CD2AP

gene
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Also known as CMS

Summary

CD2AP (CD2 associated protein, HGNC:14258) is a protein-coding gene on chromosome 6p12.3, encoding CD2-associated protein (Q9Y5K6). Seems to act as an adapter protein between membrane proteins and the actin cytoskeleton.

This gene encodes a scaffolding molecule that regulates the actin cytoskeleton. The protein directly interacts with filamentous actin and a variety of cell membrane proteins through multiple actin binding sites, SH3 domains, and a proline-rich region containing binding sites for SH3 domains. The cytoplasmic protein localizes to membrane ruffles, lipid rafts, and the leading edges of cells. It is implicated in dynamic actin remodeling and membrane trafficking that occurs during receptor endocytosis and cytokinesis. Haploinsufficiency of this gene is implicated in susceptibility to glomerular disease.

Source: NCBI Gene 23607 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): focal segmental glomerulosclerosis 3, susceptibility to (Definitive, ClinGen) — +2 more curated relationships
  • GWAS associations: 22
  • Clinical variants (ClinVar): 464 total — 9 pathogenic, 10 likely-pathogenic
  • Phenotypes (HPO): 20
  • Druggable target: yes
  • MANE Select transcript: NM_012120

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:14258
Approved symbolCD2AP
NameCD2 associated protein
Location6p12.3
Locus typegene with protein product
StatusApproved
AliasesCMS
Ensembl geneENSG00000198087
Ensembl biotypeprotein_coding
OMIM604241
Entrez23607

Gene structure

Transcript identifiers

Ensembl transcripts: 13 — 9 protein_coding, 2 retained_intron, 2 protein_coding_CDS_not_defined

ENST00000359314, ENST00000463175, ENST00000477159, ENST00000479857, ENST00000486693, ENST00000865252, ENST00000865253, ENST00000865254, ENST00000931707, ENST00000931708, ENST00000931709, ENST00000960842, ENST00000960843

RefSeq mRNA: 1 — MANE Select: NM_012120 NM_012120

CCDS: CCDS34472

Canonical transcript exons

ENST00000359314 — 18 exons

ExonStartEnd
ENSE000006193624753360247533755
ENSE000007557204750328047503440
ENSE000011390194760912347609304
ENSE000011390234760792747608028
ENSE000011390294760616547606277
ENSE000011390364759930147599443
ENSE000011390434759586147596026
ENSE000011390494758200347582065
ENSE000011390614757938547579489
ENSE000011390774757652447576602
ENSE000011390854757406447574251
ENSE000011390934755464647554766
ENSE000011391034754460647544706
ENSE000011764004761247347612536
ENSE000014546934762418647627263
ENSE000015162974747778947478248
ENSE000035543294757700947577103
ENSE000036290794758086447580900

Expression profiles

Bgee: expression breadth ubiquitous, 275 present calls, max score 98.97.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 33.4497 / max 565.7377, expressed in 1811 samples.

FANTOM5 promoters (8 alternative TSS)

Promoter IDTPM avgSamples expressed
6815723.30491802
681614.23791458
681583.89351134
681660.6140350
681600.5927280
681590.3496140
681670.3439120
2040180.113235

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
jejunal mucosaUBERON:000039998.97gold quality
esophagus squamous epitheliumUBERON:000692097.04gold quality
colonic mucosaUBERON:000031796.99gold quality
mucosa of sigmoid colonUBERON:000499396.88gold quality
duodenumUBERON:000211496.14gold quality
rectumUBERON:000105294.49gold quality
renal glomerulusUBERON:000007494.47gold quality
amniotic fluidUBERON:000017394.41gold quality
metanephric glomerulusUBERON:000473694.32gold quality
oral cavityUBERON:000016794.24gold quality
germinal epithelium of ovaryUBERON:000130494.19gold quality
caput epididymisUBERON:000435894.12gold quality
corpus epididymisUBERON:000435993.99gold quality
palpebral conjunctivaUBERON:000181293.91gold quality
epithelium of nasopharynxUBERON:000195193.89gold quality
bronchial epithelial cellCL:000232893.23gold quality
epithelium of esophagusUBERON:000197692.94gold quality
choroid plexus epitheliumUBERON:000391192.89gold quality
islet of LangerhansUBERON:000000692.82gold quality
visceral pleuraUBERON:000240192.74gold quality
calcaneal tendonUBERON:000370192.39gold quality
mucosa of transverse colonUBERON:000499192.19gold quality
nephron tubuleUBERON:000123192.02gold quality
colonic epitheliumUBERON:000039791.72gold quality
parietal pleuraUBERON:000240091.62gold quality
upper leg skinUBERON:000426291.61gold quality
pleuraUBERON:000097791.56gold quality
buccal mucosa cellCL:000233691.50gold quality
epithelium of bronchusUBERON:000203191.35gold quality
seminal vesicleUBERON:000099891.15gold quality

Single-cell (SCXA)

Detected in 5 experiment(s), a significant marker in 5.

