ARHGAP33

gene
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Also known as FLJ39019TCGAP

Summary

ARHGAP33 (Rho GTPase activating protein 33, HGNC:23085) is a protein-coding gene on chromosome 19q13.12, encoding Rho GTPase-activating protein 33 (O14559). May be involved in several stages of intracellular trafficking.

This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. Alternative splice variants encoding different isoforms have been identified in this gene.

Source: NCBI Gene 115703 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): complex neurodevelopmental disorder (Limited, GenCC)
  • GWAS associations: 3
  • Clinical variants (ClinVar): 210 total — 1 pathogenic
  • MANE Select transcript: NM_001366178

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:23085
Approved symbolARHGAP33
NameRho GTPase activating protein 33
Location19q13.12
Locus typegene with protein product
StatusApproved
AliasesFLJ39019, TCGAP
Ensembl geneENSG00000004777
Ensembl biotypeprotein_coding
OMIM614902
Entrez115703

Gene structure

Transcript identifiers

Ensembl transcripts: 12 — 4 protein_coding, 4 retained_intron, 3 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay

ENST00000007510, ENST00000221905, ENST00000314737, ENST00000378944, ENST00000586918, ENST00000587984, ENST00000588248, ENST00000589133, ENST00000590893, ENST00000591438, ENST00000593034, ENST00000601474

RefSeq mRNA: 3 — MANE Select: NM_001366178 NM_001172630, NM_001366178, NM_052948

CCDS: CCDS12477, CCDS54254, CCDS92599

Canonical transcript exons

ENST00000007510 — 21 exons

ExonStartEnd
ENSE000006992353578716835788822
ENSE000006992373578641335787072
ENSE000006994233578115035781252
ENSE000006994263578092035781072
ENSE000006994293578042135780498
ENSE000008628413578495335785106
ENSE000012728233578075735780816
ENSE000012728313578058235780648
ENSE000012729183578021135780333
ENSE000034751123578276235782869
ENSE000035255073577556435775664
ENSE000035479913578417235784317
ENSE000035497583578237335782517
ENSE000035534773578518935785334
ENSE000036652263578540935785483
ENSE000036962293577782435777908
ENSE000036973043578259735782679
ENSE000037012133577846435778601
ENSE000037019343577828035778360
ENSE000037024133577764535777742
ENSE000037568243577903235779124

Expression profiles

Bgee: expression breadth ubiquitous, 229 present calls, max score 98.52.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 8.2073 / max 263.4675, expressed in 1345 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
1754057.58951315
1754040.3090134
1754060.176376
1754030.132553

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
cortical plateUBERON:000534398.52gold quality
ganglionic eminenceUBERON:000402397.86gold quality
ventricular zoneUBERON:000305397.67gold quality
right uterine tubeUBERON:000130297.50gold quality
right hemisphere of cerebellumUBERON:001489096.93gold quality
right frontal lobeUBERON:000281096.43gold quality
C1 segment of cervical spinal cordUBERON:000646996.41gold quality
cerebellar hemisphereUBERON:000224596.02gold quality
adenohypophysisUBERON:000219695.89gold quality
cerebellar cortexUBERON:000212995.70gold quality
right testisUBERON:000453495.32gold quality
left testisUBERON:000453395.31gold quality
right ovaryUBERON:000211895.20gold quality
pituitary glandUBERON:000000794.81gold quality
left ovaryUBERON:000211994.79gold quality
nucleus accumbensUBERON:000188294.44gold quality
spinal cordUBERON:000224094.12gold quality
amygdalaUBERON:000187693.52gold quality
Brodmann (1909) area 9UBERON:001354093.11gold quality
cerebellumUBERON:000203793.10gold quality
caudate nucleusUBERON:000187392.90gold quality
body of uterusUBERON:000985392.72gold quality
endocervixUBERON:000045892.52gold quality
cingulate cortexUBERON:000302792.52gold quality
tibial nerveUBERON:000132392.38gold quality
testisUBERON:000047392.32gold quality
putamenUBERON:000187492.24gold quality
anterior cingulate cortexUBERON:000983592.23gold quality
type B pancreatic cellCL:000016992.19silver quality
sural nerveUBERON:001548891.77gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 0.

