PPP1R11

gene
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Also known as HCGVTctex5HCG-VCFAP255

Summary

PPP1R11 (protein phosphatase 1 regulatory inhibitor subunit 11, HGNC:9285) is a protein-coding gene on chromosome 6p22.1, encoding E3 ubiquitin-protein ligase PPP1R11 (O60927). Atypical E3 ubiquitin-protein ligase which ubiquitinates TLR2 at ‘Lys-754’ leading to its degradation by the proteasome. It is a common-essential gene (DepMap: required in 92.1% of cancer cell lines).

This gene encodes a specific inhibitor of protein phosphatase-1 (PP1) with a differential sensitivity toward the metal-independent and metal-dependent forms of PP1. The gene is located within the major histocompatibility complex class I region on chromosome 6.

Source: NCBI Gene 6992 — RefSeq curated summary.

At a glance

  • GWAS associations: 25
  • Clinical variants (ClinVar): 17 total — 1 pathogenic
  • Cancer dependency (DepMap): dependent in 92.1% of screened cell lines (common-essential)
  • MANE Select transcript: NM_021959

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:9285
Approved symbolPPP1R11
Nameprotein phosphatase 1 regulatory inhibitor subunit 11
Location6p22.1
Locus typegene with protein product
StatusApproved
AliasesHCGV, Tctex5, HCG-V, CFAP255
Ensembl geneENSG00000204619
Ensembl biotypeprotein_coding
OMIM606670
Entrez6992

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 6 protein_coding

ENST00000376758, ENST00000376763, ENST00000376765, ENST00000376769, ENST00000376772, ENST00000376773

RefSeq mRNA: 1 — MANE Select: NM_021959 NM_021959

CCDS: CCDS4671

Canonical transcript exons

ENST00000376772 — 3 exons

ExonStartEnd
ENSE000016657763006910430070333
ENSE000019091143006719830067479
ENSE000036265143006859030068698

Expression profiles

Bgee: expression breadth ubiquitous, 133 present calls, max score 96.19.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 31.8231 / max 172.2434, expressed in 1817 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter IDTPM avgSamples expressed
6669730.15871817
666980.8207547
666960.4012174
666990.231178
667000.211473

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
rectumUBERON:000105296.19gold quality
superior frontal gyrusUBERON:000266196.02gold quality
smooth muscle tissueUBERON:000113595.92gold quality
mucosa of transverse colonUBERON:000499195.86gold quality
granulocyteCL:000009495.84gold quality
duodenumUBERON:000211495.77gold quality
bloodUBERON:000017895.67gold quality
colonic epitheliumUBERON:000039795.53gold quality
primary visual cortexUBERON:000243695.51gold quality
body of stomachUBERON:000116195.27gold quality
anterior cingulate cortexUBERON:000983595.25gold quality
cortical plateUBERON:000534395.21gold quality
dorsolateral prefrontal cortexUBERON:000983495.19gold quality
gall bladderUBERON:000211095.12gold quality
hypothalamusUBERON:000189895.10gold quality
lower esophagusUBERON:001347395.06gold quality
lower esophagus muscularis layerUBERON:003583395.06gold quality
leukocyteCL:000073895.00gold quality
transverse colonUBERON:000115794.98gold quality
fundus of stomachUBERON:000116094.94gold quality
popliteal arteryUBERON:000225094.93gold quality
tibial arteryUBERON:000761094.93gold quality
right frontal lobeUBERON:000281094.91gold quality
monocyteCL:000057694.88gold quality
Brodmann (1909) area 9UBERON:001354094.87gold quality
vermiform appendixUBERON:000115494.80gold quality
nucleus accumbensUBERON:000188294.80gold quality
amygdalaUBERON:000187694.76gold quality
esophagogastric junction muscularis propriaUBERON:003584194.75gold quality
temporal lobeUBERON:000187194.73gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes8.12