ExperimentMarker?Max mean expression
E-CURD-119yes29.40
E-CURD-112yes14.47
E-CURD-122yes13.54
E-CURD-114yes9.70
E-ANND-3yes9.02

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): CREB1, E2F1, FOS, JUND, LMX1B, SP1, SP3

miRNA regulators (miRDB)

242 targeting CD2AP, 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-5011-5P100.0083.465820
HSA-MIR-8485100.0077.574731
HSA-MIR-1277-5P100.0073.955056
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-30A-5P100.0076.313233
HSA-MIR-30B-5P100.0076.293248
HSA-MIR-30C-5P100.0076.293248
HSA-MIR-30D-5P100.0076.323233
HSA-MIR-30E-5P100.0076.323242
HSA-MIR-5692A100.0074.406850
HSA-MIR-126-5P100.0072.713180
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-4668-3P100.0068.742635
HSA-MIR-656-3P100.0072.152788
HSA-MIR-340-5P100.0072.504437
HSA-MIR-6873-3P100.0071.422626
HSA-MIR-4262100.0073.263931
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-428299.9975.366408
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-477599.9875.006394
HSA-MIR-548N99.9871.944170
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-32-5P99.9875.211964
HSA-MIR-363-3P99.9874.721821
HSA-MIR-367-3P99.9874.831819

Literature-anchored findings (GeneRIF, showing 40)

  • PSTPIP1 acts downstream of CD2/CD2AP to link CD2 engagement to the WASp-evoked actin polymerization required for synapse formation and T cell activation. (PMID:12530983)
  • cortactin links receptor endocytosis to actin polymerization by binding both CD2AP and the Arp2/3 complex, which may facilitate the trafficking of internalized growth factor receptors (PMID:12672817)
  • Cd2 antigen is linked to CAPZ via this protein and CIN85 (PMID:12690097)
  • two patients with focal segmental glomerulosclerosis had a mutation predicted to ablate expression of one CD2AP allele, implicating CD2AP as a determinant of human susceptibility to glomerular disease (PMID:12764198)
  • exposure to normal and non-nephrotic human plasma leads to a concentration of nephrin, podocin, CD2AP, and actin at the cell surface in podocytes (PMID:15659563)
  • CD2AP is involved in cytokinesis. (PMID:15800069)
  • CD2AP has a role in the regulation of the actin cytoskeleton (PMID:16707503)
  • CFBP is a novel tyrosine-phosphorylated protein that might function as a regulator of CIN85/CD2AP (PMID:16895919)
  • structures support the notion that, despite clear differences in the interaction surface, both Cbl-b and CD2 can mediate multimerization of N-terminal CMS SH3 domains (PMID:17020880)
  • This work indicates the solution structure of CMS_SH3_B bears the canonical beta-beta-beta-beta-alpha-beta fold and a new binding site in c-Cbl involved in its interaction with CMS, which probably contributes to the clustering of CMS. (PMID:17188587)
  • CIN85 is expressed as multiple isoforms that share the coiled-coil domain, suggesting that heterotypic interactions with CMS provides a mechanism to regulate CMS binding to F-actin and thus for modulating dynamic rearrangements of the cytoskeleton. (PMID:17606992)
  • Focal segmental glomerulosclerosis in a patient homozygous for a CD2AP mutation. (PMID:17713465)
  • identified a polyproline-arginine sequence in the pTalpha cytoplasmic tail that interacted in vitro with SH3 domains of the CIN85/CMS family of adaptors, and mediated the recruitment of multiprotein complexes involving all (CMS, CIN85, and CD2BP3) members (PMID:17823309)
  • that ALIX and TSG101/ESCRT-I also bind a series of proteins involved in cytokinesis, including CEP55, CD2AP, ROCK1, and IQGAP1. (PMID:17853893)
  • The three-dimensional structure of CD2AP SH3-C contains all the features that are typically found in other SH3 domains, including the general binding site for the recognition of polyproline sequences. (PMID:17922258)
  • promotor activity in rental tubular epithelial cells is regulated by CREB and Sp1 (PMID:18396147)
  • Sp1/Sp3 binding sites play a critical role in the CD2AP regulation. (PMID:18791326)
  • CD2AP mutations modify the interaction with CD2 in lymphocytes and alter the composition of the renal slit diaphragm. (PMID:19131354)
  • CD2AP, through facilitating conjugate formation and directed transport of lytic granules, plays an important role in NK cells killing. (PMID:19945749)
  • The absence of mutations of CD2AP in this study suggests that there are other genetic causes of steroid-resistant nephrotic syndrome (PMID:19956976)
  • Data identify CD2AP as a novel Rac1-associated adapter protein that participates in the regulation of epithelial cell-cell contact. (PMID:20404345)
  • Coexpression of CIN85/Ruk(L) with CD2AP led to a decreased binding of CIN85/Ruk(L) to nephrin and podocin, which indicates a functional competition between CD2AP and CIN85/Ruk(L). (PMID:20457601)
  • The authors report that CD2AP, an endocytosis-associated and cortactin-binding protein, is a novel and important component of enteropathogenic Escherichia coli pedestal formation that also utilizes Y474 phosphorylation of the bacterial Tir. (PMID:20515931)
  • found independent evidence for association for Alzheimer’s disease susceptibility loci at EPHA1, CD33 and CD2AP (PMID:21460840)
  • Common variants at MS4A4/MS4A6E, CD2AP, CD33 and EPHA1 are associated with late-onset Alzheimer’s disease. (PMID:21460841)
  • found that the N-terminal SH3 domain of both adaptor proteins CD2AP and CIN85 are the most stable SH3 domains that have been studied until now (PMID:21519904)
  • The urinary mRNA profiles of synaptopodin, podocalyxin, CD2-AP, alpha-actin4, and podocin were found to increase with the progression of diabetic nephropathy. (PMID:21655212)
  • identifies CD2AP as the gatekeeper of the podocyte TGF-beta response through its regulation of CatL expression and defines a molecular mechanism underlying proteinuric kidney disease (PMID:21911934)
  • CD2AP is highly expressed in human plasmacytoid dendritic cells (DC) and positively regulates blood DC antigen 2 (BDCA2)/Fc fragment of IgE high affinity I receptor (FcepsilonR1gamma) signaling. (PMID:22706086)
  • E2F1 up-regulates the human CD2AP promoter. (PMID:22880102)
  • an FRS2beta-CIN85/CD2AP-Cbl axis for downregulation of ErbB2 may regulate ErbB2 protein levels in physiological and pathological settings (PMID:23279575)
  • CD2AP gene variants may contribute to susceptibility to end-stage renal disease in patients with type 1 diabetes. (PMID:23681557)
  • FSGS3/CD2AP has a role of barbed-end capping in junctional actin dynamics. (PMID:24322428)
  • CD2AP rs9349407 polymorphism contributes to Alzheimer’s disease susceptibility. (PMID:25092125)
  • we present the first demonstration that the purified SH3 domains of the CD2AP/Cin85 protein family are able to directly bind the p53 protein, and to discriminate between the two polymorphic variants P72R (PMID:25261582)
  • CD2-Associated Protein affects Abeta levels and Abeta42/Abeta40 ratio in vitro (PMID:25887956)
  • discovered novel interaction candidates for CD2AP and characterized subtle yet significant differences in the recognition preferences of its three SH3 domains for c-CBL, ALIX, and RIN3 (PMID:26296892)
  • Study found a novel association of CD2AP with plasma homocysteine in participants with African ancestry and found a new variant in the candidate gene CBS associated with homocysteine (PMID:26519441)
  • CD2AP expression in renal tubules may histologically associate with tissue hypoxia and reflected recovery from CsA-mediated renal injury in nephrotic syndrome patients. (PMID:26975192)
  • data thus reveal a Golgi-traversing pathway for exosomal release of the cargo protein GPRC5B in which CD2AP facilitates the entry and LMAN2 impedes the exit of the flux, respectively. (PMID:27765817)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriocd2apENSDARG00000015224
mus_musculusCd2apENSMUSG00000061665
rattus_norvegicusCd2apENSRNOG00000011987
drosophila_melanogastercindrFBGN0027598
caenorhabditis_eleganscdap-2WBGENE00021549

