Seroatlas · Human Serome Atlas

PSMD1

26S proteasome non-ATPase regulatory subunit 1

Also known as: P112, PSMD1_HUMAN, Rpn2, S1

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

Protein identityUniProt · HPA

UniProt accession: Q99460
Gene: PSMD1
Ensembl: ENSG00000173692
Chromosome: 2
Canonical length: 953 aa
Protein class: Plasma proteins, Predicted intracellular proteins, Predicted membrane proteins
Subcellular location: Nucleoplasm,Actin filaments

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 the largest non-ATPase subunit of the 19S regulator lid, which is responsible for substrate recognition and binding. There is evidence that this proteasome and its subunits interact with viral proteins, including those of coronaviruses. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Aug 2020]

Canonical amino-acid sequenceUniProt

953 residues, UniProt reviewed canonical sequence.

>Q99460|PSMD1
     1  MITSAAGIIS LLDEDEPQLK EFALHKLNAV VNDFWAEISE SVDKIEVLYE DEGFRSRQFA
    61  ALVASKVFYH LGAFEESLNY ALGAGDLFNV NDNSEYVETI IAKCIDHYTK QCVENADLPE
   121  GEKKPIDQRL EGIVNKMFQR CLDDHKYKQA IGIALETRRL DVFEKTILES NDVPGMLAYS
   181  LKLCMSLMQN KQFRNKVLRV LVKIYMNLEK PDFINVCQCL IFLDDPQAVS DILEKLVKED
   241  NLLMAYQICF DLYESASQQF LSSVIQNLRT VGTPIASVPG STNTGTVPGS EKDSDSMETE
   301  EKTSSAFVGK TPEASPEPKD QTLKMIKILS GEMAIELHLQ FLIRNNNTDL MILKNTKDAV
   361  RNSVCHTATV IANSFMHCGT TSDQFLRDNL EWLARATNWA KFTATASLGV IHKGHEKEAL
   421  QLMATYLPKD TSPGSAYQEG GGLYALGLIH ANHGGDIIDY LLNQLKNASN DIVRHGGSLG
   481  LGLAAMGTAR QDVYDLLKTN LYQDDAVTGE AAGLALGLVM LGSKNAQAIE DMVGYAQETQ
   541  HEKILRGLAV GIALVMYGRM EEADALIESL CRDKDPILRR SGMYTVAMAY CGSGNNKAIR
   601  RLLHVAVSDV NDDVRRAAVE SLGFILFRTP EQCPSVVSLL SESYNPHVRY GAAMALGICC
   661  AGTGNKEAIN LLEPMTNDPV NYVRQGALIA SALIMIQQTE ITCPKVNQFR QLYSKVINDK
   721  HDDVMAKFGA ILAQGILDAG GHNVTISLQS RTGHTHMPSV VGVLVFTQFW FWFPLSHFLS
   781  LAYTPTCVIG LNKDLKMPKV QYKSNCKPST FAYPAPLEVP KEKEKEKVST AVLSITAKAK
   841  KKEKEKEKKE EEKMEVDEAE KKEEKEKKKE PEPNFQLLDN PARVMPAQLK VLTMPETCRY
   901  QPFKPLSIGG IIILKDTSED IEELVEPVAA HGPKIEEEEQ EPEPPEPFEY IDD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PSMD1 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): 0.27
Highest tissue expression: 121 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 121 nTPM
tongue: 76 nTPM
parathyroid gland: 68 nTPM
cerebral cortex: 43 nTPM
smooth muscle: 42 nTPM
heart muscle: 42 nTPM

Single-cell type

early primary spermatocytes: 377 nCPM
myonuclei: 274 nCPM
syncytiotrophoblasts: 267 nCPM
erythrocyte progenitors: 263 nCPM
somatotrophs: 220 nCPM
alveolar cells type 1: 209 nCPM

Immune cell

non-classical monocyte: 43 nTPM
intermediate monocyte: 39 nTPM
NK-cell: 36 nTPM
basophil: 35 nTPM
T-reg: 32 nTPM
myeloid DC: 31 nTPM

Brain region

cerebral cortex: 52 nTPM
hypothalamus: 48 nTPM
pons: 47 nTPM
hippocampal formation: 45 nTPM
medulla oblongata: 44 nTPM
basal ganglia: 41 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): 0.12
gnomAD pLI: 1
gnomAD missense Z: 3.7
DepMap mean gene effect: -1.29
DepMap dependency class: common

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

Proteasome/cyclosome repeat
Armadillo-like helical
Armadillo-type fold
Proteasome/cyclosome repeat
HEAT repeats
26S proteasome regulatory complex, non-ATPase subcomplex, Rpn2/Psmd1 subunit
26S proteasome regulatory subunit RPN2, C-terminal
26S proteasome non-ATPase regulatory subunit 1/RPN2, N-terminal domain
26S proteasome regulatory subunit RPN2 C-terminal domain
26S proteasome subunit RPN2, N-terminal domain

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PSMD1 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 PSMD1 as an antibody target. Whether an autoantibody or antibody against PSMD1 could matter depends on whether native PSMD1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PSMD1 is annotated as secreted, so native PSMD1 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 PSMD1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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