C2

gene
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Summary

C2 (complement C2, HGNC:1248) is a protein-coding gene on chromosome 6p21.33, encoding Complement C2 (P06681). Precursor of the catalytic component of the C3 and C5 convertase complexes, which are part of the complement pathway, a cascade of proteins that leads to phagocytosis and breakdown of pathogens and signaling that strengthens the adaptive immune system.

Component C2 is a serum glycoprotein that functions as part of the classical pathway of the complement system. Activated C1 cleaves C2 into C2a and C2b. The serine proteinase C2a then combines with complement factor 4b to create the C3 or C5 convertase. Deficiency of C2 has been reported to associated with certain autoimmune diseases and SNPs in this gene have been associated with altered susceptibility to age-related macular degeneration. This gene localizes within the class III region of the MHC on the short arm of chromosome 6. Alternative splicing results in multiple transcript variants encoding distinct isoforms. Additional transcript variants have been described in publications but their full-length sequence has not been determined.

Source: NCBI Gene 717 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): complement component 2 deficiency (Strong, GenCC)
  • GWAS associations: 68
  • Clinical variants (ClinVar): 513 total — 17 pathogenic, 11 likely-pathogenic
  • Phenotypes (HPO): 3
  • Druggable target: yes
  • MANE Select transcript: NM_000063

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:1248
Approved symbolC2
Namecomplement C2
Location6p21.33
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000166278
Ensembl biotypeprotein_coding
OMIM613927
Entrez717

Gene structure

Transcript identifiers

Ensembl transcripts: 27 — 17 protein_coding, 4 nonsense_mediated_decay, 4 retained_intron, 1 non_stop_decay, 1 protein_coding_CDS_not_defined

ENST00000299367, ENST00000383177, ENST00000411571, ENST00000413154, ENST00000418949, ENST00000442278, ENST00000447952, ENST00000452202, ENST00000452323, ENST00000468407, ENST00000469372, ENST00000482060, ENST00000484636, ENST00000485690, ENST00000486124, ENST00000494905, ENST00000497706, ENST00000695637, ENST00000695638, ENST00000695639, ENST00000695640, ENST00000695644, ENST00000695645, ENST00000695646, ENST00000862556, ENST00000862557, ENST00000862558

RefSeq mRNA: 6 — MANE Select: NM_000063 NM_000063, NM_001145903, NM_001178063, NM_001282457, NM_001282458, NM_001282459

CCDS: CCDS4728, CCDS54991, CCDS56416, CCDS75427, CCDS75428

Canonical transcript exons

ENST00000299367 — 18 exons

ExonStartEnd
ENSE000018639513192771731927798
ENSE000034655063193923131939320
ENSE000035101543193361031933783
ENSE000035260313193416631934299
ENSE000035424423193592331936061
ENSE000035426223193386731933965
ENSE000035551573194517831945672
ENSE000036241133194295931943099
ENSE000036257583194364431943809
ENSE000036415593194498031945029
ENSE000036464813194391731943993
ENSE000036493453194341631943527
ENSE000036741133194322531943319
ENSE000036775383193731931937459
ENSE000036819523194413531944226
ENSE000037883303194472731944853
ENSE000039645573192795531928164
ENSE000039645593192873231928917

Expression profiles

Bgee: expression breadth ubiquitous, 138 present calls, max score 99.21.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 10.7629 / max 761.6776, expressed in 1499 samples.

FANTOM5 promoters (9 alternative TSS)

Promoter IDTPM avgSamples expressed
670906.4129589
670802.84021182
670840.614543
670870.4840147
670880.241276
670850.073412
670830.046912
670860.034611
670820.01526

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
liverUBERON:000210799.21gold quality
right lobe of liverUBERON:000111499.17gold quality
placentaUBERON:000198796.35gold quality
spleenUBERON:000210694.06gold quality
upper lobe of left lungUBERON:000895293.51gold quality
gall bladderUBERON:000211092.81gold quality
vermiform appendixUBERON:000115492.07gold quality
omental fat padUBERON:001041492.01gold quality
right lungUBERON:000216791.96gold quality
lymph nodeUBERON:000002991.42gold quality
lungUBERON:000204890.50gold quality
duodenumUBERON:000211490.48gold quality
colonic epitheliumUBERON:000039790.21gold quality
small intestine Peyer’s patchUBERON:000345489.87gold quality
small intestineUBERON:000210889.72gold quality
adipose tissueUBERON:000101389.05gold quality
smooth muscle tissueUBERON:000113588.15gold quality
rectumUBERON:000105286.79gold quality
subcutaneous adipose tissueUBERON:000219086.64gold quality
right adrenal gland cortexUBERON:003582786.64gold quality
right coronary arteryUBERON:000162585.43gold quality
right adrenal glandUBERON:000123385.00gold quality
left adrenal glandUBERON:000123484.43gold quality
urinary bladderUBERON:000125584.40gold quality
monocyteCL:000057684.26gold quality
left adrenal gland cortexUBERON:003582583.65gold quality
intestineUBERON:000016083.64gold quality
leukocyteCL:000073883.62gold quality
adrenal glandUBERON:000236983.02gold quality
olfactory segment of nasal mucosaUBERON:000538682.75gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 3.