Paralogs (3): SH3KBP1 (ENSG00000147010), NOSTRIN (ENSG00000163072), SH3D21 (ENSG00000214193)

Protein

Protein identifiers

CD2-associated proteinQ9Y5K6 (reviewed: Q9Y5K6)

Alternative names: Adapter protein CMS, Cas ligand with multiple SH3 domains

All UniProt accessions (1): Q9Y5K6

UniProt curated annotations — full annotation on UniProt →

Function. Seems to act as an adapter protein between membrane proteins and the actin cytoskeleton. In collaboration with CBLC, modulates the rate of RET turnover and may act as regulatory checkpoint that limits the potency of GDNF on neuronal survival. Controls CBLC function, converting it from an inhibitor to a promoter of RET degradation. May play a role in receptor clustering and cytoskeletal polarity in the junction between T-cell and antigen-presenting cell. May anchor the podocyte slit diaphragm to the actin cytoskeleton in renal glomerolus. Also required for cytokinesis. Plays a role in epithelial cell junctions formation.

Subunit / interactions. Homodimer. Interacts with F-actin, PKD2, NPHS1 and NPHS2. Interacts with WTIP. Interacts with DDN; interaction is direct. Interacts (via SH3 2 domain) with CBL (via phosphorylated C-terminus). Interacts with BCAR1/p130Cas (via SH3 domain). Interacts with MVB12A and ARHGAP17. Interacts with ANLN, CD2 and CBLB. Interacts with PDCD6IP and TSG101. Interacts with RIN3. Interacts directly with RET (inactive) and CBLC; upon RET activation by GDNF suggested to dissociate from RET as CBLC:CD2AP complex (PubMed:10339567, PubMed:11067845, PubMed:15800069, PubMed:16678097, PubMed:16895919, PubMed:17020880, PubMed:17853893, PubMed:18753381, Ref.30). Interacts with CGNL1 and SH3BP1; probably part of a complex at cell junctions. Interacts with CAPZA1. (Microbial infection) Interacts (via SH3 domains) with Chikungunya virus non-structural protein 3 (via C-terminus); this interaction plays a role in initiation of viral replication.

Subcellular location. Cytoplasm. Cytoskeleton. Cell projection. Ruffle. Cell junction.

Tissue specificity. Widely expressed in fetal and adult tissues.

Post-translational modifications. Phosphorylated on tyrosine residues; probably by c-Abl, Fyn and c-Src.

Disease relevance. Focal segmental glomerulosclerosis 3 (FSGS3) [MIM:607832] A renal pathology defined by the presence of segmental sclerosis in glomeruli and resulting in proteinuria, reduced glomerular filtration rate and progressive decline in renal function. Renal insufficiency often progresses to end-stage renal disease, a highly morbid state requiring either dialysis therapy or kidney transplantation. Disease susceptibility is associated with variants affecting the gene represented in this entry.

Domain organisation. The Pro-rich domain may mediate binding to SH3 domains. Potential homodimerization is mediated by the coiled coil domain.

RefSeq proteins (1): NP_036252* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001452SH3_domainDomain
IPR035775CD2AP_SH3_1Domain
IPR035776CD2AP_SH_2Domain
IPR035777CD2AP_SH3_3Domain
IPR036028SH3-like_dom_sfHomologous_superfamily
IPR050384Endophilin_SH3RFFamily

Pfam: PF00018, PF14604

UniProt features (46 total): modified residue 11, strand 10, compositionally biased region 5, region of interest 4, domain 3, short sequence motif 3, sequence variant 3, helix 3, cross-link 2, chain 1, coiled-coil region 1

Structure

Experimental structures (PDB)

12 structures.