ExperimentMarker?Max mean expression
E-MTAB-6142no32.80
E-ANND-3no2.41

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

33 targeting ARHGAP33, 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-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-520D-5P99.9873.344883
HSA-MIR-524-5P99.9873.434882
HSA-MIR-3151-5P99.8663.831069
HSA-MIR-444799.8567.812900
HSA-MIR-6739-5P99.8067.872806
HSA-MIR-6733-5P99.7467.942759
HSA-MIR-1296-3P99.7264.04636
HSA-MIR-447299.5666.081478
HSA-MIR-315399.5567.592337
HSA-MIR-1212399.5271.792990
HSA-MIR-409-3P99.5066.331192
HSA-MIR-664A-3P99.2271.082696
HSA-MIR-6852-5P99.1766.692073
HSA-MIR-491-5P99.1365.981468
HSA-MIR-425499.1165.151315
HSA-MIR-315498.9466.551455
HSA-MIR-7851-3P98.7264.88980
HSA-MIR-7155-5P98.6566.141290
HSA-MIR-950098.6266.541845
HSA-MIR-6755-3P98.6166.90834
HSA-MIR-7114-3P98.4266.53569
HSA-MIR-6804-5P98.3965.771084
HSA-MIR-6864-5P98.3866.591079
HSA-MIR-1180-5P98.1665.32460
HSA-MIR-490-3P97.7965.54606
HSA-MIR-203B-5P97.2468.54543
HSA-MIR-6718-5P97.2468.15553
HSA-MIR-6515-5P97.0865.481219

Literature-anchored findings (GeneRIF, showing 3)

  • TCGAP interacts with Fyn and is phosphorylated by Fyn, with tyrosine-406 in the GTPase-activating protein (GAP) domain as a major Fyn-mediated phosphorylation site. (PMID:16777849)
  • Results show that neurite outgrowth multiadaptor RhoGAP protein, NOMA-GAP, plays an essential role downstream of NGF in promoting neurite outgrowth and extension by recruiting SHP2 and activating Cdc42. (PMID:17664338)
  • ARHGAP33 is associated with brain phenotypes of patients with schizophrenia. (PMID:26839058)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
mus_musculusArhgap33ENSMUSG00000036882
rattus_norvegicusArhgap33ENSRNOG00000024677
drosophila_melanogasterCdGAPrFBGN0032821
caenorhabditis_elegansWBGENE00009800

Paralogs (3): ARHGAP31 (ENSG00000031081), ARHGAP32 (ENSG00000134909), ARHGAP30 (ENSG00000186517)

Protein

Protein identifiers

Rho GTPase-activating protein 33O14559 (reviewed: O14559)

Alternative names: Rho-type GTPase-activating protein 33, Sorting nexin-26, Tc10/CDC42 GTPase-activating protein

All UniProt accessions (4): O14559, A0A0A0MQQ9, K7EK14, K7EQI6

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in several stages of intracellular trafficking. Could play an important role in the regulation of glucose transport by insulin. May act as a downstream effector of RHOQ/TC10 in the regulation of insulin-stimulated glucose transport.

Subunit / interactions. Specifically interacts with CDC42 and RHOQ/TC10 through its Rho-GAP domain. Interacts with NEK6.

Similarity. Belongs to the PX domain-containing GAP family.

Isoforms (4)

UniProt IDNamesCanonical?
O14559-11yes
O14559-102
O14559-113
O14559-124

RefSeq proteins (3): NP_001166101, NP_001353107, NP_443180 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000198RhoGAP_domDomain
IPR001452SH3_domainDomain
IPR008936Rho_GTPase_activation_protHomologous_superfamily
IPR036028SH3-like_dom_sfHomologous_superfamily
IPR036871PX_dom_sfHomologous_superfamily
IPR051576PX-Rho_GAPFamily

Pfam: PF00620, PF14604

UniProt features (37 total): compositionally biased region 11, region of interest 7, modified residue 6, splice variant 6, domain 3, sequence conflict 2, chain 1, site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O14559-F154.540.18

Functional residue map

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

Catalytic / active sites (1): 350 (arginine finger; crucial for gtp hydrolysis by stabilizing the transition state)

Post-translational modifications (6): 8, 570, 636, 727, 1169, 1244

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-9013148CDC42 GTPase cycle
R-HSA-9013149RAC1 GTPase cycle
R-HSA-9013406RHOQ GTPase cycle

