3J0C

Models of E1, E2 and CP of Venezuelan Equine Encephalitis Virus TC-83 strain restrained by a near atomic resolution cryo-EM map


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
CSCOP2B SuperfamilyTrypsin-like serine proteases 8044424 3000114 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyTrypsin-like serine proteases 8044424 3000114 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyTrypsin-like serine proteases 8044424 3000114 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyTrypsin-like serine proteases 8044424 3000114 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AAlpha_E1_glycop_2nde3j0cA2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E1_glycop_2ndECOD (1.6)
AAlpha_E1_glycop_1ste3j0cA1 A: beta complex topologyX: Viral glycoprotein, central and dimerisation domains-likeH: Viral glycoprotein, central and dimerisation domains (From Topology)T: Viral glycoprotein, central and dimerisation domainsF: Alpha_E1_glycop_1stECOD (1.6)
AAlpha_E1_glycop_likee3j0cA3 A: extended segmentsX: Transmembrane helix of E1 envelope glycoprotein (From Topology)H: Transmembrane helix of E1 envelope glycoprotein (From Topology)T: Transmembrane helix of E1 envelope glycoproteinF: Alpha_E1_glycop_likeECOD (1.6)
DAlpha_E1_glycop_2nde3j0cD2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E1_glycop_2ndECOD (1.6)
DAlpha_E1_glycop_1ste3j0cD1 A: beta complex topologyX: Viral glycoprotein, central and dimerisation domains-likeH: Viral glycoprotein, central and dimerisation domains (From Topology)T: Viral glycoprotein, central and dimerisation domainsF: Alpha_E1_glycop_1stECOD (1.6)
DAlpha_E1_glycop_likee3j0cD3 A: extended segmentsX: Transmembrane helix of E1 envelope glycoprotein (From Topology)H: Transmembrane helix of E1 envelope glycoprotein (From Topology)T: Transmembrane helix of E1 envelope glycoproteinF: Alpha_E1_glycop_likeECOD (1.6)
GAlpha_E1_glycop_2nde3j0cG2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E1_glycop_2ndECOD (1.6)
GAlpha_E1_glycop_1ste3j0cG1 A: beta complex topologyX: Viral glycoprotein, central and dimerisation domains-likeH: Viral glycoprotein, central and dimerisation domains (From Topology)T: Viral glycoprotein, central and dimerisation domainsF: Alpha_E1_glycop_1stECOD (1.6)
GAlpha_E1_glycop_likee3j0cG3 A: extended segmentsX: Transmembrane helix of E1 envelope glycoprotein (From Topology)H: Transmembrane helix of E1 envelope glycoprotein (From Topology)T: Transmembrane helix of E1 envelope glycoproteinF: Alpha_E1_glycop_likeECOD (1.6)
JAlpha_E1_glycop_2nde3j0cJ2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E1_glycop_2ndECOD (1.6)
JAlpha_E1_glycop_1ste3j0cJ1 A: beta complex topologyX: Viral glycoprotein, central and dimerisation domains-likeH: Viral glycoprotein, central and dimerisation domains (From Topology)T: Viral glycoprotein, central and dimerisation domainsF: Alpha_E1_glycop_1stECOD (1.6)
JAlpha_E1_glycop_likee3j0cJ3 A: extended segmentsX: Transmembrane helix of E1 envelope glycoprotein (From Topology)H: Transmembrane helix of E1 envelope glycoprotein (From Topology)T: Transmembrane helix of E1 envelope glycoproteinF: Alpha_E1_glycop_likeECOD (1.6)
BAlpha_E2_glycop_2nde3j0cB2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_2ndECOD (1.6)
BAlpha_E2_glycop_1ste3j0cB1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_1stECOD (1.6)
BAlpha_E2_glycop_3rd_2e3j0cB3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_3rd_2ECOD (1.6)
EAlpha_E2_glycop_2nde3j0cE2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_2ndECOD (1.6)
EAlpha_E2_glycop_1ste3j0cE1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_1stECOD (1.6)
EAlpha_E2_glycop_3rd_2e3j0cE3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_3rd_2ECOD (1.6)
HAlpha_E2_glycop_2nde3j0cH2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_2ndECOD (1.6)
HAlpha_E2_glycop_1ste3j0cH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_1stECOD (1.6)
HAlpha_E2_glycop_3rd_2e3j0cH3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_3rd_2ECOD (1.6)
KAlpha_E2_glycop_2nde3j0cK2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_2ndECOD (1.6)
KAlpha_E2_glycop_1ste3j0cK1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_1stECOD (1.6)
KAlpha_E2_glycop_3rd_2e3j0cK3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Alpha_E2_glycop_3rd_2ECOD (1.6)
CPeptidase_S3e3j0cC1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: Peptidase_S3ECOD (1.6)
FPeptidase_S3e3j0cF1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: Peptidase_S3ECOD (1.6)
IPeptidase_S3e3j0cI1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: Peptidase_S3ECOD (1.6)
LPeptidase_S3e3j0cL1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: Peptidase_S3ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, D, G, J
PF01589Alphavirus E1 glycoprotein (Alpha_E1_glycop)Alphavirus E1 glycoprotein- Family
B, E, H, K
PF00943Alphavirus E2 glycoprotein (Alpha_E2_glycop)Alphavirus E2 glycoprotein- Family
C, F, I, L
PF00944Alphavirus core protein (Peptidase_S3)Alphavirus core proteinAlso known as coat protein C and capsid protein C. This makes the literature very confusing. Alphaviruses consist of a nucleoprotein core, a lipid membrane which envelopes the core, and glycoprotein spikes protruding from the lipid membrane.Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, D, G, J
E1 envelope glycoprotein
B, E, H, K
E2 envelope glycoprotein
C, F, I, L
Capsid protein