PDBMethodResolution (Å)
3U23X-RAY DIFFRACTION1.11
4X1VX-RAY DIFFRACTION1.58
4WCIX-RAY DIFFRACTION1.65
7DS6X-RAY DIFFRACTION1.69
2J6FX-RAY DIFFRACTION1.7
3AA6X-RAY DIFFRACTION1.9
7DS8X-RAY DIFFRACTION1.95
3LK4X-RAY DIFFRACTION1.99
2J6OX-RAY DIFFRACTION2.23
2J6KX-RAY DIFFRACTION2.77
2J7IX-RAY DIFFRACTION2.9
2FEISOLUTION NMR

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9Y5K6-F163.040.31

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 (13): 67, 80, 86, 224, 458, 463, 469, 510, 514, 565, 582, 58, 523

Function

Pathways and Gene Ontology

Reactome pathways

2 pathways

IDPathway
R-HSA-373753Nephrin family interactions
R-HSA-1500931Cell-Cell communication

MSigDB gene sets: 594 (showing top): ATF_B, GOBP_RESPONSE_TO_NITROGEN_COMPOUND, GOBP_NEGATIVE_REGULATION_OF_NEURON_APOPTOTIC_PROCESS, GOBP_HEPATICOBILIARY_SYSTEM_DEVELOPMENT, GOBP_CARBOHYDRATE_TRANSPORT, GOBP_EPITHELIUM_DEVELOPMENT, FREAC2_01, GOBP_INFLAMMATORY_RESPONSE, GCANCTGNY_MYOD_Q6, AREB6_03, GOBP_ANTIGEN_RECEPTOR_MEDIATED_SIGNALING_PATHWAY, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, GOBP_GROWTH, GOBP_POSITIVE_REGULATION_OF_PROTEIN_LOCALIZATION

GO Biological Process (59): immunological synapse formation (GO:0001771), liver development (GO:0001889), endothelium development (GO:0003158), lipid metabolic process (GO:0006629), apoptotic process (GO:0006915), substrate-dependent cell migration, cell extension (GO:0006930), inflammatory response (GO:0006954), response to oxidative stress (GO:0006979), actin filament organization (GO:0007015), signal transduction (GO:0007165), cell population proliferation (GO:0008283), male gonad development (GO:0008584), protein secretion (GO:0009306), response to wounding (GO:0009611), response to virus (GO:0009615), cell migration (GO:0016477), actin filament polymerization (GO:0030041), protein catabolic process (GO:0030163), Rab protein signal transduction (GO:0032482), response to insulin (GO:0032868), transforming growth factor beta1 production (GO:0032905), negative regulation of transforming growth factor beta1 production (GO:0032911), regulation of actin cytoskeleton organization (GO:0032956), maintenance of blood-brain barrier (GO:0035633), nerve growth factor signaling pathway (GO:0038180), phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0043491), negative regulation of neuron apoptotic process (GO:0043524), cell-cell adhesion mediated by cadherin (GO:0044331), cell-cell junction organization (GO:0045216), obsolete D-glucose import (GO:0046323), filopodium assembly (GO:0046847), neurotrophin TRK receptor signaling pathway (GO:0048011), regulation of synaptic plasticity (GO:0048167), lymph node development (GO:0048535), collateral sprouting (GO:0048668), positive regulation of protein secretion (GO:0050714), synapse organization (GO:0050808), T cell receptor signaling pathway (GO:0050852), negative regulation of small GTPase mediated signal transduction (GO:0051058), protein heterooligomerization (GO:0051291)

GO Molecular Function (9): structural constituent of cytoskeleton (GO:0005200), SH3 domain binding (GO:0017124), clathrin binding (GO:0030276), phosphatidylinositol 3-kinase regulatory subunit binding (GO:0036312), identical protein binding (GO:0042802), cadherin binding (GO:0045296), actin filament binding (GO:0051015), actin binding (GO:0003779), protein binding (GO:0005515)

GO Cellular Component (27): fibrillar center (GO:0001650), ruffle (GO:0001726), podosome (GO:0002102), nuclear envelope lumen (GO:0005641), cytoplasm (GO:0005737), late endosome (GO:0005770), plasma membrane (GO:0005886), actin cytoskeleton (GO:0015629), axon (GO:0030424), dendrite (GO:0030425), growth cone (GO:0030426), cell leading edge (GO:0031252), neuromuscular junction (GO:0031594), filamentous actin (GO:0031941), vesicle (GO:0031982), trans-Golgi network membrane (GO:0032588), centriolar satellite (GO:0034451), slit diaphragm (GO:0036057), extracellular exosome (GO:0070062), cytoskeleton (GO:0005856), actin filament (GO:0005884), cell-cell junction (GO:0005911), protein-containing complex (GO:0032991), cell projection (GO:0042995), neuron projection (GO:0043005), anchoring junction (GO:0070161), cell periphery (GO:0071944)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Cell-Cell communication1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure4
response to stress2
cellular process2
cytoskeleton2
protein binding2
neuron projection2
cell-cell recognition1
lymphocyte activation1
gland development1
hepaticobiliary system development1
epithelium development1
primary metabolic process1
programmed cell death1
apoptotic signaling pathway1
execution phase of apoptosis1
substrate-dependent cell migration1
plasma membrane bounded cell projection assembly1
defense response1
actin cytoskeleton organization1
supramolecular fiber organization1
cell communication1
signaling1
regulation of cellular process1
cellular response to stimulus1
gonad development1
development of primary male sexual characteristics1
protein transport1
secretion by cell1
establishment of protein localization to extracellular region1
protein localization to extracellular region1
response to other organism1
cell motility1
actin polymerization or depolymerization1
protein polymerization1
macromolecule catabolic process1
protein metabolic process1
small GTPase-mediated signal transduction1
response to peptide hormone1
structural molecule activity1
cytoskeleton organization1