ExperimentMarker?Max mean expression
E-ANND-3yes25.49
E-MTAB-6678yes10.58
E-HCAD-11yes7.40
E-MTAB-6142no8.40

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NKX2-5, TP53

miRNA regulators (miRDB)

29 targeting C2, 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-6758-5P100.0066.211470
HSA-MIR-6856-5P100.0065.471298
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-450099.9972.722367
HSA-LET-7A-5P99.9872.291790
HSA-LET-7B-5P99.9872.311790
HSA-LET-7C-5P99.9872.291790
HSA-LET-7E-5P99.9872.291790
HSA-LET-7F-5P99.9872.561784
HSA-LET-7G-5P99.9872.371784
HSA-LET-7I-5P99.9872.371788
HSA-MIR-98-5P99.9872.331787
HSA-LET-7D-5P99.9671.761632
HSA-MIR-445899.9671.641650
HSA-MIR-426199.5970.303415
HSA-MIR-6833-5P99.5068.931161
HSA-MIR-797798.6566.182590
HSA-MIR-6831-5P98.2667.20990
HSA-MIR-7113-5P97.8867.331735
HSA-MIR-425797.8668.051190
HSA-MIR-204-3P97.8066.841656
HSA-MIR-6893-3P97.7964.911238
HSA-MIR-4646-5P97.7066.841692
HSA-MIR-3927-3P97.6866.76892
HSA-MIR-512-5P97.4766.48591
HSA-MIR-370-3P97.0964.921221
HSA-MIR-582-3P96.6967.381019
HSA-MIR-6753-5P94.7064.08470

Literature-anchored findings (GeneRIF, showing 38)

  • C2 microheterogeneity and histocompatibility antigens Class I were studied in an Austrian population. (PMID:12823772)
  • study of the formation of high affinity C5 convertase of the classical pathway of complement (PMID:12878586)
  • Mannan-binding lectin activates C3 and the alternative complement pathway without involvement of C2 (PMID:16670774)
  • a weaker, independent protective effect exists for complement component 2 in age related macular degeneration. (PMID:17576744)
  • C2/CFB significantly influences AMD susceptibility and although accounting for effects at this locus does not dramatically increase the overall accuracy of the genetic risk model, the improvement over the CFH-LOC387715 model is statistically significant (PMID:18493315)
  • The SNPs rs3753394 and rs800292 of CFH and rs11200638 of HTRA1 are significantly associated with the risk of PCV (polypoidal choroidal vasculopathy) in Chinese patients. (PMID:18515590)
  • These data confirm that the classical pathway is vital for complement-mediated phagocytosis of S. pneumoniae and demonstrate why subjects with a C2 deficiency have a marked increase in susceptibility to S. pneumoniae infections. (PMID:18541650)
  • In this study, the association of the IVS10 and R32Q variants in the C2 and BF genes in AMD was replicated. Haplotype analysis indicated association of these variants with AMD in an Australian population. (PMID:18806293)
  • Because of the high level of linkage disequilibrium within the extended CC2/CFB region, variation within SKIV2L may exert a functional effect in age-related macular degeneration. (PMID:18806297)
  • Study provides insights into the genetic pathogenesis of AMD, and C2 has been shown as one of the five genes independently involved in progression from intermediate disease to advanced disease in which blindness is frequent. (PMID:19015224)
  • Upon cleavage by C1s, C2a domains undergo conformational rotation while bound to C4b and the released C2b domains may remain folded together as seen in the intact protein. (PMID:19237749)
  • Data show that SNPs, and haplotypes risk trends were consistent with those seen in other population studies for CFH, C3, C2, and CFB. (PMID:19259132)
  • Our results do not support any major role of the 4 AMD-associated variants in the risk of developing PCV, but favor a predominant association with the RDBP-SKIV2L variants (PMID:19556007)
  • The results of the present study provide an independent validation of the association of rs547154 (C2) and rs641153 (CFB) SNPs with reduced risk of AMD in an Indian cohort. (PMID:19696172)
  • The polypoidal choroidal vasculopathy (PCV) phenotype in Caucasian patients is associated with the major alleles/genotypes in the age-related macular degeneration (AMD)-associated loci, suggesting that PCV and AMD are genetically similar. (PMID:20378180)
  • These data suggest that patients with C2 deficiency are at increased risk of Streptococcus pyogenes infections. (PMID:20417301)
  • This study showed that CFH was more likely to be age-related macular(AMD) susceptibility gene, and none of the other C2, CFB, and C3 genes were associated with AMD in a white population. (PMID:20523265)
  • These overall results suggest a lack of strong association with the C2 and C7 gene polymorphisms to the susceptibility of systemic lupus erythematosus in the Malaysian population. (PMID:21881993)
  • C2/CFB variants play a protective role in the risk of developing neovascular AMD and PCV in the Japanese. (PMID:22232432)
  • In conclusion, the genetic effect of C2, CFB and C3 polymorphisms, which are known to be important for AMD in Caucasian, were not significant in the Korean population. (PMID:22273503)
  • Results showed that missense mutations in transmembrane protein 2 p.Ser1254Asn, interferon alpha 2 p.Ala120Thr, its regulator NLR family member X1 p.Arg707Cys, and complement component 2 p.Glu318Asp were associated with chronic hepatitis B. (PMID:22610944)
  • This meta-analysis provides evidence for an association between C2/CFB polymorphisms and age-related macular degeneration. (PMID:22869612)
  • CFH (RS1061170), C2 (RS547154), OR CFB (RS438999) was not associated with early or late AMD. (PMID:23060141)
  • Gene variants in CFH and C2/CFB contribute to age related macular degeneration in the Chinese population. (PMID:23233260)
  • ARMS2 and C3 are major contributors to advanced age-related macular degeneration in Mexican patients, while the contributions of CFH, C2, and CFB are minor to those of other populations. (PMID:24453474)
  • The rs547154, rs641153, and rs12614 SNPs were not associated with age-related macular degeneration development in Greek patients. (PMID:24519512)
  • The C2 and CFB gene variants were shown to be associated with polypoidal CNV. Typical PCV was not associated with variants in these genes. (PMID:24965207)
  • Inhibition of c3 convertase activity by hepatitis C virus as an additional lesion in the regulation of complement components. (PMID:24983375)
  • our data indicate that C2 rs547154 polymorphism plays a protective role in the development of PCV. (PMID:25732348)
  • The rs2844455 A allele of C2 is a risk factor for systemic lupus erythematosus development in a Chinese population, whereas the G allele might be a protective factor. (PMID:26176736)
  • Solution Structures of Complement C2 and Its C4 Complexes Propose Pathway-specific Mechanisms for Control and Activation of the Complement Proconvertases. (PMID:27252379)
  • Vag8 binding to human C1-inhibitor (C1-inh) interferes with the binding of C1-inh to C1s, C1r and MASP-2, resulting in the release of active proteases that subsequently cleave C2 and C4 away from the bacterial surface. (PMID:28742139)
  • Logistic regression analyses showed that six C2 single nucleotide polymorphisms had significant associations with the risk of chronic hepatitis B and chronic hepatitis B-related hepatocellular carcinoma among the Korean subjects. Stepwise analysis revealed that causal markers (rs9267665 and rs10947223) were identified among the C2 variants. (PMID:29283494)
  • The pooled ORs for rs551397, rs2274700, rs4151667, rs641153, rs1047286, rs9332739, and rs547154 in the heterozygote model were 0.53, 0.53 , 0.54, 0.48, 1.42, 0.50, and 0.52, respectively. We confirmed the protective role of C2/CFB/CFH polymorphisms in the development of Age-Related Macular Degeneration (AMD), and showed single nucleotide polymorphism in C3 was a high-risk factor for AMD (PMID:30179527)
  • Hereditary Deficiency of the Second Component of Complement: Early Diagnosis and 21-Year Follow-Up of a Family. (PMID:32164349)
  • Complement protein levels and MBL2 polymorphisms are associated with dengue and disease severity. (PMID:32913345)
  • Gain-of-Function Mutations R249C and S250C in Complement C2 Protein Increase C3 Deposition in the Presence of C-Reactive Protein. (PMID:34899688)
  • Proteomic analysis of diabetes genetic risk scores identifies complement C2 and neuropilin-2 as predictors of type 2 diabetes: the Atherosclerosis Risk in Communities (ARIC) Study. (PMID:36194249)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusC2ENSMUSG00000024371
rattus_norvegicusC2ENSRNOG00000051235