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

115 targeting PPP1R11, 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-4692100.0067.322066
HSA-MIR-3646100.0073.565283
HSA-MIR-4455100.0065.481587
HSA-MIR-6758-5P100.0066.211470
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-34A-5P99.9971.211784
HSA-MIR-449A99.9971.051776
HSA-MIR-451499.9967.101870
HSA-MIR-34C-5P99.9770.451577
HSA-MIR-449B-5P99.9770.261580
HSA-MIR-146A-5P99.9668.93988
HSA-MIR-146B-5P99.9669.13977
HSA-MIR-96-5P99.9572.802140
HSA-MIR-7153-5P99.9468.891006
HSA-MIR-497-5P99.9271.832674
HSA-MIR-1213399.9271.822006
HSA-MIR-1271-5P99.9171.991972
HSA-MIR-15A-5P99.9072.802787
HSA-MIR-15B-5P99.9072.782798
HSA-MIR-16-5P99.9072.802780
HSA-MIR-195-5P99.9072.812805
HSA-MIR-368699.9070.532432
HSA-MIR-424-5P99.8971.902641
HSA-MIR-6838-5P99.8971.942690
HSA-MIR-95-5P99.8972.173973
HSA-MIR-6780A-5P99.8866.692776
HSA-MIR-182-5P99.8774.032589
HSA-MIR-449299.8768.253611
HSA-MIR-221-5P99.8665.451052

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 92.1% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 5)

  • Sds22 and Inhibitor-3 form a heterotrimeric complex with PP1, both in cell lysates and after purification. A pool of PP1 is complexly controlled by both Sds22 and Inhibitor-3. (PMID:17630778)
  • inhibitor-3 is an in vivo target of caspase-3 and participates in the apoptotic response (PMID:18450750)
  • Inh3 has two domains that are required for its interaction with PP1. (PMID:18951879)
  • a model in which I3 regulates an SDS22-mediated PP1 activation step in solution that precedes SDS22 dissociation and transfer of PP1 to kinetochores, and which is required for PP1 to efficiently antagonize Aurora B. (PMID:25298395)
  • Lentiviral gene transfer or knockdown of PPP1R11 in mouse lungs significantly affects lung inflammation and the clearance of Staphylococcus aureus. There is a negative correlation between PPP1R11 and TLR2 levels in white blood cell samples isolated from patients with Staphylococcus aureus infections (PMID:27805901)

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
danio_rerioppp1r11ENSDARG00000036063
mus_musculusPpp1r11ENSMUSG00000036398
rattus_norvegicusPpp1r11ENSRNOG00000082306
drosophila_melanogasterCG13994FBGN0031772
drosophila_melanogasterI-3FBGN0261624
caenorhabditis_elegansWBGENE00015579

Protein

Protein identifiers

E3 ubiquitin-protein ligase PPP1R11O60927 (reviewed: O60927)

Alternative names: Hemochromatosis candidate gene V protein, Protein phosphatase 1 regulatory subunit 11, Protein phosphatase inhibitor 3

All UniProt accessions (3): O60927, A2BEK1, Q5SRK2

UniProt curated annotations — full annotation on UniProt →

Function. Atypical E3 ubiquitin-protein ligase which ubiquitinates TLR2 at ‘Lys-754’ leading to its degradation by the proteasome. Plays a role in regulating inflammatory cytokine release and gram-positive bacterial clearance by functioning, in part, through the ubiquitination and degradation of TLR2. Inhibitor of protein phosphatase 1.

Subunit / interactions. Interacts with TLR2 and UBE2D2.

Tissue specificity. Widely expressed.

Post-translational modifications. Auto-ubiquitinated.

Pathway. Protein modification; protein ubiquitination.

RefSeq proteins (1): NP_068778* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR011107PPI_Ypi1Family

Pfam: PF07491

UniProt features (23 total): modified residue 6, mutagenesis site 6, region of interest 4, compositionally biased region 3, initiator methionine 1, chain 1, turn 1, strand 1

Structure

Experimental structures (PDB)

3 structures.

PDBMethodResolution (Å)
8DWLX-RAY DIFFRACTION2
8DWKX-RAY DIFFRACTION2.5
8U5GX-RAY DIFFRACTION3.2

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O60927-F166.520.00

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (6): 73, 74, 75, 77, 109, 2

Mutagenesis-validated functional residues (6):

