Seroatlas · Human Serome Atlas

MBD3

Methyl-CpG-binding domain protein 3

Also known as: MBD3_HUMAN

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

Protein identityUniProt · HPA

UniProt accession
O95983
Gene
MBD3
Ensembl
ENSG00000071655
Chromosome
19
Canonical length
291 aa
Protein class
Predicted intracellular proteins
Subcellular location
Nucleoplasm

OverviewNCBI Gene

DNA methylation is the major modification of eukaryotic genomes and plays an essential role in mammalian development. This gene belongs to a family of nuclear proteins which are characterized by the presence of a methyl-CpG binding domain (MBD). The encoded protein is a subunit of the NuRD, a multisubunit complex containing nucleosome remodeling and histone deacetylase activities. Unlike the other family members, the encoded protein is not capable of binding to methylated DNA. The protein mediates the association of metastasis-associated protein 2 with the core histone deacetylase complex. Alternative splicing results in multiple transcript variants of this gene. [provided by RefSeq, Jul 2013]

Canonical amino-acid sequenceUniProt

291 residues, UniProt reviewed canonical sequence.

>O95983|MBD3
     1  MERKRWECPA LPQGWEREEV PRRSGLSAGH RDVFYYSPSG KKFRSKPQLA RYLGGSMDLS
    61  TFDFRTGKML MSKMNKSRQR VRYDSSNQVK GKPDLNTALP VRQTASIFKQ PVTKITNHPS
   121  NKVKSDPQKA VDQPRQLFWE KKLSGLNAFD IAEELVKTMD LPKGLQGVGP GCTDETLLSA
   181  IASALHTSTM PITGQLSAAV EKNPGVWLNT TQPLCKAFMV TDEDIRKQEE LVQQVRKRLE
   241  EALMADMLAH VEELARDGEA PLDKACAEDD DEEDEEEEEE EPDPDPEMEH V

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against MBD3 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)
0.5
Highest tissue expression
19 nTPM

Expression across tissuesHPA

Tissue

  • skin: 19 nTPM
  • cerebellum: 15 nTPM
  • hippocampal formation: 13 nTPM
  • bone marrow: 12 nTPM
  • cerebral cortex: 12 nTPM
  • pituitary gland: 12 nTPM

Single-cell type

  • syncytiotrophoblasts: 150 nCPM
  • migrating cytotrophoblasts: 63 nCPM
  • extravillous trophoblasts: 51 nCPM
  • cytotrophoblasts: 51 nCPM
  • hepatocytes: 50 nCPM
  • megakaryocytes: 50 nCPM

Immune cell

  • basophil: 0.6 nTPM
  • plasmacytoid DC: 0.5 nTPM
  • intermediate monocyte: 0.4 nTPM
  • neutrophil: 0.4 nTPM
  • classical monocyte: 0.3 nTPM
  • gdT-cell: 0.3 nTPM

Brain region

  • cerebellum: 41 nTPM
  • cerebral cortex: 32 nTPM
  • hippocampal formation: 31 nTPM
  • medulla oblongata: 30 nTPM
  • white matter: 30 nTPM
  • amygdala: 29 nTPM

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)
0.26
gnomAD pLI
0.98
gnomAD missense Z
1.39
DepMap mean gene effect
-0.06
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% 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 MBD3 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 MBD3 as an antibody target. Whether an autoantibody or antibody against MBD3 could matter depends on whether native MBD3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

MBD3 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 MBD3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/MBD3. 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).

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