Paralogs (39): CFH (ENSG00000000971), SELE (ENSG00000007908), C8B (ENSG00000021852), C6 (ENSG00000039537), SEZ6 (ENSG00000063015), CFHR2 (ENSG00000080910), APOH (ENSG00000091583), SEZ6L (ENSG00000100095), SUSD6 (ENSG00000100647), SRPX (ENSG00000101955), SRPX2 (ENSG00000102359), C7 (ENSG00000112936), C9 (ENSG00000113600), PAPPA2 (ENSG00000116183), CFHR3 (ENSG00000116785), CR2 (ENSG00000117322), CD46 (ENSG00000117335), CSMD2 (ENSG00000121904), C4BPA (ENSG00000123838), C4BPB (ENSG00000123843), CFHR4 (ENSG00000134365), CFHR5 (ENSG00000134389), F13B (ENSG00000143278), SUSD4 (ENSG00000143502), C8A (ENSG00000157131), SUSD3 (ENSG00000157303), CSMD3 (ENSG00000164796), SVEP1 (ENSG00000165124), SELP (ENSG00000174175), SEZ6L2 (ENSG00000174938), PRF1 (ENSG00000180644), PAPPA (ENSG00000182752), CSMD1 (ENSG00000183117), SELL (ENSG00000188404), CD55 (ENSG00000196352), CR1L (ENSG00000197721), CR1 (ENSG00000203710), CFB (ENSG00000243649), CFHR1 (ENSG00000244414)

Protein

Protein identifiers

Complement C2P06681 (reviewed: P06681)

Alternative names: C3/C5 convertase

All UniProt accessions (17): A0A8Q3WKM6, A0A8Q3WKM9, A0A8Q3WKN5, A0A8Q3WL70, P06681, A2ABG0, B4DQI1, C9JYQ5, E9PDZ0, F2Z306, F2Z3N2, F8WCJ9, H0Y3H6, H0Y868, Q5JP69, Q5ST52, Q8N6L6

UniProt curated annotations — full annotation on UniProt →

Function. Precursor of the catalytic component of the C3 and C5 convertase complexes, which are part of the complement pathway, a cascade of proteins that leads to phagocytosis and breakdown of pathogens and signaling that strengthens the adaptive immune system. Component C2 is part of the classical, lectin and GZMK complement systems. Catalytic component of the complement C3 and C5 convertase complexes. Following complement activation, recruited to the surface of pathogens by complement C4b opsonin to form the C3 convertase, or C3b and C4b opsonins to form the C5 convertase. As part of the C3 convertase, cleaves and activate C3 into C3a anaphylatoxin and C3b opsonin, the next components of the complement pathways. As part of the C5 convertase, cleaves and activate C5 into C5a anaphylatoxin and C5b component of the membrane attack complex.

Subunit / interactions. Serine protease component of the C3 convertase, also named C4bC2b, composed of the serine protease complement C2b and complement C4b. Serine protease component of the C5 convertase, also named C4bC2bC3b, composed of the serine protease complement C2b, complement C3b, as well as complement C4b. (Microbial infection) Interacts with Schistosoma haematobium TOR (via N-terminal extracellular domain). This results in inhibition of the classical and lectin pathway of complement activation, probably due to interference with binding of C2a to C4b such that C3 convertase cannot be formed. This infers resistance to complement-mediated cell lysis, allowing parasite survival and infection.

Subcellular location. Secreted. Cell surface.

Post-translational modifications. Cleaved and activated by different proteases depending on the complement pathway to generate complement C2a and serine protease complement C2b chains. Cleaved and activated by C1S following activation by the classical complement system. Cleaved and activated by MASP2 following activation by the lectin complement system. Cleaved and activated by GZMK following activation by the GZMK complement system.