Protein interactions and networks

STRING

1904 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
CD2APNPHS1O60500999
CD2APNPHS2Q9NP85999
CD2APKIRREL1Q96J84990
CD2APTJP1Q07157982
CD2APSYNPOQ8N3V7962
CD2APCD2P06729948
CD2APACTN4O43707939
CD2APCTTNQ14247933
CD2APINF2Q27J81925
CD2APPLCE1Q9P212913
CD2APCBLP22681910
CD2APHCLS1P14317904
CD2APTRPC6Q9Y210903
CD2APKIRREL3Q8IZU9900
CD2APABCA7Q8IZY2883

IntAct

185 interactions, top by confidence:

ABTypeScore
MED4MED19psi-mi:“MI:2364”(proximity)0.900
SGF29NDC80psi-mi:“MI:0914”(association)0.840
CD2CD2APpsi-mi:“MI:0915”(physical association)0.800
CBLCD2APpsi-mi:“MI:0915”(physical association)0.800
CD2APCBLpsi-mi:“MI:0914”(association)0.800
CBLCD2APpsi-mi:“MI:0407”(direct interaction)0.800
CD2APCBLpsi-mi:“MI:0915”(physical association)0.800
CD2APCD2psi-mi:“MI:0407”(direct interaction)0.800
CD2CD2APpsi-mi:“MI:0407”(direct interaction)0.800
INO80ETFPTpsi-mi:“MI:0914”(association)0.790
CAPZA1CAPZBpsi-mi:“MI:0915”(physical association)0.750
CAPZA1CAPZBpsi-mi:“MI:0407”(direct interaction)0.750
CBLBCD2APpsi-mi:“MI:0915”(physical association)0.750
CD2APCBLBpsi-mi:“MI:0914”(association)0.750
CBLBCD2APpsi-mi:“MI:0407”(direct interaction)0.750
CD2APCBLBpsi-mi:“MI:0407”(direct interaction)0.750

BioGRID (319): CD2AP (Affinity Capture-Western), CD2AP (Biochemical Activity), CD2AP (Affinity Capture-MS), CD2AP (Affinity Capture-MS), CD2AP (Affinity Capture-MS), CD2AP (Affinity Capture-MS), CD2AP (Co-crystal Structure), CD2AP (Co-crystal Structure), CD2AP (Reconstituted Complex), CD2 (Reconstituted Complex), CBLB (Reconstituted Complex), CD2AP (Co-fractionation), CD2AP (Co-fractionation), CD2AP (Co-fractionation), CD2AP (Co-fractionation)

ESM2 similar proteins: A6QP06, A7KAX9, F1LRS8, F1QIC4, G5EBZ8, O18195, O42287, O43432, O43491, O60237, O75167, O76337, O82171, O94519, O97902, P11171, P11434, P34416, P41110, P41993, P48820, Q09459, Q15811, Q1AAU6, Q501J7, Q52KW0, Q5HYK7, Q5M775, Q5RAU1, Q5RDE1, Q69ZW3, Q6NZJ6, Q801E2, Q8BG95, Q8IZ21, Q8R550, Q91X43, Q925Q9, Q96B97, Q9HCH5

Diamond homologs: A0JNJ1, A1CEK6, A1DFN5, A2QW93, A4RF61, A6QLK6, A7A261, F1LRS8, O35179, O35964, O43307, O74749, O75791, O75886, O88811, O89100, O93436, P02549, P07751, P09215, P09216, P10830, P13395, P16054, P16086, P16546, P23298, P24723, P28867, P29355, P32793, P34885, P38753, P43603, P53281, P62993, P62994, P70297, P87379, P97306

SIGNOR signaling

4 interactions.

AEffectBMechanism
E2F1“up-regulates quantity by expression”CD2AP“transcriptional regulation”
FAM83G“up-regulates activity”CD2APbinding
CD2AP“up-regulates quantity”F-actin_assemblybinding
CD2AP“up-regulates activity”ACTBbinding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 159 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
Regulation of KIT signaling526.8×7e-05
Regulation of signaling by CBL626.6×3e-05
Antigen activates B Cell Receptor (BCR) leading to generation of second messengers619.1×6e-05
Signaling by CSF1 (M-CSF) in myeloid cells618.5×6e-05
DAP12 signaling516.4×5e-04
Signaling by SCF-KIT613.3×3e-04
RHOQ GTPase cycle69.7×1e-03
Golgi-to-ER retrograde transport89.5×1e-04

GO biological processes:

GO termPartnersFoldFDR
negative regulation of epidermal growth factor receptor signaling pathway526.6×1e-03
B cell receptor signaling pathway513.9×8e-03
ephrin receptor signaling pathway511.9×9e-03
regulation of embryonic development511.5×9e-03
regulation of actin cytoskeleton organization77.7×8e-03
regulation of small GTPase mediated signal transduction77.0×9e-03
regulation of cell cycle105.2×8e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic9
Likely pathogenic10
Uncertain significance245
Likely benign88
Benign56

Top pathogenic / likely-pathogenic (19)