PositionPhenotype
52loss of function in inducing tlr2 degradation.
60–62loss of function in inducing tlr2 degradation.
85loss of function in inducing tlr2 degradation.
87loss of function in inducing tlr2 degradation.
89–90loss of function in inducing tlr2 degradation.
94loss of function in inducing tlr2 degradation.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 215 (showing top): TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, ENK_UV_RESPONSE_KERATINOCYTE_UP, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, GOBP_NEGATIVE_REGULATION_OF_MULTICELLULAR_ORGANISMAL_PROCESS, GOBP_CYTOKINE_PRODUCTION, MODULE_480, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, GOBP_DEFENSE_RESPONSE_TO_GRAM_POSITIVE_BACTERIUM, MODULE_226, GOBP_DEFENSE_RESPONSE_TO_BACTERIUM, GOBP_NEGATIVE_REGULATION_OF_CYTOKINE_PRODUCTION, CAGCCTC_MIR4855P, IVANOVA_HEMATOPOIESIS_EARLY_PROGENITOR, GOBP_PROTEIN_CATABOLIC_PROCESS, SCHLOSSER_SERUM_RESPONSE_UP

GO Biological Process (4): negative regulation of cytokine production (GO:0001818), ubiquitin-dependent protein catabolic process (GO:0006511), protein ubiquitination (GO:0016567), defense response to Gram-positive bacterium (GO:0050830)

GO Molecular Function (7): protein phosphatase inhibitor activity (GO:0004864), protein serine/threonine phosphatase inhibitor activity (GO:0004865), protein phosphatase 1 binding (GO:0008157), phosphatase binding (GO:0019902), ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), transferase activity (GO:0016740)

GO Cellular Component (2): nucleus (GO:0005634), cytoplasm (GO:0005737)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cytokine production1
regulation of cytokine production1
negative regulation of gene expression1
negative regulation of multicellular organismal process1
protein ubiquitination1
modification-dependent protein catabolic process1
protein modification by small protein conjugation1
defense response to bacterium1
phosphoprotein phosphatase activity1
phosphatase inhibitor activity1
protein phosphatase regulator activity1
protein serine/threonine phosphatase activity1
protein phosphatase inhibitor activity1
protein phosphatase binding1
enzyme binding1
ubiquitin-protein transferase activity1
ubiquitin-like protein ligase activity1
binding1
catalytic activity1
intracellular membrane-bounded organelle1
intracellular anatomical structure1
cellular anatomical structure1

Protein interactions and networks

STRING

1160 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PPP1R11HLA-AP01891718
PPP1R11PPP1R7Q15435717
PPP1R11TRIM26Q12899692
PPP1R11TRIM10Q9UDY6591
PPP1R11POLR1HQ9P1U0567
PPP1R11PPP1R2P41236556
PPP1R11PPP1R2BQ6NXS1554
PPP1R11MRPL39Q9NYK5532
PPP1R11GNL1P36915532
PPP1R11PRR3P79522522
PPP1R11TRIM39Q9HCM9521
PPP1R11MTG1Q9BT17520
PPP1R11PPP1R8Q12972507
PPP1R11PPP1CBP37140505
PPP1R11PPP1CCP36873481

IntAct

67 interactions, top by confidence:

ABTypeScore
PPP1R11PPP1CBpsi-mi:“MI:0915”(physical association)0.920
PPP1R11PPP1CCpsi-mi:“MI:0915”(physical association)0.850
PPP1CBCCDC85Cpsi-mi:“MI:0914”(association)0.750
PPP1CBCCDC85Cpsi-mi:“MI:2364”(proximity)0.750
PPP1CCCCDC85Cpsi-mi:“MI:0914”(association)0.740
PPP1CCCCDC85Cpsi-mi:“MI:2364”(proximity)0.740
PPP1CACCDC85Cpsi-mi:“MI:0914”(association)0.670
PPP1CACCDC85Cpsi-mi:“MI:2364”(proximity)0.670
PPP1R11YAF2psi-mi:“MI:0915”(physical association)0.560
PPP1R11IFT20psi-mi:“MI:0915”(physical association)0.560
CASP6PPP1R11psi-mi:“MI:0915”(physical association)0.560
PPP1R11FGFR3psi-mi:“MI:0915”(physical association)0.560
LAMP2PPP1R11psi-mi:“MI:0915”(physical association)0.560
RANPPP1R11psi-mi:“MI:0915”(physical association)0.560
PPP1R11OPTNpsi-mi:“MI:0915”(physical association)0.560
PPP1R11CLSTN1psi-mi:“MI:0915”(physical association)0.560
UBQLN1PPP1R11psi-mi:“MI:0915”(physical association)0.560

BioGRID (63): PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), DUT (Co-fractionation), PPP1CB (Co-fractionation), PPP1R11 (Co-fractionation), PPP1R11 (Co-fractionation), PPP1R11 (Co-fractionation), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS), PPP1R11 (Affinity Capture-MS)