Disease relevance. Macular degeneration, age-related, 14 (ARMD14) [MIM:615489] A form of age-related macular degeneration, a multifactorial eye disease and the most common cause of irreversible vision loss in the developed world. In most patients, the disease is manifest as ophthalmoscopically visible yellowish accumulations of protein and lipid that lie beneath the retinal pigment epithelium and within an elastin-containing structure known as Bruch membrane. Disease susceptibility may be associated with variants affecting the gene represented in this entry. Haplotype analyzes have identified a statistically significant common risk haplotype and two protective haplotypes. CFB variant His-9 and C2 variant Asp-318, as well as CFB variant Gln-32 and a variant in intron 10 of C2, confer a significantly reduced risk of AMD. Complement component 2 deficiency (C2D) [MIM:217000] A rare defect of the complement classical pathway associated with the development of autoimmune disorders, mainly systemic lupus erythematosus. Skin and joint manifestations are common and renal disease is relatively rare. Patients with complement component 2 deficiency are also reported to have recurrent invasive infections. The disease is caused by variants affecting the gene represented in this entry.

Domain organisation. The MIDAS-like motif in the VWFA domain binds divalent metal cations.

Miscellaneous. C2 is a major histocompatibility complex class-III protein.

Similarity. Belongs to the peptidase S1 family.

Isoforms (3)

UniProt IDNamesCanonical?
P06681-11yes
P06681-22
P06681-33

RefSeq proteins (6): NP_000054, NP_001139375, NP_001171534, NP_001269386, NP_001269387, NP_001269388 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000436Sushi_SCR_CCP_domDomain
IPR001254Trypsin_domDomain
IPR001314Peptidase_S1AFamily
IPR002035VWF_ADomain
IPR009003Peptidase_S1_PAHomologous_superfamily
IPR011360Compl_C2_BFamily
IPR018114TRYPSIN_HISActive_site
IPR033116TRYPSIN_SERActive_site
IPR035976Sushi/SCR/CCP_sfHomologous_superfamily
IPR036465vWFA_dom_sfHomologous_superfamily
IPR043504

Pfam: PF00084, PF00089, PF00092

UniProt features (128 total): strand 43, helix 24, disulfide bond 11, glycosylation site 8, binding site 6, sequence variant 6, domain 5, mutagenesis site 5, sequence conflict 5, chain 3, active site 3, turn 3, splice variant 3, signal peptide 1, site 1, short sequence motif 1

Structure

Experimental structures (PDB)

14 structures.

PDBMethodResolution (Å)
3ERBX-RAY DIFFRACTION1.8
8ACFX-RAY DIFFRACTION1.8
8ACIX-RAY DIFFRACTION1.85
2ODPX-RAY DIFFRACTION1.9
2I6QX-RAY DIFFRACTION2.1
2ODQX-RAY DIFFRACTION2.3
2I6SX-RAY DIFFRACTION2.7
9U60ELECTRON MICROSCOPY2.9
9U5ZELECTRON MICROSCOPY3.1
9U61ELECTRON MICROSCOPY3.1
9QJ5ELECTRON MICROSCOPY3.5
9QK2ELECTRON MICROSCOPY3.5
9QJ4ELECTRON MICROSCOPY3.9
9QPYELECTRON MICROSCOPY4.3

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P06681-F188.610.66

Antibody-complex structures (SAbDab): 28ACF, 8ACI

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 (4): 507 (charge relay system); 561 (charge relay system); 679 (charge relay system); 243–244 (cleavage; by c1s, masp2 and gzmk)

Ligand- & substrate-binding residues (6): 262; 262; 264; 264; 337; 337

Disulfide bonds (11): 24–64, 51–84, 89–131, 117–144, 151–191, 177–204, 463–581, 492–508, 584–600, 638–665, 675–705

Glycosylation sites (8): 29, 112, 290, 333, 467, 471, 621, 651

Mutagenesis-validated functional residues (5):

PositionPhenotype
261prolonged activity and half-life.
263prolonged activity and half-life.
344promotes partial resistance to degradation, slightly increasing half-life of the protein.
347promotes resistance to degradation, increasing half-life of the protein.
348promotes partial resistance to degradation, slightly increasing half-life of the protein.

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-166663Initial triggering of complement
R-HSA-174577Activation of C3 and C5
R-HSA-977606Regulation of Complement cascade

MSigDB gene sets: 259 (showing top): MODULE_172, REACTOME_INNATE_IMMUNE_SYSTEM, GOBP_POSITIVE_REGULATION_OF_ENDOCYTOSIS, MODULE_45, GOCC_CELL_SURFACE, GOBP_APOPTOTIC_CELL_CLEARANCE, GOBP_VESICLE_MEDIATED_TRANSPORT, GAURNIER_PSMD4_TARGETS, GOBP_LEUKOCYTE_MEDIATED_IMMUNITY, GOBP_REGULATION_OF_VESICLE_MEDIATED_TRANSPORT, GOBP_B_CELL_MEDIATED_IMMUNITY, YAN_ESCAPE_FROM_ANOIKIS, PICCALUGA_ANGIOIMMUNOBLASTIC_LYMPHOMA_UP, GOBP_REGULATION_OF_IMMUNE_RESPONSE, MODULE_75

GO Biological Process (11): proteolysis (GO:0006508), complement activation (GO:0006956), complement activation, classical pathway (GO:0006958), response to nutrient (GO:0007584), response to bacterium (GO:0009617), response to lipopolysaccharide (GO:0032496), response to thyroid hormone (GO:0097066), complement activation, GZMK pathway (GO:0160257), positive regulation of apoptotic cell clearance (GO:2000427), immune system process (GO:0002376), innate immune response (GO:0045087)

GO Molecular Function (6): serine-type endopeptidase activity (GO:0004252), metal ion binding (GO:0046872), protein binding (GO:0005515), peptidase activity (GO:0008233), serine-type peptidase activity (GO:0008236), hydrolase activity (GO:0016787)

GO Cellular Component (5): extracellular region (GO:0005576), obsolete extracellular space (GO:0005615), cell surface (GO:0009986), extracellular exosome (GO:0070062), symbiont cell surface (GO:0106139)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Complement cascade3

