8DER

Cryo-EM local refinement of antibody SKV16 in complex with VEEV alphavirus spike glycoprotein


Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A [auth X]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
I [auth H]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
K [auth W]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
B [auth Y]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
J [auth L]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
L [auth V]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
C [auth G]2.60.40.350 Mainly Beta Sandwich Immunoglobulin-like CATH (utative)
D [auth E]2.60.40.350 Mainly Beta Sandwich Immunoglobulin-like CATH (utative)
F2.60.40.350 Mainly Beta Sandwich Immunoglobulin-like CATH (utative)
E [auth C]2.60.40.3200 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, A domainCATH (utative)
E [auth C]2.60.40.2400 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, domain CCATH (utative)
G [auth B]2.60.40.3200 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, A domainCATH (utative)
G [auth B]2.60.40.2400 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, domain CCATH (utative)
H [auth A]2.60.40.3200 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, A domainCATH (utative)
H [auth A]2.60.40.2400 Mainly Beta Sandwich Immunoglobulin-like Alphavirus E2 glycoprotein, domain CCATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A [auth X],
I [auth H],
K [auth W]
Heavy ChainIGHV3 -spike glycoprotein e2SAbDab (2025-02-21)
B [auth Y],
J [auth L],
L [auth V]
Light ChainIGLV3 Lambdaspike glycoprotein e2SAbDab (2025-02-21)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C [auth G],
D [auth E],
F
PF01589Alphavirus E1 glycoprotein (Alpha_E1_glycop)Alphavirus E1 glycoprotein- Family
E [auth C],
G [auth B],
H [auth A]
PF00943Alphavirus E2 glycoprotein (Alpha_E2_glycop)Alphavirus E2 glycoprotein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth X],
I [auth H],
K [auth W]
SKV16 Fab Heavy Chain---
B [auth Y],
J [auth L],
L [auth V]
SKV16 Fab Light Chain---
C [auth G],
D [auth E],
F
Spike glycoprotein E1
E [auth C],
G [auth B],
H [auth A]
Spike glycoprotein E2

InterPro: Protein Family Classification InterPro Database Homepage

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