PSMG4

gene
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Also known as PAC4

Summary

PSMG4 (proteasome assembly chaperone 4, HGNC:21108) is a protein-coding gene on chromosome 6p25.2, encoding Proteasome assembly chaperone 4 (Q5JS54). Chaperone protein which promotes assembly of the 20S proteasome. It is a common-essential gene (DepMap: required in 98.7% of cancer cell lines).

Predicted to be involved in proteasome assembly. Predicted to be located in cytosol. Predicted to be part of protein-containing complex.

Source: NCBI Gene 389362 — RefSeq curated summary.

At a glance

  • GWAS associations: 34
  • Clinical variants (ClinVar): 25 total
  • Cancer dependency (DepMap): dependent in 98.7% of screened cell lines (common-essential)
  • MANE Select transcript: NM_001128591

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:21108
Approved symbolPSMG4
Nameproteasome assembly chaperone 4
Location6p25.2
Locus typegene with protein product
StatusApproved
AliasesPAC4
Ensembl geneENSG00000180822
Ensembl biotypeprotein_coding
OMIM617550
Entrez389362

Gene structure

Transcript identifiers

Ensembl transcripts: 13 — 10 protein_coding, 2 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000324987, ENST00000380305, ENST00000380306, ENST00000416079, ENST00000419065, ENST00000438998, ENST00000451246, ENST00000454610, ENST00000473000, ENST00000509933, ENST00000884818, ENST00000932962, ENST00000932963

RefSeq mRNA: 3 — MANE Select: NM_001128591 NM_001128591, NM_001128592, NM_001135750

CCDS: CCDS47360, CCDS47361, CCDS47362

Canonical transcript exons

ENST00000438998 — 3 exons

ExonStartEnd
ENSE0000198966532636843263759
ENSE0000205934432675913268049
ENSE0000206676432589473259196

Expression profiles

Bgee: expression breadth ubiquitous, 253 present calls, max score 95.36.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 19.7065 / max 160.7488, expressed in 1806 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter IDTPM avgSamples expressed
6552818.81481802
655270.8917640

Top tissues by expression

254 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
oocyteCL:000002395.36gold quality
parotid glandUBERON:000183194.19gold quality
saphenous veinUBERON:000731893.51gold quality
body of tongueUBERON:001187692.99gold quality
vastus lateralisUBERON:000137992.90gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451192.75gold quality
synovial jointUBERON:000221792.71gold quality
gingival epitheliumUBERON:000194992.67gold quality
tongueUBERON:000172392.60gold quality
quadriceps femorisUBERON:000137792.59gold quality
superior surface of tongueUBERON:000737192.40gold quality
corpus epididymisUBERON:000435992.33gold quality
upper arm skinUBERON:000426392.19gold quality
oviduct epitheliumUBERON:000480491.86gold quality
penisUBERON:000098991.80gold quality
tracheaUBERON:000312691.73gold quality
pylorusUBERON:000116691.59gold quality
pharyngeal mucosaUBERON:000035591.33gold quality
layer of synovial tissueUBERON:000761691.33gold quality
biceps brachiiUBERON:000150791.30gold quality
nucleus accumbensUBERON:000188291.19gold quality
pericardiumUBERON:000240791.18gold quality
calcaneal tendonUBERON:000370191.18gold quality
cardia of stomachUBERON:000116291.17gold quality
gingivaUBERON:000182891.11gold quality
body of pancreasUBERON:000115091.00gold quality
nippleUBERON:000203090.94gold quality
nasal cavity mucosaUBERON:000182690.90gold quality
skeletal muscle tissueUBERON:000113490.77gold quality
ponsUBERON:000098890.71gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes7.50