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
complement activation2
cellular anatomical structure2
protein metabolic process1
immune effector process1
activation of immune response1
humoral immune response1
protein activation cascade1
humoral immune response mediated by circulating immunoglobulin1
response to nutrient levels1
response to chemical1
response to other organism1
response to molecule of bacterial origin1
response to lipid1
response to oxygen-containing compound1
response to hormone1
innate immune response1
apoptotic cell clearance1
positive regulation of phagocytosis1
regulation of apoptotic cell clearance1
biological_process1
immune response1
defense response to symbiont1
endopeptidase activity1
serine-type peptidase activity1
cation binding1
binding1
hydrolase activity1
catalytic activity, acting on a protein1
peptidase activity1
serine hydrolase activity1
catalytic activity1
extracellular vesicle1
other organism part1

Protein interactions and networks

STRING

886 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
C2CFHP08603862
C2ARMS2P0C7Q2765
C2CFHR3Q02985758
C2DXOO77932740
C2CFHR1Q03591739
C2C4AP01028732
C2C3P01024729
C2C4AP01028723
C2CD55P08174702
C2CFIP05156696
C2HMCN1Q96RW7679
C2SKIC2Q15477651
C2WHR1P49842623
C2FBLN5Q9UBX5616
C2ABCA4P78363587
C2PLEKHA1Q9HB21587

IntAct

37 interactions, top by confidence:

ABTypeScore
C1SSERPING1psi-mi:“MI:0570”(protein cleavage)0.720
C2CREB3psi-mi:“MI:0915”(physical association)0.560
C2SEC11Cpsi-mi:“MI:0915”(physical association)0.560
C2ERGIC3psi-mi:“MI:0915”(physical association)0.560
C2STOMpsi-mi:“MI:0915”(physical association)0.560
C2SLC35C2psi-mi:“MI:0915”(physical association)0.560
C2MUC1psi-mi:“MI:0915”(physical association)0.560
C2FAM209Apsi-mi:“MI:0915”(physical association)0.560
C2SLC10A1psi-mi:“MI:0915”(physical association)0.560
C2EBPpsi-mi:“MI:0915”(physical association)0.560
C1SC2psi-mi:“MI:0570”(protein cleavage)0.440
C2CD55psi-mi:“MI:0915”(physical association)0.400
Mpsi-mi:“MI:0914”(association)0.350
C2SEC11Cpsi-mi:“MI:0915”(physical association)0.000
C2ERGIC3psi-mi:“MI:0915”(physical association)0.000
C2STOMpsi-mi:“MI:0915”(physical association)0.000
C2SLC35C2psi-mi:“MI:0915”(physical association)0.000
C2MUC1psi-mi:“MI:0915”(physical association)0.000
C2SLC10A1psi-mi:“MI:0915”(physical association)0.000
C2FAM209Apsi-mi:“MI:0915”(physical association)0.000

BioGRID (14): CREB3 (Two-hybrid), CD55 (Affinity Capture-MS), C2 (Two-hybrid), C2 (Two-hybrid), C2 (Two-hybrid), C2 (Two-hybrid), C2 (Two-hybrid), C2 (Two-hybrid), SEC11C (Two-hybrid), MUC1 (Two-hybrid), C2 (Affinity Capture-RNA), C2 (Reconstituted Complex), C2 (Reconstituted Complex), CD55 (Affinity Capture-MS)

ESM2 similar proteins: A0A1D5NSM8, A2AVA0, B1AUH1, B3DK56, D3YXF5, E9Q6D8, G5E8Q8, O18016, O18023, O43278, O97827, P06681, P0C6B8, P13671, P21180, P28175, P35442, P35448, P61134, P61135, Q03350, Q05793, Q08E66, Q26422, Q29RU4, Q3SYW2, Q4LDE5, Q5E9P5, Q5G872, Q5MD89, Q5RDI1, Q6DIV5, Q6GP28, Q6NZL8, Q6UXH9, Q6YI48, Q7TQN3, Q811M5, Q863A0, Q8BU25

Diamond homologs: A0A1D5NSM8, A0JNA2, A2AVA0, A2AX52, D3YXF5, O02839, O19063, O35764, O43405, O70340, O76536, O89029, O95502, O96530, P02741, P02743, P06205, P06206, P06207, P06681, P07202, P07629, P08607, P09871, P0C6B8, P10643, P12246, P13944, P14151, P14847, P15697, P18337, P23680, P32018, P47970, P47971, P47972, P48199, P49254, P49262

SIGNOR signaling

7 interactions.

AEffectBMechanism
MASP2“up-regulates activity”C2cleavage
MASP1“up-regulates activity”C2cleavage
C2“form complex”“C3 convertase complex”binding
“Complement C1 complex”“up-regulates activity”C2cleavage

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic17
Likely pathogenic11
Uncertain significance237
Likely benign179
Benign8

Top pathogenic / likely-pathogenic (28)

