNCBI Gene

This gene encodes a highly conserved cold shock domain protein that has broad nucleic acid binding properties. The encoded protein functions as both a DNA and RNA binding protein and has been implicated in numerous cellular processes including regulation of transcription and translation, pre-mRNA splicing, DNA reparation and mRNA packaging. This protein is also a component of messenger ribonucleoprotein (mRNP) complexes and may have a role in microRNA processing. This protein can be secreted through non-classical pathways and functions as an extracellular mitogen. Aberrant expression of the gene is associated with cancer proliferation in numerous tissues. This gene may be a prognostic marker for poor outcome and drug resistance in certain cancers. Alternate splicing results in multiple transcript variants. Pseudogenes of this gene are found on multiple chromosomes. [provided by RefSeq, Sep 2015]

Canonical amino-acid sequenceUniProt

324 residues, UniProt reviewed canonical sequence.

>P67809|YBX1
     1  MSSEAETQQP PAAPPAAPAL SAADTKPGTT GSGAGSGGPG GLTSAAPAGG DKKVIATKVL
    61  GTVKWFNVRN GYGFINRNDT KEDVFVHQTA IKKNNPRKYL RSVGDGETVE FDVVEGEKGA
   121  EAANVTGPGG VPVQGSKYAA DRNHYRRYPR RRGPPRNYQQ NYQNSESGEK NEGSESAPEG
   181  QAQQRRPYRR RRFPPYYMRR PYGRRPQYSN PPVQGEVMEG ADNQGAGEQG RPVRQNMYRG
   241  YRPRFRRGPP RQRQPREDGN EEDKENQGDE TQGQQPPQRR YRRNFNYRRR RPENPKPQDG
   301  KETKAADPPA ENSSAPEAEQ GGAE

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against YBX1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Secreted
Secreted
Yes
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.63
Highest tissue expression
1,911 nTPM

Expression across tissuesHPA

Tissue

  • skeletal muscle: 1,911 nTPM
  • tongue: 1,059 nTPM
  • bone marrow: 815 nTPM
  • testis: 719 nTPM
  • heart muscle: 703 nTPM
  • blood vessel: 611 nTPM

Single-cell type

  • late primary spermatocytes: 9,301 nCPM
  • early spermatids: 7,801 nCPM
  • late spermatids: 3,965 nCPM
  • megakaryocytes: 2,528 nCPM
  • kupffer cells: 2,419 nCPM
  • extravillous trophoblasts: 2,233 nCPM

Immune cell

  • non-classical monocyte: 125 nTPM
  • intermediate monocyte: 107 nTPM
  • myeloid DC: 78 nTPM
  • eosinophil: 70 nTPM
  • T-reg: 70 nTPM
  • memory B-cell: 70 nTPM

Brain region

  • thalamus: 224 nTPM
  • medulla oblongata: 209 nTPM
  • white matter: 193 nTPM
  • pons: 191 nTPM
  • hypothalamus: 173 nTPM
  • midbrain: 159 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about YBX1.

Disease | ImmuneIEDB

Conditions an epitope on YBX1 was assayed in.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.35
gnomAD pLI
0.95
gnomAD missense Z
1.72
DepMap mean gene effect
-1.23
DepMap dependency class
common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 7% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of YBX1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads YBX1 as an antibody target. Whether an autoantibody or antibody against YBX1 could matter depends on whether native YBX1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

YBX1 is annotated as secreted, so native YBX1 circulates and is directly accessible to antibodies. Secreted and cell-surface proteins are the autoantibody targets most likely to act like drugs, blocking or depleting the native protein.

Annotation status

The present source text does not explicitly label YBX1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/YBX1. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

© 2026 · Seroatlas, Discover Oregon LLC · Terms of use

Loading the interactive Seroatlas protein explorer...