Variant IDHGVSClassification
1179195NM_012120.3(CD2AP):c.1742dup (p.Asn581fs)Pathogenic
2052128NM_012120.3(CD2AP):c.1386_1387del (p.Ser463fs)Pathogenic
2425759NC_000006.11:g.(?47471016)(47471176_?)delPathogenic
3246214NC_000006.11:g.(?47564630)(47567630_?)delPathogenic
3639749NM_012120.3(CD2AP):c.494del (p.Glu164_Leu165insTer)Pathogenic
4734644NM_012120.3(CD2AP):c.301del (p.Thr101fs)Pathogenic
4771695NM_012120.3(CD2AP):c.1742del (p.Asn581fs)Pathogenic
522522NM_012120.3(CD2AP):c.1045+1G>APathogenic
5703NM_012120.3(CD2AP):c.730-1_730delinsCTPathogenic
1179189NM_012120.3(CD2AP):c.250C>T (p.Arg84Ter)Likely pathogenic
2633510NM_012120.3(CD2AP):c.1193_1196del (p.Ala398fs)Likely pathogenic
3065595NM_012120.3(CD2AP):c.30T>G (p.Tyr10Ter)Likely pathogenic
3066210NM_012120.3(CD2AP):c.1108+1G>TLikely pathogenic
3593667NM_012120.3(CD2AP):c.298C>T (p.Gln100Ter)Likely pathogenic
3593683NM_012120.3(CD2AP):c.865_868del (p.Thr289fs)Likely pathogenic
3593685NM_012120.3(CD2AP):c.865del (p.Thr289fs)Likely pathogenic
4081232NM_012120.3(CD2AP):c.720dup (p.Pro241fs)Likely pathogenic
4292755NM_012120.3(CD2AP):c.330_334del (p.Arg111fs)Likely pathogenic
4845711NM_012120.3(CD2AP):c.764del (p.Gln255fs)Likely pathogenic

SpliceAI

4158 predictions. Top by Δscore:

VariantEffectΔscore
6:47503276:TTAG:Tacceptor_loss1.0000
6:47503277:TAG:Tacceptor_loss1.0000
6:47503278:A:ACacceptor_loss1.0000
6:47503278:A:AGacceptor_gain1.0000
6:47503278:AGTT:Aacceptor_gain1.0000
6:47503279:G:GGacceptor_gain1.0000
6:47503279:GT:Gacceptor_gain1.0000
6:47503279:GTT:Gacceptor_gain1.0000
6:47503279:GTTG:Gacceptor_gain1.0000
6:47503279:GTTGA:Gacceptor_gain1.0000
6:47503436:TTAAG:Tdonor_gain1.0000
6:47503437:TAAG:Tdonor_gain1.0000
6:47503438:AAG:Adonor_gain1.0000
6:47503439:AG:Adonor_gain1.0000
6:47503439:AGGTA:Adonor_loss1.0000
6:47503440:GG:Gdonor_gain1.0000
6:47503441:G:GGdonor_gain1.0000
6:47503441:GTAA:Gdonor_loss1.0000
6:47526741:G:GGdonor_gain1.0000
6:47531417:T:TAacceptor_gain1.0000
6:47531418:G:Aacceptor_gain1.0000
6:47533597:T:TAacceptor_gain1.0000
6:47533597:TGTA:Tacceptor_loss1.0000
6:47533597:TGTAG:Tacceptor_gain1.0000
6:47533598:GTA:Gacceptor_loss1.0000
6:47533598:GTAGG:Gacceptor_gain1.0000
6:47533600:A:ACacceptor_loss1.0000
6:47533600:A:AGacceptor_gain1.0000
6:47533600:AG:Aacceptor_gain1.0000
6:47533601:G:Aacceptor_gain1.0000

AlphaMissense

4168 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:47503421:T:CF49S1.000
6:47503436:T:AV54D1.000
6:47503328:T:CL18S0.999
6:47503384:T:AW37R0.999
6:47503384:T:CW37R0.999
6:47503386:G:CW37C0.999
6:47503386:G:TW37C0.999
6:47503388:T:CL38P0.999
6:47503393:G:AG40R0.999
6:47503393:G:CG40R0.999
6:47503394:G:AG40E0.999
6:47503432:T:CF53L0.999
6:47503434:C:AF53L0.999
6:47503434:C:GF53L0.999
6:47544672:T:CL129P0.999
6:47554658:T:AW145R0.999
6:47554658:T:CW145R0.999
6:47554660:G:CW145C0.999
6:47554660:G:TW145C0.999
6:47554668:G:AG148E0.999
6:47554695:T:CF157S0.999
6:47579440:T:CF320S0.999
6:47606226:A:CR493S0.999
6:47606226:A:TR493S0.999
6:47503352:T:AI26N0.998
6:47503415:G:AG47E0.998
6:47503423:C:AP50T0.998
6:47503423:C:TP50S0.998
6:47503424:C:AP50H0.998
6:47544666:T:CL127P0.998

dbSNP variants (sampled 300 via entrez): RS1000017010 (6:47625642 T>C), RS1000021512 (6:47533096 A>G,T), RS1000067858 (6:47622677 A>T), RS1000071154 (6:47539722 G>A), RS1000073778 (6:47579938 A>G), RS1000085230 (6:47575886 A>C), RS1000096046 (6:47579138 G>A), RS1000101097 (6:47562496 T>A), RS1000113981 (6:47490637 T>C), RS1000116415 (6:47510321 C>A), RS1000121509 (6:47622447 C>A), RS1000130009 (6:47619084 T>G), RS1000131875 (6:47533860 C>T), RS1000182565 (6:47552847 C>G), RS1000196792 (6:47559830 G>A,T)

Disease associations

OMIM: gene MIM:604241 | disease phenotypes: MIM:607832, MIM:603278

GenCC curated gene-disease

DiseaseClassificationInheritance
focal segmental glomerulosclerosis 3, susceptibility toStrongAutosomal dominant
familial idiopathic steroid-resistant nephrotic syndromeSupportiveAutosomal dominant

ClinGen Gene-Disease Validity (2)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
inherited focal segmental glomerulosclerosisModerateAD
focal segmental glomerulosclerosis 3, susceptibility toDefinitiveAR

Mondo (6): focal segmental glomerulosclerosis 3, susceptibility to (MONDO:0011917), inherited focal segmental glomerulosclerosis (MONDO:0005363), focal segmental glomerulosclerosis (MONDO:0100313), prostate cancer (MONDO:0008315), kidney disorder (MONDO:0005240), familial idiopathic steroid-resistant nephrotic syndrome (MONDO:0019006)