Variant IDHGVSClassification
12128NM_000063.6(C2):c.626C>T (p.Ser209Phe)Pathogenic
1452098NM_000063.6(C2):c.37del (p.Leu13fs)Pathogenic
2054147NM_000063.6(C2):c.275_276del (p.Pro92fs)Pathogenic
2750154NM_000063.6(C2):c.917del (p.Met306fs)Pathogenic
2818188NM_000063.6(C2):c.970G>T (p.Glu324Ter)Pathogenic
2842298NM_000063.6(C2):c.1654C>T (p.Gln552Ter)Pathogenic
2870130NM_000063.6(C2):c.795_796del (p.Ser266fs)Pathogenic
2876427NM_000063.6(C2):c.630T>A (p.Tyr210Ter)Pathogenic
2965736NM_000063.6(C2):c.768C>G (p.Tyr256Ter)Pathogenic
3246079NC_000006.11:g.(?31895530)(31905256_?)delPathogenic
3257316NM_000063.6(C2):c.1215T>A (p.Tyr405Ter)Pathogenic
3393189NM_000063.6(C2):c.1902+1G>APathogenic
3720679NM_000063.6(C2):c.235_236del (p.Leu79fs)Pathogenic
4712064NM_000063.6(C2):c.1790del (p.Gly597fs)Pathogenic
4781380NM_000063.6(C2):c.626_627dup (p.Tyr210fs)Pathogenic
4800554NM_000063.6(C2):c.1366_1367del (p.Ser456fs)Pathogenic
591016NM_000063.6(C2):c.1102C>T (p.Arg368Ter)Pathogenic
1910255NM_000063.6(C2):c.715+1G>TLikely pathogenic
1916286NM_000063.6(C2):c.616+1G>ALikely pathogenic
2125178NM_000063.6(C2):c.1733+1G>ALikely pathogenic
2179104NM_000063.6(C2):c.616+2T>GLikely pathogenic
2706458NM_000063.6(C2):c.1361-1G>TLikely pathogenic
2726593NM_000063.6(C2):c.2030-1G>ALikely pathogenic
3381002NM_000063.6(C2):c.1829_1832del (p.Lys610fs)Likely pathogenic
3692514NM_000063.6(C2):c.1810+2T>GLikely pathogenic
369516NM_000063.6(C2):c.1360+1G>ALikely pathogenic
4081217NM_000063.6(C2):c.1683_1685delinsATA (p.Asp561_Ile562delinsGluTer)Likely pathogenic
915386NM_000063.6(C2):c.839_849del (p.Met280fs)Likely pathogenic

SpliceAI

3454 predictions. Top by Δscore:

VariantEffectΔscore
6:31933781:GCC:Gdonor_gain1.0000
6:31933784:G:GGdonor_gain1.0000
6:31933861:CCACA:Cacceptor_loss1.0000
6:31933862:CACA:Cacceptor_loss1.0000
6:31933862:CACAG:Cacceptor_loss1.0000
6:31933863:ACAG:Aacceptor_loss1.0000
6:31933863:ACAGA:Aacceptor_loss1.0000
6:31933864:CA:Cacceptor_loss1.0000
6:31933865:A:AGacceptor_gain1.0000
6:31933865:A:Gacceptor_loss1.0000
6:31933866:G:GAacceptor_gain1.0000
6:31933866:G:GGacceptor_gain1.0000
6:31933962:AAGG:Adonor_gain1.0000
6:31933963:AGG:Adonor_gain1.0000
6:31933964:GG:Gdonor_gain1.0000
6:31933964:GGG:Gdonor_gain1.0000
6:31933964:GGGTG:Gdonor_loss1.0000
6:31933965:GG:Gdonor_gain1.0000
6:31933965:GGT:Gdonor_loss1.0000
6:31933966:G:GGdonor_gain1.0000
6:31933966:GTGA:Gdonor_loss1.0000
6:31933967:T:Adonor_loss1.0000
6:31933967:T:Gdonor_loss1.0000
6:31934274:A:Tdonor_gain1.0000
6:31937306:T:TAacceptor_gain1.0000
6:31937307:G:Aacceptor_gain1.0000
6:31937310:A:AGacceptor_gain1.0000
6:31937311:T:Gacceptor_gain1.0000
6:31937312:A:AGacceptor_gain1.0000
6:31937314:TCCAG:Tacceptor_loss1.0000

AlphaMissense

4972 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:31933758:G:CW197C0.999
6:31933758:G:TW197C0.999
6:31943302:T:AW480R0.998
6:31943302:T:CW480R0.998
6:31928886:G:CW137C0.997
6:31928886:G:TW137C0.997
6:31933756:T:AW197R0.997
6:31933756:T:CW197R0.997
6:31943304:G:CW480C0.997
6:31943304:G:TW480C0.997
6:31943924:T:CC581R0.997
6:31928118:G:CW70C0.996
6:31928118:G:TW70C0.996
6:31943924:T:AC581S0.996
6:31943925:G:CC581S0.996
6:31943926:C:GC581W0.996
6:31943933:T:CC584R0.996
6:31945190:A:CS698R0.996
6:31945192:C:AS698R0.996
6:31945192:C:GS698R0.996
6:31928866:T:AC131S0.995
6:31928867:G:CC131S0.995
6:31928884:T:AW137R0.995
6:31928884:T:CW137R0.995
6:31933738:T:AC191S0.995
6:31933739:G:CC191S0.995
6:31943465:T:AV502D0.995
6:31943482:T:AC508S0.995
6:31943483:G:CC508S0.995
6:31943484:C:GC508W0.995

dbSNP variants (sampled 300 via entrez): RS1000055943 (6:31906530 G>C), RS1000085928 (6:31908097 C>T), RS1000154409 (6:31916621 GGC>G), RS1000170944 (6:31938475 T>C), RS1000331243 (6:31924981 C>G), RS1000458044 (6:31908351 C>T), RS1000484025 (6:31931733 C>G,T), RS1000517218 (6:31922384 C>A), RS1000533023 (6:31907000 C>G,T), RS1000594486 (6:31913173 C>T), RS1000605161 (6:31938723 G>A), RS1000625618 (6:31913405 A>C,G), RS1000666722 (6:31929796 G>A), RS1000900895 (6:31899814 C>A), RS1001000490 (6:31940012 G>T)

Disease associations

OMIM: gene MIM:613927 | disease phenotypes: MIM:217000, MIM:615489, MIM:612924

GenCC curated gene-disease

DiseaseClassificationInheritance
complement component 2 deficiencyStrongAutosomal recessive

Mondo (6): complement component 2 deficiency (MONDO:0009006), age related macular degeneration 14 (MONDO:0014207), atypical hemolytic-uremic syndrome with B factor anomaly (MONDO:0013042), atypical hemolytic-uremic syndrome (MONDO:0016244), focal segmental glomerulosclerosis (MONDO:0100313), macular degeneration (MONDO:0003004)

