Seroatlas · Human Serome Atlas

PSMD4

26S proteasome non-ATPase regulatory subunit 4

Also known as: AF, AF-1, PSMD4_HUMAN, Rpn10, S5A

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

Protein identityUniProt · HPA

UniProt accession: P55036
Gene: PSMD4
Ensembl: ENSG00000159352
Chromosome: 1
Canonical length: 377 aa
Protein class: Cancer-related genes, Predicted intracellular proteins
Subcellular location: Nucleoplasm,Cytosol

OverviewNCBI Gene

The 26S proteasome is a multicatalytic proteinase complex with a highly ordered structure composed of 2 complexes, a 20S core and a 19S regulator. The 20S core is composed of 4 rings of 28 non-identical subunits; 2 rings are composed of 7 alpha subunits and 2 rings are composed of 7 beta subunits. The 19S regulator is composed of a base, which contains 6 ATPase subunits and 2 non-ATPase subunits, and a lid, which contains up to 10 non-ATPase subunits. Proteasomes are distributed throughout eukaryotic cells at a high concentration and cleave peptides in an ATP/ubiquitin-dependent process in a non-lysosomal pathway. An essential function of a modified proteasome, the immunoproteasome, is the processing of class I MHC peptides. This gene encodes one of the non-ATPase subunits of the 19S regulator lid. Pseudogenes have been identified on chromosomes 10 and 21. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

377 residues, UniProt reviewed canonical sequence.

>P55036|PSMD4
     1  MVLESTMVCV DNSEYMRNGD FLPTRLQAQQ DAVNIVCHSK TRSNPENNVG LITLANDCEV
    61  LTTLTPDTGR ILSKLHTVQP KGKITFCTGI RVAHLALKHR QGKNHKMRII AFVGSPVEDN
   121  EKDLVKLAKR LKKEKVNVDI INFGEEEVNT EKLTAFVNTL NGKDGTGSHL VTVPPGPSLA
   181  DALISSPILA GEGGAMLGLG ASDFEFGVDP SADPELALAL RVSMEEQRQR QEEEARRAAA
   241  ASAAEAGIAT TGTEDSDDAL LKMTISQQEF GRTGLPDLSS MTEEEQIAYA MQMSLQGAEF
   301  GQAESADIDA SSAMDTSEPA KEEDDYDVMQ DPEFLQSVLE NLPGVDPNNE AIRNAMGSLA
   361  SQATKDGKKD KKEEDKK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PSMD4 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): 0.41
Highest tissue expression: 397 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 397 nTPM
choroid plexus: 189 nTPM
midbrain: 189 nTPM
heart muscle: 184 nTPM
amygdala: 182 nTPM
cerebral cortex: 178 nTPM

Single-cell type

late primary spermatocytes: 535 nCPM
syncytiotrophoblasts: 506 nCPM
cytotrophoblasts: 397 nCPM
late spermatids: 325 nCPM
migrating cytotrophoblasts: 323 nCPM
esophageal apical cells: 308 nCPM

Immune cell

eosinophil: 716 nTPM
total PBMC: 651 nTPM
neutrophil: 583 nTPM
non-classical monocyte: 505 nTPM
intermediate monocyte: 478 nTPM
T-reg: 478 nTPM

Brain region

midbrain: 121 nTPM
pons: 107 nTPM
medulla oblongata: 104 nTPM
hypothalamus: 99 nTPM
spinal cord: 96 nTPM
thalamus: 96 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): 0.17
gnomAD pLI: 1
gnomAD missense Z: 2.53
DepMap mean gene effect: -1.48
DepMap dependency class: common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 13% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

proteasome-mediated ubiquitin-dependent protein catabolic process

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

von Willebrand factor, type A
Ubiquitin interacting motif
von Willebrand factor A-like domain superfamily
PSMD4, RAZUL domain
Ubiquitin interaction motif
von Willebrand factor type A domain
26S proteasome non-ATPase regulatory subunit 4

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PSMD4 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 PSMD4 as an antibody target. Whether an autoantibody or antibody against PSMD4 could matter depends on whether native PSMD4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PSMD4 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 PSMD4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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