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

22 targeting PSMG4, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-493-5P99.9672.472382
HSA-LET-7C-3P99.9573.422862
HSA-LET-7A-2-3P99.8770.531921
HSA-LET-7G-3P99.8570.431929
HSA-MIR-576-5P99.8470.462582
HSA-MIR-442299.7272.072908
HSA-MIR-472999.6972.184233
HSA-MIR-4762-5P99.5768.541424
HSA-MIR-642A-5P99.5165.101152
HSA-MIR-5571-5P99.4966.991764
HSA-MIR-391599.4568.491905
HSA-MIR-499A-3P99.1869.201392
HSA-MIR-499B-3P99.1869.271391
HSA-MIR-474499.0169.911581
HSA-MIR-6770-5P98.9766.761853
HSA-MIR-6769B-5P98.7364.911092
HSA-MIR-4733-3P98.3565.20994
HSA-MIR-6769A-5P97.9964.16851
HSA-MIR-450996.1965.80900
HSA-MIR-6823-3P95.4566.14704
HSA-MIR-1234-3P86.7058.45109
HSA-MIR-7107-5P86.7059.28110

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 98.7% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 2)

  • a crystal structure of human PAC4 at 1.90-A resolution. Crystallographic data identify a hydrophobic surface that is surrounded by charged residues. The hydrophobic surface is complementary to that of its binding partner, PAC3. (PMID:28263418)
  • PSMG4 and NLRP5 appear of particular interest as they were found to be associated with more than one clinical phenotype and are implicated in biological processes considered relevant to the pathophysiology of MS. Also, PSMG4 p.W99R and NLRP5 p.R761L were found to correlate with an earlier age of MS clinical onset. Our data suggests PSMG4 and NLPR5 as potential targets for the development of modifying therapies for MS. (PMID:28501589)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
mus_musculusPsmg4ENSMUSG00000071451
rattus_norvegicusPsmg4ENSRNOG00000039265
rattus_norvegicusENSRNOG00000079347

Protein

Protein identifiers

Proteasome assembly chaperone 4Q5JS54 (reviewed: Q5JS54)

Alternative names: Proteasome chaperone homolog 4

All UniProt accessions (7): Q5JS54, D6R926, D6RB92, D6REN3, E2QRC7, F2Z3E0, H7C465

UniProt curated annotations — full annotation on UniProt →

Function. Chaperone protein which promotes assembly of the 20S proteasome.

Subunit / interactions. Interacts with PSMG3. Associates with alpha subunits of the 20S proteasome.

Similarity. Belongs to the PSMG4 family.

Isoforms (3)

UniProt IDNamesCanonical?
Q5JS54-11yes
Q5JS54-22
Q5JS54-33

RefSeq proteins (3): NP_001122063, NP_001122064, NP_001129222 (=MANE)

Domains & families (InterPro)

IDNameType
IPR032157PAC4Family

Pfam: PF16093

UniProt features (15 total): strand 7, helix 3, splice variant 2, chain 1, sequence variant 1, sequence conflict 1

Structure

Experimental structures (PDB)

3 structures.

PDBMethodResolution (Å)
5WTQX-RAY DIFFRACTION1.9
8QYJELECTRON MICROSCOPY2.73
8TM3ELECTRON MICROSCOPY3

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q5JS54-F187.780.60

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-9907900Proteasome assembly

MSigDB gene sets: 78 (showing top): GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, GOBP_PROTEASOME_ASSEMBLY, chr6p25, YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_13, BERTUCCI_MEDULLARY_VS_DUCTAL_BREAST_CANCER_UP, REACTOME_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_DN, RATTENBACHER_BOUND_BY_CELF1, GOCC_PROTEIN_FOLDING_CHAPERONE_COMPLEX, GOMF_PROTEIN_CONTAINING_COMPLEX_BINDING, CREB3L4_TARGET_GENES, FOXG1_TARGET_GENES, HOXA10_TARGET_GENES, SALL4_TARGET_GENES

GO Biological Process (1): proteasome assembly (GO:0043248)

GO Molecular Function (1): protein-containing complex binding (GO:0044877)

GO Cellular Component (2): cytosol (GO:0005829), protein-containing complex (GO:0032991)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Post-translational protein modification1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
protein-containing complex assembly1
binding1
cytoplasm1
cellular anatomical structure1
cellular_component1