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, D, G, J
IPR002533Alphavirus E3 spike glycoproteinDomain
A, D, G, J
IPR038055Flaviviral glycoprotein E, dimerisation domainHomologous Superfamily
A, D, G, J
IPR014756Immunoglobulin E-setHomologous Superfamily
A, D, G, J
IPR042304Alphavirus E2 glycoprotein, domain AHomologous Superfamily
A, D, G, J
IPR036253Flavivirus glycoprotein, central and dimerisation domain superfamilyHomologous Superfamily
A, D, G, J
IPR009003Peptidase S1, PA clanHomologous Superfamily
A, D, G, J
IPR042305Alphavirus E2 glycoprotein, domain BHomologous Superfamily
A, D, G, J
IPR042306Alphavirus E2 glycoprotein, domain CHomologous Superfamily
A, D, G, J
IPR000936Alphavirus E2 glycoproteinFamily
A, D, G, J
IPR000930Peptidase S3, togavirinDomain
A, D, G, J
IPR002548Alphavirus E1 glycoproteinDomain
A, D, G, J
IPR000336Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamilyHomologous Superfamily
A, D, G, J
IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily
B, E, H, K
IPR002533Alphavirus E3 spike glycoproteinDomain
B, E, H, K
IPR038055Flaviviral glycoprotein E, dimerisation domainHomologous Superfamily
B, E, H, K
IPR014756Immunoglobulin E-setHomologous Superfamily
B, E, H, K
IPR042304Alphavirus E2 glycoprotein, domain AHomologous Superfamily
B, E, H, K
IPR036253Flavivirus glycoprotein, central and dimerisation domain superfamilyHomologous Superfamily
B, E, H, K
IPR009003Peptidase S1, PA clanHomologous Superfamily
B, E, H, K
IPR042305Alphavirus E2 glycoprotein, domain BHomologous Superfamily
B, E, H, K
IPR042306Alphavirus E2 glycoprotein, domain CHomologous Superfamily
B, E, H, K
IPR000936Alphavirus E2 glycoproteinFamily
B, E, H, K
IPR000930Peptidase S3, togavirinDomain
B, E, H, K
IPR002548Alphavirus E1 glycoproteinDomain
B, E, H, K
IPR000336Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamilyHomologous Superfamily
B, E, H, K
IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily
C, F, I, L
IPR002533Alphavirus E3 spike glycoproteinDomain
C, F, I, L
IPR038055Flaviviral glycoprotein E, dimerisation domainHomologous Superfamily
C, F, I, L
IPR014756Immunoglobulin E-setHomologous Superfamily
C, F, I, L
IPR042304Alphavirus E2 glycoprotein, domain AHomologous Superfamily
C, F, I, L
IPR036253Flavivirus glycoprotein, central and dimerisation domain superfamilyHomologous Superfamily
C, F, I, L
IPR009003Peptidase S1, PA clanHomologous Superfamily
C, F, I, L
IPR042305Alphavirus E2 glycoprotein, domain BHomologous Superfamily
C, F, I, L
IPR042306Alphavirus E2 glycoprotein, domain CHomologous Superfamily
C, F, I, L
IPR000936Alphavirus E2 glycoproteinFamily
C, F, I, L
IPR000930Peptidase S3, togavirinDomain
C, F, I, L
IPR002548Alphavirus E1 glycoproteinDomain
C, F, I, L
IPR000336Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamilyHomologous Superfamily
C, F, I, L
IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

ChainsExternal LinkTypeClassSuperfamilyFamily
A, B, C, D, E
OPMTransmembraneBitopic proteinsViral membrane fusion glycoproteinAlphavirus E1 glycoprotein

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, D, E
PDBTMAnnotated as membrane protein by PDBTM