MSigDB gene sets: 144 (showing top): GOBP_DENDRITE_DEVELOPMENT, MYOGENIN_Q6, CCAWYNNGAAR_UNKNOWN, GOBP_SYNAPSE_ASSEMBLY, GOBP_DENDRITIC_SPINE_DEVELOPMENT, GOBP_NEUROGENESIS, GOBP_REGULATION_OF_CELL_JUNCTION_ASSEMBLY, GOBP_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, CAGCTG_AP4_Q5, GOBP_REGULATION_OF_CELL_PROJECTION_ORGANIZATION, GOBP_CELL_JUNCTION_ORGANIZATION, GOBP_REGULATION_OF_SYNAPSE_ASSEMBLY, GOBP_DENDRITE_MORPHOGENESIS, GOBP_REGULATION_OF_SYNAPSE_STRUCTURE_OR_ACTIVITY, GOBP_REGULATION_OF_NEURON_PROJECTION_DEVELOPMENT

GO Biological Process (6): small GTPase-mediated signal transduction (GO:0007264), response to toxic substance (GO:0009636), protein transport (GO:0015031), regulation of dendritic spine morphogenesis (GO:0061001), regulation of postsynapse assembly (GO:0150052), signal transduction (GO:0007165)

GO Molecular Function (4): GTPase activator activity (GO:0005096), protein kinase binding (GO:0019901), phosphatidylinositol binding (GO:0035091), protein binding (GO:0005515)

GO Cellular Component (12): fibrillar center (GO:0001650), nucleoplasm (GO:0005654), Golgi apparatus (GO:0005794), cytosol (GO:0005829), plasma membrane (GO:0005886), cell cortex (GO:0005938), postsynaptic density (GO:0014069), actin cytoskeleton (GO:0015629), protein-containing complex (GO:0032991), dendritic spine (GO:0043197), glutamatergic synapse (GO:0098978), cytoplasm (GO:0005737)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
RHO GTPase cycle3

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure4
cytoplasm3
regulation of postsynapse organization2
cell periphery2
intracellular signaling cassette1
response to chemical1
transport1
intracellular protein localization1
establishment of protein localization1
regulation of neuron projection development1
regulation of anatomical structure morphogenesis1
dendritic spine morphogenesis1
regulation of synapse assembly1
postsynapse assembly1
cell communication1
cellular process1
signaling1
regulation of cellular process1
cellular response to stimulus1
GTPase activity1
enzyme activator activity1
GTPase regulator activity1
kinase binding1
anion binding1
binding1
nucleolus1
nuclear lumen1
endomembrane system1
intracellular membrane-bounded organelle1
membrane1
asymmetric synapse1
postsynaptic specialization1
cytoskeleton1
cellular_component1
dendrite1
neuron spine1
postsynapse1
synapse1
intracellular anatomical structure1

Protein interactions and networks

STRING

668 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ARHGAP33SUCOQ9UBS9618
ARHGAP33NEK6Q9HC98502
ARHGAP33SORT1Q99523499
ARHGAP33NTRK1P04629472
ARHGAP33RALGAPBQ86X10462
ARHGAP33SYNGAP1Q96PV0410
ARHGAP33NCKAP1Q9Y2A7404
ARHGAP33CDC42P21181390
ARHGAP33ARHGEF2Q92974380
ARHGAP33CRKLP46109370
ARHGAP33CTTNBP2Q8WZ74366
ARHGAP33FDXACB1Q9BRP7358
ARHGAP33TSC2P49815353
ARHGAP33ASXL3Q9C0F0353
ARHGAP33ZNF292O60281353
ARHGAP33CDC42BPGQ6DT37353

IntAct

5 interactions, top by confidence:

ABTypeScore
FYNARHGAP33psi-mi:“MI:0915”(physical association)0.510
ARHGAP33FYNpsi-mi:“MI:0915”(physical association)0.510
ADAM10ARHGAP33psi-mi:“MI:0407”(direct interaction)0.440
ARHGAP33RAC1psi-mi:“MI:0915”(physical association)0.000

BioGRID (14): CYSRT1 (Two-hybrid), ARHGAP33 (Affinity Capture-MS), ARHGAP33 (Affinity Capture-MS), ARHGAP33 (Affinity Capture-RNA), ARHGAP33 (Proximity Label-MS), ARHGAP33 (Proximity Label-MS), ARHGAP33 (Affinity Capture-MS), ARHGAP33 (Two-hybrid), ARHGAP33 (Affinity Capture-MS), ARHGAP33 (Co-fractionation), ARHGAP33 (Affinity Capture-RNA), ARHGAP33 (Two-hybrid), ARHGAP33 (Two-hybrid), ARHGAP33 (Reconstituted Complex)