Protein interactions and networks

STRING

472 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PSMG4PSMG3Q9BT73997
PSMG4POMPQ9Y244787
PSMG4PSMG2Q969U7661
PSMG4PAAF1Q9BRP4581
PSMG4PSMG1O95456548
PSMG4PSMD4P55036546
PSMG4PSME4Q14997541
PSMG4PSMF1Q92530540
PSMG4PSMD9O00233488
PSMG4ECPASQ5VYK3477
PSMG4SLC13A4Q9UKG4471
PSMG4PSMB10P40306455
PSMG4ANAPC15P60006437
PSMG4ADRM1Q16186431
PSMG4PSMD12O00232420

IntAct

81 interactions, top by confidence:

ABTypeScore
PSMA1PSMA7psi-mi:“MI:0914”(association)0.950
PSMA2PSMA7psi-mi:“MI:0914”(association)0.850
PSMG2PSMG1psi-mi:“MI:0914”(association)0.850
PSMA5PSMA7psi-mi:“MI:0914”(association)0.800
PSMB7PSMA7psi-mi:“MI:0914”(association)0.790
POMPPSMA7psi-mi:“MI:0915”(physical association)0.720
IMP3MPHOSPH10psi-mi:“MI:0914”(association)0.670
PSMB3PSMD11psi-mi:“MI:0914”(association)0.640
CA10WDHD1psi-mi:“MI:0914”(association)0.640
PSMB7PSMD11psi-mi:“MI:0914”(association)0.640
PSMB9PSMD11psi-mi:“MI:0914”(association)0.530
ZMAT5DENND4Bpsi-mi:“MI:0914”(association)0.530
DCDC2BHSPA8psi-mi:“MI:0914”(association)0.530
FOXD4PDHXpsi-mi:“MI:0914”(association)0.530
AVPI1UNC119Bpsi-mi:“MI:0914”(association)0.530
PSMG2PSMA7psi-mi:“MI:0914”(association)0.530
MRPS34ZZEF1psi-mi:“MI:0914”(association)0.530
PSMA7PSMG1psi-mi:“MI:0914”(association)0.530

BioGRID (83): PSMG4 (Affinity Capture-MS), PSMG4 (Affinity Capture-MS), PSMG4 (Affinity Capture-MS), PSMG4 (Affinity Capture-MS), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Co-fractionation), PSMG4 (Affinity Capture-MS), PSMG4 (Affinity Capture-MS), PSMG4 (Affinity Capture-MS)

ESM2 similar proteins: A2YPT7, A3KPF2, A3KPP3, A7SKJ3, A7TTC4, O01757, O75002, O95163, P40123, P47123, P47758, P52481, P53738, Q09454, Q14AI0, Q2TAQ1, Q32PE2, Q3SYG4, Q4FZX7, Q501D5, Q54ML6, Q5JS54, Q5R5X8, Q5YLB4, Q66I84, Q6AX60, Q6C619, Q6GL75, Q6GMB0, Q6PD82, Q74ZJ1, Q7TT37, Q7XI75, Q811G0, Q84W92, Q8LPK4, Q8LPL6, Q8VHU4, Q8WND5, Q8X0S4

Diamond homologs: P0C7N9, P0C8Z5, Q5JS54

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 79 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Antigen processing: Ub, ATP-independent proteasomal degradation893.2×5e-13
Proteasome assembly1458.3×1e-19
Cross-presentation of soluble exogenous antigens (endosomes)1051.8×2e-13
Regulation of activated PAK-2p34 by proteasome mediated degradation951.2×3e-12
AUF1 (hnRNP D0) binds and destabilizes mRNA1050.7×2e-13
Regulation of ornithine decarboxylase (ODC)949.9×3e-12
Vpu mediated degradation of CD4948.8×3e-12
Autodegradation of the E3 ubiquitin ligase COP1948.8×3e-12

GO biological processes:

GO termPartnersFoldFDR
proteasome-mediated ubiquitin-dependent protein catabolic process128.8×3e-06