Orphanet (2): Hereditary steroid-resistant nephrotic syndrome (Orphanet:656), Familial prostate cancer (Orphanet:1331)

HPO phenotypes

20 total (20 of 20 shown, HPO-id order):

HPOTerm
HP:0000083Renal insufficiency
HP:0000093Proteinuria
HP:0000097Focal segmental glomerulosclerosis
HP:0000707Abnormality of the nervous system
HP:0000737Irritability
HP:0000790Hematuria
HP:0000822Hypertension
HP:0000969Edema
HP:0001945Fever
HP:0001967Diffuse mesangial sclerosis
HP:0002027Abdominal pain
HP:0002315Headache
HP:0002586Peritonitis
HP:0003073Hypoalbuminemia
HP:0003774Stage 5 chronic kidney disease
HP:0011947Respiratory tract infection
HP:0012579Minimal change glomerulonephritis
HP:0012622Chronic kidney disease
HP:0031504Foamy urine
HP:0100539Periorbital edema

GWAS associations

22 associations (top):

StudyTraitp-value
GCST001026_7Alzheimer’s disease (late onset)9.000000e-09
GCST002245_7Alzheimer’s disease (late onset)5.000000e-11
GCST002337_129Amyotrophic lateral sclerosis (sporadic)5.000000e-06
GCST003157_1Plasma homocysteine levels5.000000e-08
GCST004611_61High light scatter reticulocyte count7.000000e-18
GCST004612_22High light scatter reticulocyte percentage of red cells5.000000e-17
GCST004619_50Reticulocyte fraction of red cells2.000000e-11
GCST004621_103Red cell distribution width4.000000e-15
GCST004622_195Reticulocyte count7.000000e-12
GCST004628_83Immature fraction of reticulocytes1.000000e-17
GCST007319_30Alzheimer’s disease (late onset)7.000000e-08
GCST007319_5Alzheimer’s disease (late onset)5.000000e-09
GCST007320_1Alzheimer’s disease or family history of Alzheimer’s disease3.000000e-10
GCST007320_96Alzheimer’s disease or family history of Alzheimer’s disease1.000000e-08
GCST007321_6Family history of Alzheimer’s disease8.000000e-06
GCST009021_15Alzheimer’s disease5.000000e-09
GCST009391_1790Metabolite levels9.000000e-06
GCST012490_346Femur bone mineral density x serum urate levels interaction1.000000e-13
GCST90002387_284Immature fraction of reticulocytes9.000000e-37
GCST90002397_148Mean spheric corpuscular volume3.000000e-12
GCST90002404_262Red cell distribution width1.000000e-31
GCST90020028_598Hip circumference adjusted for BMI8.000000e-12

EFO canonical traits (9, from GWAS)

EFO IDTrait name
EFO:0004578homocysteine measurement
EFO:0007986reticulocyte count
EFO:0009188Red cell distribution width
EFO:0009268family history of Alzheimer’s disease
EFO:0004468glucose measurement
EFO:0010477fructose measurement
EFO:0010481galactose measurement
EFO:0004531urate measurement
EFO:0008039BMI-adjusted hip circumference

MeSH disease descriptors (3)

DescriptorNameTree numbers
D005923Glomerulosclerosis, Focal SegmentalC12.050.351.968.419.570.363.640; C12.200.777.419.570.363.660; C12.950.419.570.363.640
D007674Kidney DiseasesC12.050.351.968.419; C12.200.777.419; C12.950.419
D011471Prostatic NeoplasmsC04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5465369 (SINGLE PROTEIN)

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
perfluorooctane sulfonic aciddecreases expression2
Acetaminophendecreases expression2
Arsenicincreases expression, affects methylation, increases abundance2
Tobacco Smoke Pollutionaffects expression, increases expression2
aristolochic acid Idecreases expression1
FR900359affects phosphorylation1
TAK-243decreases sumoylation1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
bisphenol Adecreases expression1
sodium arsenatedecreases expression1
arseniteaffects binding, decreases reaction1
sodium arseniteincreases abundance, increases expression1
cobaltous chloridedecreases expression1
perfluorooctanoic aciddecreases expression1
potassium chromate(VI)decreases expression, affects cotreatment1
epigallocatechin gallatedecreases expression, affects cotreatment1
K 7174increases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamidedecreases expression, affects cotreatment1
jinfukangdecreases expression1
LDN 193189affects cotreatment, decreases expression1
Resveratrolaffects cotreatment, increases expression1
Air Pollutants, Occupationalaffects expression1
Caffeineincreases phosphorylation1
Carbamazepineaffects expression1
Enzyme Inhibitorsdecreases activity, increases O-linked glycosylation1
Ivermectindecreases expression1
Plant Extractsaffects cotreatment, increases expression1
Quercetindecreases phosphorylation1
Ribonucleotidesaffects binding1

ChEMBL screening assays

1 unique, capped per target: 1 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL5338441BindingBinding affinity to Cd2ap (unknown origin) at 200 uM preincubated for 2 hrs followed by pronase addition and measured after 30 mins by coomassie blue staining based SDS-PAGE gel analysisStructurally Diverse Alkaloids with Anti-Renal-Fibrosis Activity from the Centipede Scolopendra subspinipes mutilans. — J Nat Prod

