Seroatlas · Human Serome Atlas

HMGB3

High mobility group protein B3

Also known as: HMG2A, HMG4, HMGB3_HUMAN, MGC90319

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

Protein identityUniProt · HPA

UniProt accession: O15347
Gene: HMGB3
Ensembl: ENSG00000029993
Chromosome: X
Canonical length: 200 aa
Protein class: Disease related genes, Human disease related genes, Plasma proteins, Predicted intracellular proteins
Subcellular location: Nucleoplasm,Nucleoli

OverviewNCBI Gene

This gene encodes a member of a family of proteins containing one or more high mobility group DNA-binding motifs. The encoded protein plays an important role in maintaining stem cell populations, and may be aberrantly expressed in tumor cells. A mutation in this gene was associated with microphthalmia, syndromic 13. There are numerous pseudogenes of this gene on multiple chromosomes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]

Canonical amino-acid sequenceUniProt

200 residues, UniProt reviewed canonical sequence.

>O15347|HMGB3
     1  MAKGDPKKPK GKMSAYAFFV QTCREEHKKK NPEVPVNFAE FSKKCSERWK TMSGKEKSKF
    61  DEMAKADKVR YDREMKDYGP AKGGKKKKDP NAPKRPPSGF FLFCSEFRPK IKSTNPGISI
   121  GDVAKKLGEM WNNLNDSEKQ PYITKAAKLK EKYEKDVADY KSKGKFDGAK GPAKVARKKV
   181  EEEDEEEEEE EEEEEEEEDE

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against HMGB3 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: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.46
Highest tissue expression: 128 nTPM

Expression across tissuesHPA

Tissue

placenta: 128 nTPM
liver: 91 nTPM
bone marrow: 81 nTPM
parathyroid gland: 80 nTPM
thymus: 61 nTPM
skeletal muscle: 49 nTPM

Single-cell type

syncytiotrophoblasts: 1,665 nCPM
extravillous trophoblasts: 1,130 nCPM
migrating cytotrophoblasts: 938 nCPM
oocytes: 396 nCPM
cytotrophoblasts: 372 nCPM
respiratory ionocytes: 282 nCPM

Immune cell

eosinophil: 11 nTPM
myeloid DC: 6.1 nTPM
T-reg: 5.8 nTPM
non-classical monocyte: 5 nTPM
classical monocyte: 4.3 nTPM
plasmacytoid DC: 3.1 nTPM

Brain region

cerebral cortex: 67 nTPM
hippocampal formation: 25 nTPM
hypothalamus: 22 nTPM
medulla oblongata: 21 nTPM
thalamus: 19 nTPM
pons: 17 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about HMGB3.

Disease | AllUniProt

Conditions HMGB3 is implicated in, by any mechanism.

Microphthalmia, syndromic, 13 (MCOPS13) MIM:300915

Disease | ImmuneIEDB

Conditions an epitope on HMGB3 was assayed in.

systemic scleroderma B cell

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): 0.57
gnomAD pLI: 0.8
gnomAD missense Z: 1.78
DepMap mean gene effect: -0.03
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% 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

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads HMGB3 as an antibody target. Whether an autoantibody or antibody against HMGB3 could matter depends on whether native HMGB3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

HMGB3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label HMGB3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Loading the interactive Seroatlas protein explorer...