Disease & clinical

Clinical variants and AI predictions

ClinVar

25 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance19
Likely benign3
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1596 predictions. Top by Δscore:

VariantEffectΔscore
6:3259192:GCTAC:Gdonor_gain1.0000
6:3259193:C:Gdonor_gain1.0000
6:3259197:G:GGdonor_gain1.0000
6:3283971:CATCC:Cacceptor_gain1.0000
6:3283973:TCC:Tacceptor_gain1.0000
6:3283974:CCC:Cacceptor_gain1.0000
6:3283975:CCT:Cacceptor_loss1.0000
6:3283976:C:CCacceptor_gain1.0000
6:3283976:CT:Cacceptor_loss1.0000
6:3285152:C:CTacceptor_gain1.0000
6:3285152:C:Tacceptor_gain1.0000
6:3285153:A:Tacceptor_gain1.0000
6:3285156:C:CTacceptor_gain1.0000
6:3285157:A:Tacceptor_gain1.0000
6:3285160:C:CTacceptor_gain1.0000
6:3285161:G:Tacceptor_gain1.0000
6:3286857:A:ACdonor_gain1.0000
6:3286858:C:CCdonor_gain1.0000
6:3289762:A:ACdonor_gain1.0000
6:3289763:C:CCdonor_gain1.0000
6:3289763:CG:Cdonor_gain1.0000
6:3289862:CAGCT:Cacceptor_gain1.0000
6:3289865:CT:Cacceptor_gain1.0000
6:3289867:C:CCacceptor_gain1.0000
6:3298086:CTCA:Cdonor_loss1.0000
6:3298087:TCA:Tdonor_loss1.0000
6:3298088:CACCT:Cdonor_loss1.0000
6:3298090:C:CTdonor_loss1.0000
6:3298217:TC:Tacceptor_gain1.0000
6:3298218:CCT:Cacceptor_gain1.0000

AlphaMissense

807 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:3259071:T:CF17L0.999
6:3259073:C:AF17L0.999
6:3259073:C:GF17L0.999
6:3259104:T:CF28L0.999
6:3259106:C:AF28L0.999
6:3259106:C:GF28L0.999
6:3259140:T:AW40R0.999
6:3259140:T:CW40R0.999
6:3259146:G:AG42R0.999
6:3259146:G:CG42R0.999
6:3259146:G:TG42W0.999
6:3259147:G:AG42E0.999
6:3259180:C:AA53D0.999
6:3263748:C:AA80D0.999
6:3267618:T:AV93D0.999
6:3267620:A:CS94R0.999
6:3267622:C:AS94R0.999
6:3267622:C:GS94R0.999
6:3267675:T:AI112N0.999
6:3267707:T:CF123L0.999
6:3267708:T:CF123S0.999
6:3267709:C:AF123L0.999
6:3267709:C:GF123L0.999
6:3259105:T:CF28S0.998
6:3259120:T:CL33P0.998
6:3259138:T:CL39P0.998
6:3259142:G:CW40C0.998
6:3259142:G:TW40C0.998
6:3259147:G:TG42V0.998
6:3259171:T:CL50P0.998

dbSNP variants (sampled 300 via entrez): RS1000024859 (6:3257333 A>G), RS1000035343 (6:3261155 G>A), RS1000115373 (6:3255305 T>A), RS1000263555 (6:3254053 C>A,T), RS1000293049 (6:3253993 C>T), RS1000544705 (6:3257522 A>G), RS1000550946 (6:3255245 T>C), RS1000600851 (6:3254430 T>A,C,G), RS1000636257 (6:3265208 C>T), RS1000789580 (6:3255316 G>A), RS1000946164 (6:3255378 TTTG>T), RS1001027049 (6:3261937 C>A,G,T), RS1001192732 (6:3254465 CTT>C,CT,CTTT), RS1001396333 (6:3262515 C>G,T), RS1001465794 (6:3259164 C>G)

Disease associations

OMIM: gene MIM:617550 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

34 associations (top):