ESM2 similar proteins: A0A098DPY0, A1CQN6, A2QPT2, A3GGT2, A3GGV1, A4HWF0, A4RD36, A5DNZ1, A5E203, A7A241, A7EXU7, A8P353, B0DX25, B0XPZ9, F5HI87, O60927, P04370, P13200, P14379, P43587, P63248, P63249, Q06428, Q07852, Q0USF2, Q1DR50, Q2GNY7, Q2UPG7, Q568K2, Q59ZU1, Q5I135, Q5TM51, Q66648, Q6BSZ8, Q6C0K1, Q6CNA0, Q6DDH0, Q6FUM5, Q6GLB0, Q6MFY6

Diamond homologs: A1CQN6, A2QPT2, A3GGT2, A3GGV1, A4RD36, A5DNZ1, A5E203, A7A241, A7EXU7, A7TSJ7, A8P353, B0DX25, B0XPZ9, O14218, O60927, P43587, Q0USF2, Q1DR50, Q2GNY7, Q2UPG7, Q568K2, Q59ZU1, Q59ZW4, Q5TM51, Q6BSZ8, Q6C0K1, Q6CNA0, Q6DDH0, Q6FUM5, Q6GLB0, Q6MFY6, Q750F0, Q7YR30, Q8K1L5, Q9P6B0, Q09384, A7TJT3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance10
Likely benign2
Benign0

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
150044GRCh38/hg38 6p25.2-21.33(chr6:3224310-30657190)x3Pathogenic

SpliceAI

621 predictions. Top by Δscore:

VariantEffectΔscore
6:30067175:G:Tdonor_gain1.0000
6:30067192:G:GGdonor_gain1.0000
6:30067208:G:GTdonor_gain1.0000
6:30067222:G:GTdonor_gain1.0000
6:30067222:G:Tdonor_gain1.0000
6:30067476:GCCC:Gdonor_gain1.0000
6:30068588:A:AGacceptor_gain1.0000
6:30068589:G:GAacceptor_gain1.0000
6:30068589:GGA:Gacceptor_gain1.0000
6:30068589:GGAGA:Gacceptor_gain1.0000
6:30068694:CAAAT:Cdonor_gain1.0000
6:30068695:AAAT:Adonor_gain1.0000
6:30068696:AAT:Adonor_gain1.0000
6:30068697:AT:Adonor_gain1.0000
6:30068699:G:GAdonor_loss1.0000
6:30068699:G:GGdonor_gain1.0000
6:30068700:T:Gdonor_loss1.0000
6:30068703:G:GGdonor_gain1.0000
6:30069100:CTAG:Cacceptor_loss1.0000
6:30069101:TA:Tacceptor_loss1.0000
6:30069102:AGGC:Aacceptor_loss1.0000
6:30069103:GGCT:Gacceptor_gain1.0000
6:30067170:G:GTdonor_gain0.9900
6:30067182:G:GTdonor_gain0.9900
6:30067215:C:Tdonor_gain0.9900
6:30067225:GTGGG:Gdonor_gain0.9900
6:30067363:G:GTdonor_gain0.9900
6:30067480:G:GGdonor_gain0.9900
6:30068584:TTCTA:Tacceptor_loss0.9900
6:30068585:TCTA:Tacceptor_loss0.9900

AlphaMissense

814 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:30068615:T:AL32H1.000
6:30068647:T:AW43R1.000
6:30068647:T:CW43R1.000
6:30068648:G:CW43S1.000
6:30068648:G:TW43L1.000
6:30068649:G:CW43C1.000
6:30068649:G:TW43C1.000
6:30068670:T:AN50K1.000
6:30068670:T:GN50K1.000
6:30068693:C:TS58F1.000
6:30069106:T:AC61S1.000
6:30069106:T:CC61R1.000
6:30069107:G:AC61Y1.000
6:30069107:G:CC61S1.000
6:30069109:T:CC62R1.000
6:30069115:T:GY64D1.000
6:30068609:T:AI30N0.999
6:30068609:T:CI30T0.999
6:30068615:T:CL32P0.999
6:30068642:T:AV41E0.999
6:30068665:G:CD49H0.999
6:30068666:A:TD49V0.999
6:30068668:A:GN50D0.999
6:30068669:A:TN50I0.999
6:30068671:G:AE51K0.999
6:30068672:A:TE51V0.999
6:30068673:A:CE51D0.999
6:30068673:A:TE51D0.999
6:30068683:C:AR55S0.999
6:30068692:T:CS58P0.999