ESM2 similar proteins: A0A1B0GUA5, A0A286YF58, A0A494C0N9, A0A494C0Y3, A0A7I2V3R4, A0JNN8, A2ARS0, A2VDX9, A5PJP1, A6NGB7, A8MVW0, C9JTQ0, O14511, O14559, O35392, O35569, O43541, O60548, O70220, P0DPE3, Q08102, Q14V87, Q19A40, Q29RK8, Q2HJ59, Q3TYP4, Q5BLP8, Q5T442, Q63244, Q6F5E0, Q6QNY0, Q6VUP9, Q80WY3, Q80XF7, Q8BQU6, Q8K025, Q8K071, Q8TD94, Q8WY41, Q8WZ71

Diamond homologs: A0A0G2JTR4, A1A4S6, A2AB59, A2RUV4, A4IF90, A4II46, A6QNS3, A6X8Z5, A7KAX9, A7YY57, A8WRJ2, D3ZFJ3, E7EZG2, E7F3F0, F1LXF1, O14559, O94466, P11274, P15882, P30337, P34288, P38339, P46941, P52757, P55194, P81128, P97393, Q03070, Q08DP6, Q10164, Q12979, Q13017, Q15311, Q17QN0, Q20498, Q2M1Z3, Q3TBD2, Q3UIA2, Q52LW3, Q53QZ3

SIGNOR signaling

2 interactions.

AEffectBMechanism
FYNdown-regulatesARHGAP33phosphorylation
ARHGAP33“down-regulates activity”RAC1“gtpase-activating protein”

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance174
Likely benign11
Benign4

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
625761GRCh37/hg19 19q13.11-13.12(chr19:35043556-36316644)Pathogenic

SpliceAI

3074 predictions. Top by Δscore:

VariantEffectΔscore
19:35775662:GTG:Gdonor_gain1.0000
19:35778357:TCAG:Tdonor_loss1.0000
19:35778359:AGG:Adonor_loss1.0000
19:35778458:CCACA:Cacceptor_loss1.0000
19:35778459:CACAG:Cacceptor_loss1.0000
19:35778461:CAG:Cacceptor_loss1.0000
19:35778462:A:Tacceptor_loss1.0000
19:35778462:AG:Aacceptor_gain1.0000
19:35778463:GG:Gacceptor_gain1.0000
19:35778463:GGGCC:Gacceptor_gain1.0000
19:35778544:G:GTdonor_gain1.0000
19:35778597:CCCAG:Cdonor_loss1.0000
19:35778598:CCAG:Cdonor_loss1.0000
19:35778599:CAG:Cdonor_loss1.0000
19:35778600:AGG:Adonor_loss1.0000
19:35778601:GGTAA:Gdonor_loss1.0000
19:35778602:G:Cdonor_loss1.0000
19:35778603:T:Adonor_loss1.0000
19:35779122:G:GTdonor_gain1.0000
19:35780192:C:Gacceptor_gain1.0000
19:35780193:A:AGacceptor_gain1.0000
19:35780194:T:Gacceptor_gain1.0000
19:35780198:A:AGacceptor_gain1.0000
19:35780199:C:Gacceptor_gain1.0000
19:35780204:A:AGacceptor_gain1.0000
19:35780205:T:Gacceptor_gain1.0000
19:35780206:TTCA:Tacceptor_loss1.0000
19:35780207:TCAGC:Tacceptor_loss1.0000
19:35780208:CAG:Cacceptor_loss1.0000
19:35780209:A:AGacceptor_gain1.0000

AlphaMissense

4762 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000340213 (19:35783492 A>G), RS1000361674 (19:35777196 C>T), RS1000367743 (19:35773960 C>A), RS1000943872 (19:35782309 G>A), RS1001062366 (19:35779511 C>T), RS1001096488 (19:35779356 A>T), RS1001143225 (19:35787792 C>T), RS1001306726 (19:35779035 C>T), RS1001380939 (19:35776189 G>T), RS1001413605 (19:35775762 C>A,G), RS1001435555 (19:35773914 G>A,C,T), RS1001441899 (19:35784773 C>T), RS1001865566 (19:35773629 G>C), RS1002135956 (19:35786612 C>A,T), RS1002320063 (19:35774432 A>G)