Orphanet (2): Atypical hemolytic uremic syndrome (Orphanet:2134), OBSOLETE: Atypical hemolytic uremic syndrome with B factor anomaly (Orphanet:93578)

HPO phenotypes

3 total (3 of 3 shown, HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0000979Purpura
HP:0002725Systemic lupus erythematosus

GWAS associations

68 associations (top):

StudyTraitp-value
GCST000652_5Age-related macular degeneration2.000000e-08
GCST000652_8Age-related macular degeneration3.000000e-21
GCST000653_7Age-related macular degeneration2.000000e-20
GCST000902_3Hepatocellular carcinoma2.000000e-06
GCST001100_11Age-related macular degeneration2.000000e-23
GCST001578_4Age-related macular degeneration (geographic atrophy)1.000000e-06
GCST001579_5Age-related macular degeneration (choroidal neovascularisation)2.000000e-08
GCST001884_13Age-related macular degeneration4.000000e-89
GCST001942_21Prostate cancer5.000000e-09
GCST001979_2Circulating myeloperoxidase levels (serum)1.000000e-08
GCST002463_14Systemic lupus erythematosus8.000000e-21
GCST003219_23Advanced age-related macular degeneration1.000000e-103
GCST003219_24Advanced age-related macular degeneration3.000000e-06
GCST003219_25Advanced age-related macular degeneration9.000000e-12
GCST003219_26Advanced age-related macular degeneration3.000000e-10
GCST004131_25Inflammatory bowel disease2.000000e-31
GCST004133_79Ulcerative colitis5.000000e-65
GCST004521_114Autism spectrum disorder or schizophrenia3.000000e-17
GCST004521_117Autism spectrum disorder or schizophrenia3.000000e-15
GCST004521_118Autism spectrum disorder or schizophrenia3.000000e-15
GCST004521_126Autism spectrum disorder or schizophrenia2.000000e-10
GCST004521_154Autism spectrum disorder or schizophrenia3.000000e-08
GCST004521_162Autism spectrum disorder or schizophrenia3.000000e-08
GCST004521_17Autism spectrum disorder or schizophrenia2.000000e-12
GCST004521_173Autism spectrum disorder or schizophrenia4.000000e-14
GCST004521_209Autism spectrum disorder or schizophrenia5.000000e-16
GCST004521_211Autism spectrum disorder or schizophrenia5.000000e-15
GCST004521_213Autism spectrum disorder or schizophrenia5.000000e-13
GCST004521_224Autism spectrum disorder or schizophrenia5.000000e-10
GCST004521_227Autism spectrum disorder or schizophrenia4.000000e-12

EFO canonical traits (12, from GWAS)

EFO IDTrait name
EFO:1001492atrophic macular degeneration
EFO:0005243myeloperoxidase measurement
EFO:0008377mosquito bite reaction itch intensity measurement
EFO:0008378mosquito bite reaction size measurement
EFO:0008336disease progression measurement
EFO:0006781coffee consumption measurement
EFO:0008039BMI-adjusted hip circumference
EFO:0007788BMI-adjusted waist-hip ratio
EFO:0009130clostridium difficile infection
EFO:0004531urate measurement
EFO:0009749age at first sexual intercourse measurement
EFO:0007789BMI-adjusted waist circumference

MeSH disease descriptors (3)

DescriptorNameTree numbers
D065766Atypical Hemolytic Uremic SyndromeC12.050.351.968.419.936.463.500; C12.200.777.419.936.463.500; C12.950.419.936.463.500; C15.378.050.141.610.500; C15.378.140.855.925.500.500; C15.378.243.937.925.500.500
D005923Glomerulosclerosis, Focal SegmentalC12.050.351.968.419.570.363.640; C12.200.777.419.570.363.660; C12.950.419.570.363.640
D008268Macular DegenerationC11.768.585.439

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL4295701 (SINGLE PROTEIN)

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

PharmGKB variants

1 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs9332739C20.000

ChEMBL bioactivities

3 potent at pChembl≥5 of 4 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
6.48IC50330nMCHEMBL4247125
6.30IC50500nMCHEMBL4247125
5.14IC507300nMCHEMBL4247125

PubChem BioAssay actives

3 with measured affinity, of 4 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
(2S)-2-[[(2S)-2-acetamido-5-(diaminomethylideneamino)pentanoyl]amino]-N-[(2S)-1-[[(2S)-1-[[(2S)-1-[[(2S)-5-(diaminomethylideneamino)-1-oxopentan-2-yl]amino]-1-oxopropan-2-yl]amino]-4-methyl-1-oxopentan-2-yl]amino]-4-methyl-1-oxopentan-2-yl]-4-methylpentanamide1393232: Competitive/reversible inhibition of human C2 using Ac-SHLGLAR-pNA as substrateic500.3300uM

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Aflatoxin B1affects expression, affects methylation, decreases expression3
Benzo(a)pyreneaffects methylation, decreases expression, decreases methylation2
Smokedecreases expression2
Tetrachlorodibenzodioxinincreases expression2
Cyclosporinedecreases expression2
aristolochic acid Iincreases expression1
propionaldehydeincreases expression1
bisphenol Aincreases expression1
beta-lapachonedecreases expression, increases expression1
sodium arseniteincreases expression1
butyraldehydeincreases expression1
perfluorooctanoic aciddecreases expression1
benzo(e)pyrenedecreases methylation1
potassium chromate(VI)decreases expression1
aflatoxin B2decreases methylation1
chromium hexavalent iondecreases expression1
(+)-JQ1 compounddecreases expression1
Aripiprazoleincreases expression, affects cotreatment1
Fulvestrantincreases methylation1
Acetaminophendecreases expression1
Glyphosateincreases expression1
Air Pollutants, Occupationalincreases expression1
Allergensaffects cotreatment, increases expression1
Vehicle Emissionsincreases expression, affects cotreatment1
Benzeneincreases expression1
Calcitrioldecreases expression1
Estradioldecreases expression, affects cotreatment1
Methapyrilenedecreases methylation1
Nickelincreases expression1
Ozoneaffects cotreatment, increases expression1