dbSNP variants (sampled 300 via entrez): RS1000019458 (6:30068001 T>A), RS1000037913 (6:30065626 A>C), RS1000494152 (6:30066008 C>G,T), RS1000509720 (6:30067148 CTTTGACGCATTTGGTGCCGTGGAAGGGAAAAAGGGGGACTGCAGTA>C), RS1002141658 (6:30059986 G>A), RS1002410977 (6:30065515 A>C), RS1002460014 (6:30065948 G>T), RS1003323055 (6:30063259 A>G), RS1003387282 (6:30070680 A>G), RS1003414227 (6:30063764 G>A), RS1003930310 (6:30061134 T>A,C), RS1004942849 (6:30067185 G>GA), RS1005603451 (6:30063724 C>T), RS1006113721 (6:30064933 C>G), RS1006602894 (6:30062670 C>G)

Disease associations

OMIM: gene MIM:606670 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

25 associations (top):

StudyTraitp-value
GCST001392_18Lipid metabolism phenotypes3.000000e-29
GCST002324_6Anger8.000000e-07
GCST004521_12Autism spectrum disorder or schizophrenia2.000000e-12
GCST004521_121Autism spectrum disorder or schizophrenia3.000000e-13
GCST004521_171Autism spectrum disorder or schizophrenia4.000000e-14
GCST004521_177Autism spectrum disorder or schizophrenia3.000000e-12
GCST004521_2Autism spectrum disorder or schizophrenia2.000000e-16
GCST004521_210Autism spectrum disorder or schizophrenia5.000000e-15
GCST004521_216Autism spectrum disorder or schizophrenia5.000000e-13
GCST004521_218Autism spectrum disorder or schizophrenia5.000000e-11
GCST004521_247Autism spectrum disorder or schizophrenia4.000000e-09
GCST004521_263Autism spectrum disorder or schizophrenia7.000000e-17
GCST004521_268Autism spectrum disorder or schizophrenia7.000000e-12
GCST004521_269Autism spectrum disorder or schizophrenia7.000000e-11
GCST004521_295Autism spectrum disorder or schizophrenia6.000000e-18
GCST004521_3Autism spectrum disorder or schizophrenia2.000000e-15
GCST004521_44Autism spectrum disorder or schizophrenia2.000000e-17
GCST004521_51Autism spectrum disorder or schizophrenia9.000000e-14
GCST004521_56Autism spectrum disorder or schizophrenia1.000000e-22
GCST004521_58Autism spectrum disorder or schizophrenia1.000000e-17
GCST004521_59Autism spectrum disorder or schizophrenia1.000000e-11
GCST004521_70Autism spectrum disorder or schizophrenia8.000000e-20
GCST004521_79Autism spectrum disorder or schizophrenia1.000000e-16
GCST004521_80Autism spectrum disorder or schizophrenia1.000000e-15
GCST004521_92Autism spectrum disorder or schizophrenia1.000000e-11

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0004529lipid measurement
EFO:0003015aggressive behavior

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arseniteaffects cotreatment, decreases expression, increases abundance, increases expression3
Leadaffects methylation, decreases expression2
aristolochic acid Idecreases expression1
triphenyl phosphateaffects expression1
bisphenol Aaffects expression1
manganese chlorideaffects cotreatment, increases abundance, increases expression1
2-palmitoylglycerolincreases expression1
monomethylarsonous acidincreases expression1
ICG 001increases expression1
abrineincreases expression1
Resveratrolaffects cotreatment, decreases expression1
Decitabineaffects expression1
Arsenicaffects cotreatment, increases abundance, increases expression1
Benzo(a)pyreneincreases methylation1
Caffeinedecreases phosphorylation1
Cisplatinaffects expression1
Doxorubicindecreases expression1
Ivermectindecreases expression1
Manganeseaffects cotreatment, increases abundance, increases expression1
Plant Extractsaffects cotreatment, decreases expression1
Smokedecreases expression1
Tretinoinaffects cotreatment, decreases expression1
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxidedecreases expression1
Cyclosporineincreases expression1
Antirheumatic Agentsdecreases expression1
Cadmium Chlorideincreases 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.