StudyTraitp-value
GCST010796_4376Electrocardiogram morphology (amplitude at temporal datapoints)6.000000e-10
GCST010796_4377Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-10
GCST010796_4378Electrocardiogram morphology (amplitude at temporal datapoints)2.000000e-09
GCST010796_4379Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-08
GCST010796_4380Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-08
GCST010796_4423Electrocardiogram morphology (amplitude at temporal datapoints)7.000000e-13
GCST010796_4424Electrocardiogram morphology (amplitude at temporal datapoints)7.000000e-11
GCST010796_4425Electrocardiogram morphology (amplitude at temporal datapoints)7.000000e-10
GCST010796_4451Electrocardiogram morphology (amplitude at temporal datapoints)5.000000e-09
GCST010796_4452Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-08
GCST010796_4453Electrocardiogram morphology (amplitude at temporal datapoints)6.000000e-10
GCST010796_4454Electrocardiogram morphology (amplitude at temporal datapoints)5.000000e-10
GCST010796_4455Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-09
GCST010796_4456Electrocardiogram morphology (amplitude at temporal datapoints)2.000000e-08
GCST010796_4457Electrocardiogram morphology (amplitude at temporal datapoints)3.000000e-10
GCST010796_4458Electrocardiogram morphology (amplitude at temporal datapoints)9.000000e-12
GCST010796_4459Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-10
GCST010796_4460Electrocardiogram morphology (amplitude at temporal datapoints)3.000000e-12
GCST010796_4461Electrocardiogram morphology (amplitude at temporal datapoints)4.000000e-12
GCST010796_4462Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-10
GCST010796_4463Electrocardiogram morphology (amplitude at temporal datapoints)3.000000e-10
GCST010796_4464Electrocardiogram morphology (amplitude at temporal datapoints)4.000000e-11
GCST010796_4465Electrocardiogram morphology (amplitude at temporal datapoints)3.000000e-10
GCST010796_4466Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-08
GCST010796_4467Electrocardiogram morphology (amplitude at temporal datapoints)6.000000e-09
GCST010796_4468Electrocardiogram morphology (amplitude at temporal datapoints)3.000000e-10
GCST010796_4469Electrocardiogram morphology (amplitude at temporal datapoints)2.000000e-11
GCST010796_4470Electrocardiogram morphology (amplitude at temporal datapoints)2.000000e-11
GCST010796_4471Electrocardiogram morphology (amplitude at temporal datapoints)1.000000e-11
GCST010796_4472Electrocardiogram morphology (amplitude at temporal datapoints)4.000000e-11

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0004327electrocardiography

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

41 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
bisphenol Aaffects expression, increases abundance, decreases expression, affects cotreatment2
Phenylmercuric Acetateaffects cotreatment, increases expression2
Tretinoindecreases expression2
aristolochic acid Iincreases expression1
GSK-J4decreases expression1
ginger extractaffects cotreatment, affects expression, increases abundance1
sodium arsenitedecreases expression1
butyraldehydedecreases expression1
isobutyl alcoholaffects cotreatment, decreases expression, increases abundance1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
Grape Seed Proanthocyanidinsaffects cotreatment, increases expression1
dorsomorphinaffects cotreatment, increases expression1
jinfukangincreases expression1
(+)-JQ1 compounddecreases expression1
Temozolomideincreases expression1
Acetaminophendecreases expression1
Air Pollutantsaffects expression, increases abundance1
Cadmiumincreases abundance, increases expression1
Catechinincreases expression, affects cotreatment1
Dimethyl Sulfoxideincreases expression1
Ethyl Methanesulfonatedecreases expression1
Formaldehydedecreases expression1
Gasolineaffects cotreatment, decreases expression, increases abundance1
Ivermectindecreases expression1
Ketoconazoleincreases expression1
Methyl Methanesulfonatedecreases expression1
Oils, Volatileaffects cotreatment, affects expression, increases abundance1
Ozoneaffects expression, increases abundance1
Polycyclic Aromatic Hydrocarbonsaffects cotreatment, decreases expression, increases abundance1
Quercetindecreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.