ChEMBL screening assays

4 unique, capped per target: 4 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL4229702BindingCompetitive/reversible inhibition of human C2 using Ac-SHLGLAR-pNA as substrateChemical Approaches to Modulating Complement-Mediated Diseases. — J Med Chem

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT02574403PHASE4COMPLETEDStudy Assessing an Algorithm-based Strategy of Eculizumab Discontinuation in Children and Adults With aHUS
NCT07308574PHASE4RECRUITINGPost-Marketing Clinical Study of Ravulizumab in Participants With Clinical aHUS
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
NCT00312351PHASE4TERMINATEDA Clinical Trial to Explore the Safety and Efficacy of Three Different Doses of Pegaptanib Sodium in Patients With Wet Age-Related Macular Degeneration (AMD)
NCT00324116PHASE4COMPLETEDEvaluation Of Safety And Efficacy Of 0.3 Mg/Eye Macugen In Patients With Small Age-Related Macular Degeneration Lesions
NCT00327470PHASE4TERMINATEDAn Open Label Trial to Investigate Macugen for the Preservation of Visual Function in Subjects With Neovascular AMD
NCT00533520PHASE4COMPLETEDEvaluation of Dosing Interval of Higher Doses of Ranibizumab
NCT00813891PHASE4UNKNOWNEfficacy of Ranibizumab in Combination With Photodynamic Therapy for Wet Age-Related Macular Degeneration
NCT01006538PHASE4COMPLETEDMacular EpiRetinal Brachytherapy Versus Lucentis® Only Treatment (MERLOT)
NCT01213667PHASE4UNKNOWNGenetics in Non-response to Anti-VEGF Treatment in Exudative AMD
NCT01831947PHASE4COMPLETEDEfficacy Study of Ranibizumab on Patients With Age-related Macular Degeneration.
NCT02581891PHASE4COMPLETEDManaging Neovascular (Known as Wet) Age-related Macular Degeneration Over 2 Years Using Different Treatment Schedules of 2 mg Intravitreal Aflibercept Injected in the Eye
NCT02689518PHASE4COMPLETEDEAGLE: Evaluating Genotypes Using Intravitreal Aflibercept Injection
NCT03804099PHASE4COMPLETEDEffect Aflibercept on Ocular Perfusion
NCT07367282PHASE4NOT_YET_RECRUITINGEvaluate the Efficacy of Faricimab in Patients With Neovascular Age-related Macular Degeneration
NCT02949128PHASE3COMPLETEDStudy of ALXN1210 in Complement Inhibitor Treatment-Naïve Adult and Adolescent Participants With Atypical Hemolytic Uremic Syndrome (aHUS)
NCT03131219PHASE3COMPLETEDStudy of Ravulizumab in Children and Adolescents With Atypical Hemolytic Uremic Syndrome (aHUS)
NCT03205995PHASE3TERMINATEDSafety and Efficacy Study of OMS721 in Patients With Atypical Hemolytic Uremic Syndrome
NCT04861259PHASE3ACTIVE_NOT_RECRUITINGA Study Evaluating the Efficacy, Safety, Pharmacokinetics and Pharmacodynamics of Crovalimab in Adult and Adolescent Participants With Atypical Hemolytic Uremic Syndrome (aHUS)
NCT04889430PHASE3COMPLETEDEfficacy and Safety of Iptacopan (LNP023) in Adult Patients With Atypical Hemolytic Uremic Syndrome Naive to Complement Inhibitor Therapy
NCT04958265PHASE3ACTIVE_NOT_RECRUITINGA Study Evaluating the Efficacy, Safety, Pharmacokinetics and Pharmacodynamics of Crovalimab in Pediatric Participants With Atypical Hemolytic Uremic Syndrome (aHUS)
NCT05795140PHASE3RECRUITINGEvaluate Long-term Safety, Tolerability and Efficacy of Iptacopan in Study Participants With aHUS
NCT05935215PHASE3RECRUITINGEfficacy and Safety of Switching From Anti-C5 Antibody Treatment to Iptacopan Treatment in Study Participants With Atypical Hemolytic Uremic Syndrome (aHUS)
NCT01164098PHASE3TERMINATEDRituximab to Prevent Recurrence of Proteinuria
NCT02683889PHASE3COMPLETEDUse of Acthar in Patients With FSGS That Will be Undergoing Renal Transplantation
NCT03298698PHASE3UNKNOWNEfficacy of Rituximab in Comparison to Continued Corticosteroid Treatment in Idiopathic Nephrotic Syndrome
NCT03493685PHASE3COMPLETEDStudy of Sparsentan in Patients With Primary Focal Segmental Glomerulosclerosis (FSGS)
NCT05183646PHASE3RECRUITINGA Study of the Efficacy and Safety of DMX-200 in Patients With FSGS Who Are Receiving an ARB
NCT07220083PHASE3RECRUITINGA Study to Find Out if BI 764198 Helps Adults and Adolescents With a Kidney Condition Called Focal Segmental Glomerulosclerosis (FSGS)
NCT00000145PHASE3COMPLETEDAge-Related Eye Disease Study (AREDS)
NCT00000150PHASE3COMPLETEDSubmacular Surgery Trials (SST)
NCT00000152PHASE3UNKNOWNRandomized Trial of Beta-Carotene and Macular Degeneration
NCT00000158PHASE3UNKNOWNMacular Photocoagulation Study (MPS)
NCT00000161PHASE3UNKNOWNRandomized Trials of Vitamin Supplements and Eye Disease
NCT00000162PHASE3COMPLETEDBranch Vein Occlusion Study
NCT00000167PHASE3COMPLETEDComplications of Age-Related Macular Degeneration Prevention Trial