Disease associations

OMIM: gene MIM:614902 | disease phenotypes:

GenCC curated gene-disease

DiseaseClassificationInheritance
complex neurodevelopmental disorderLimitedAutosomal recessive

Mondo (2): breast ductal adenocarcinoma (MONDO:0005590), complex neurodevelopmental disorder (MONDO:0100038)

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

StudyTraitp-value
GCST003255_11Urinary albumin-to-creatinine ratio5.000000e-06
GCST008022_4Umami taste perception in obesity with metabolic syndrome8.000000e-06
GCST010703_277Brain morphology (MOSTest)2.000000e-15

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0007778urinary albumin to creatinine ratio
EFO:0004346neuroimaging measurement

MeSH disease descriptors (1)

DescriptorNameTree numbers
D018270Carcinoma, Ductal, BreastC04.557.470.200.025.232.500; C04.557.470.615.132.500; C04.588.180.390; C17.800.090.500.390

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

27 total (human), top 27 by PubMed support.

ChemicalActions (top 5)PubMed papers
GSK-J4decreases expression1
triphenyl phosphateaffects expression1
titanium dioxideincreases expression1
beta-lapachonedecreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
sodium arseniteincreases expression1
muconaldehydedecreases expression1
perfluorooctane sulfonic aciddecreases expression1
calfactantaffects cotreatment, increases expression1
jinfukangaffects cotreatment, decreases expression1
Resveratrolaffects cotreatment, decreases expression1
Temozolomidedecreases expression1
Sunitinibdecreases expression1
Acetaminophendecreases expression1
Arsenicaffects methylation1
Benzo(a)pyrenedecreases methylation1
Cadmiumdecreases expression, increases abundance1
Cisplatinaffects cotreatment, decreases expression1
Plant Extractsaffects cotreatment, decreases expression1
Smokedecreases expression1
Testosteronedecreases expression1
Tobacco Smoke Pollutiondecreases expression1
Valproic Acidincreases methylation1
Gold Compoundsincreases expression1
Cadmium Chloridedecreases expression, increases abundance1
Okadaic Aciddecreases expression1
Nanotubes, Carbonaffects cotreatment, increases expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT03414970PHASE3ACTIVE_NOT_RECRUITINGHypofractionated Radiation Therapy After Mastectomy in Preventing Recurrence in Patients With Stage IIa-IIIa Breast Cancer
NCT00461344PHASE2TERMINATEDDocetaxel + Doxorubicin as Neoadjuvant Chemotherapy in Patients With Breast Cancer
NCT07499999PHASE2NOT_YET_RECRUITINGRandomized Double-Blind Phase II Trial of Baby Exemestane Versus Baby Tamoxifen in Post-Menopausal Women at High Risk for Breast Cancer
NCT06310681Not specifiedCOMPLETEDPilot Testing of a Co-adapted Group Programme for Parents/Carers of Children With Complex Neurodisability
NCT07303049Not specifiedNOT_YET_RECRUITINGCognitive Benefit of Intensive Rehabilitation Using Rhythmic Music Training in Children With Complex Neurodevelopmental Disorder
NCT00637364PHASE1/PHASE2SUSPENDEDHigh Intensity Focused Ultrasound Tumor Treatment for Pancreatic Cancer Pain
NCT02779855PHASE1/PHASE2COMPLETEDTalimogene Laherparepvec in Combination With Neoadjuvant Chemotherapy in Triple Negative Breast Cancer
NCT01753908EARLY_PHASE1COMPLETEDBroccoli Sprout Extract in Treating Patients With Breast Cancer
NCT01796041EARLY_PHASE1COMPLETEDIntraoperative Imaging of Breast Cancer With Indocyanine Green
NCT01208974Not specifiedACTIVE_NOT_RECRUITINGNipple-Areola Complex (NAC) Irradiation After Nipple-Sparing Mastectomy and Reconstruction
NCT01875198Not specifiedTERMINATEDOncologic Impact of Splenectomy-omitting Radical Pancreatectomy in Well-selected Left-sided Pancreatic Cancer
NCT03543397Not specifiedUNKNOWNMRI in Ductal Carcinoma in Situ (DCIS)
NCT03834532Not specifiedCOMPLETEDLiving Well After Breast Surgery