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT01129557PHASE4TERMINATEDAldosterone Breakthrough During Diovan, Tekturna, and Combination Therapy in Patients With Proteinuric Kidney Disease
NCT02399462PHASE4WITHDRAWNActhar for Treatment of Post-transplant FSGS
NCT02585804PHASE4COMPLETEDTreating to Reduce Albuminuria and Normalize Hemodynamic Function in Focal ScLerosis With dApagliflozin Trial Effects
NCT02633046PHASE4COMPLETEDActhar for Treatment-Resistant or Treatment-Intolerant Proteinuria
NCT07219121PHASE4RECRUITINGSparsentan in Posttransplant Immunoglobulin A Nephropathy or Focal Segmental Glomerulosclerosis
NCT00029224PHASE4COMPLETEDTreatment With Zoledronic Acid in Patients With Breast Cancer, Multiple Myeloma, and Prostate Cancer With Cancer Related Bone Lesions
NCT00035997PHASE4COMPLETEDOpen-label Trial on the Effect of I.V. Zoledronic Acid 4 mg on Bone Density in Hormone Sensitive Prostate Cancer Patients With Bone Metastasis
NCT00063609PHASE4COMPLETEDThe Effect of Zoledronic Acid on Bone Loss in Prostate Cancer Patients Undergoing Androgen Deprivation Therapy
NCT00103623PHASE4SUSPENDEDThe Plenaxis® Experience Study
NCT00106392PHASE4COMPLETEDA Safety and Efficacy Study of Prograf in the Prevention of Erectile Dysfunction After Radical Prostatectomy
NCT00185029PHASE4UNKNOWNMR-Lymphography and Lymph Node Staging in Prostate Cancer
NCT00199485PHASE4COMPLETEDAngelica Sinensis for the Treatment of Hot Flashes in Men Undergoing LHRH Therapy for Prostate Cancer
NCT00219219PHASE4COMPLETEDZoledronic Acid in the Prevention of Skeletal-related Events in Hormone Refractory and Hormone-sensitive Prostate Cancer Patients With Bone Metastases
NCT00219271PHASE4COMPLETEDEffect Of Zoledronic Acid On Circulating And Bone Marrow-Residing Prostate Cancer Cells In Patients With Clinically Localized Prostate Cancer
NCT00237146PHASE4COMPLETEDStudy to Evaluate Zoledronic Acid on Quality of Life and Skeletal-related Events as Adjuvant Treatment in Patients With Hormone-naïve Prostate Cancer and Bone Metastasis Who Have Undergone Orchiectomy
NCT00242554PHASE4COMPLETEDOpen-label Phase IV Clinical Trial to Evaluate the Safety and Tolerability of Zoledronic Acid in Patients With Prostate Cancer and Bone Metastases
NCT00280098PHASE4COMPLETEDDocetaxel in the Treatment of Hormone Refractory Prostate Cancer
NCT00293696PHASE4COMPLETEDCasodex/Zoladex Biomarkers in Localised Prostate Cancer
NCT00334139PHASE4COMPLETEDEffect of Zoledronic Acid on Bone Metabolism in Patients With Bone Metastasis and Prostate or Breast Cancer
NCT00375765PHASE4COMPLETEDEffects On Dihydrotestosterone Regulated Gene Expression In Benign Prostatic Hyperplasia Or Prostate Cancer
NCT00391690PHASE4COMPLETEDEvaluation of Bone Markers as Diagnostic Tools for Early Detection of Bone Metastases in Patients With High Risk Prostate Cancer
NCT00422708PHASE4COMPLETEDLocal Anesthesia for Prostate Biopsy
NCT00526331PHASE4COMPLETEDEvaluation of Arterial Pressure Based Cardiac Output for Goal-Directed Perioperative Therapy
NCT00590213PHASE4COMPLETEDCompare the Value of Prophylactic Versus Therapeutic Breast Radiotherapy in CASODEX
NCT00629330PHASE4TERMINATEDDissemination of Prostate Cancer Screening to PCP’s in African American Communities
NCT00771966PHASE4COMPLETEDRadical Prostatectomy and Perioperative Fluid Therapy
NCT00805701PHASE4COMPLETEDStudy Assessing The Efficacy And Safety Of Avodart (Dutasteride) At Improving Urinary Symptoms In Men With Prostate Cancer Who Are Undergoing Seed Implantation
NCT00859027PHASE4COMPLETEDEffect Of Risedronate On Bone Mass In Older Men Receiving Neoadjuvant Therapy For Prostate Cancer
NCT00906269PHASE4UNKNOWNCan Hyperbaric Oxygen Improve Erectile Function Following Surgery for Prostate Cancer
NCT00953277PHASE4COMPLETEDStudy of Nerve Reconstruction Using AVANCE in Subjects Who Undergo Robotic Assisted Prostatectomy for Treatment of Prostate Cancer
NCT00982800PHASE4COMPLETEDDoes Postoperative Gabapentin Reduce Pain, Opioid Consumption and Anxiety and Have a Positive Effect on Health Related Quality of Life After Radical Prostatectomy?
NCT01083199PHASE4COMPLETEDGlobal Performance Evaluation of the AMS CONTINUUM™ Device
NCT01136226PHASE4COMPLETEDEvaluate Recovery of Testosterone for Patients Using Eligard
NCT01161563PHASE4COMPLETEDRandomized Crossover Trial to Assess the Tolerability of Gonadotropin Releasing Hormone (GnRH) Analogue Administration
NCT01230905PHASE4COMPLETEDStudy to Monitor the Effects of Androgen Suppression Treatment on the Heart
NCT01296672PHASE4COMPLETED3 Month Finasteride Challenge Test Can Significantly Improve the Performance of Screening for Prostate Cancer
NCT01365143PHASE4TERMINATEDProspective Randomized Trial Comparing Robotic Versus Open Radical Prostatectomy
NCT01379742PHASE4UNKNOWNComparison of Between ThinSeed™ and OncoSeed™ for Permanent Prostate Brachytherapy
NCT01486563PHASE4COMPLETEDHydroxyethyl Starch and Renal Function After Radical Prostatectomy
NCT01511874PHASE4COMPLETEDEfficacy and Safety Study of ELIGARD 22.5mg With Prostate Cancer