7FEI

Complex of FMDV A/WH/CHA/09 and bovine neutralizing scFv antibody R55


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth 1]PF22663e7fei11 A: beta sandwichesX: jelly-rollH: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)T: Nucleoplasmin-like/VP (viral coat and capsid proteins)F: PF22663ECOD (1.6)
B [auth 2]PF00073e7fei21 A: beta sandwichesX: jelly-rollH: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)T: Nucleoplasmin-like/VP (viral coat and capsid proteins)F: PF00073ECOD (1.6)
C [auth 3]PF00073e7fei31 A: beta sandwichesX: jelly-rollH: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)T: Nucleoplasmin-like/VP (viral coat and capsid proteins)F: PF00073ECOD (1.6)
E [auth H]PF07686e7feiH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
F [auth L]PF07686e7feiL1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
E [auth H]Heavy ChainIGHV1 -capsid protein vp0 | capsid protein vp0SAbDab (2024-04-26)
F [auth L]Light ChainIGLV1 Lambdacapsid protein vp0 | capsid protein vp0SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B [auth 2]PF00073picornavirus capsid protein (Rhv)picornavirus capsid proteinCAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornavi ...CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.
Domain
C [auth 3]PF00073picornavirus capsid protein (Rhv)picornavirus capsid proteinCAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornavi ...CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognised. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.
Domain
D [auth 4]PF08935Viral protein VP4 subunit (VP4_2)Viral protein VP4 subunitThis domain is predominantly found in viral proteins from the family Picornaviridae. It is VP4 of the viral polyprotein which, in poliovirus, is part of the capsid that consists of 60 copies each of four proteins VP1, VP2, VP3, and VP4 arranged on an ...This domain is predominantly found in viral proteins from the family Picornaviridae. It is VP4 of the viral polyprotein which, in poliovirus, is part of the capsid that consists of 60 copies each of four proteins VP1, VP2, VP3, and VP4 arranged on an icosahedral lattice [1]. VP4 is on the inside and differs from the others in being small, myristoylated and having an extended structure. Productive infection involves the externalisation of the VP4, which is cleaved from the rest, along with the N-terminus of VP1. There thus seem to be three stages of the virus, ie a multi-step process for cell entry involving RNA translocation through a membrane channel formed by the externalised N termini of VP1 [2].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 1]Capsid protein VP0
B [auth 2]Capsid protein VP0
C [auth 3]Capsid protein VP0
D [auth 4]Capsid protein VP0
E [auth H]IG HEAVY CHAIN VARIABLE REGION---
F [auth L]IG LAMDA CHAIN VARIABLE REGION---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth 1]IPR029053Viral coat protein subunitHomologous Superfamily
A [auth 1]IPR004080Foot-and-mouth disease virus VP1 coatDomain
A [auth 1]IPR001676Picornavirus capsidDomain
A [auth 1]IPR033703Picornavirus/Calicivirus coat proteinDomain
B [auth 2]IPR015031Capsid protein VP4, PicornavirusDomain
B [auth 2]IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
B [auth 2]IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
B [auth 2]IPR038765Papain-like cysteine peptidase superfamilyHomologous Superfamily
B [auth 2]IPR008739Peptidase C28, foot-and-mouth virus L-proteinaseDomain
B [auth 2]IPR000199Peptidase C3A/C3B, picornaviralDomain
B [auth 2]IPR001676Picornavirus capsidDomain
B [auth 2]IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
B [auth 2]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
B [auth 2]IPR029053Viral coat protein subunitHomologous Superfamily
B [auth 2]IPR004080Foot-and-mouth disease virus VP1 coatDomain
B [auth 2]IPR009003Peptidase S1, PA clanHomologous Superfamily
B [auth 2]IPR004004Helicase/polymerase/peptidase polyprotein, Calicivirus-typeFamily
B [auth 2]IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
B [auth 2]IPR044067Picornavirales 3C/3C-like protease domainDomain
B [auth 2]IPR033703Picornavirus/Calicivirus coat proteinDomain
B [auth 2]IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily
B [auth 2]IPR007094RNA-directed RNA polymerase, catalytic domainDomain
B [auth 2]IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
B [auth 2]IPR037080Capsid protein VP4 superfamily, PicornavirusHomologous Superfamily
C [auth 3]IPR015031Capsid protein VP4, PicornavirusDomain
C [auth 3]IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
C [auth 3]IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
C [auth 3]IPR038765Papain-like cysteine peptidase superfamilyHomologous Superfamily
C [auth 3]IPR008739Peptidase C28, foot-and-mouth virus L-proteinaseDomain
C [auth 3]IPR000199Peptidase C3A/C3B, picornaviralDomain
C [auth 3]IPR001676Picornavirus capsidDomain
C [auth 3]IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
C [auth 3]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
C [auth 3]IPR029053Viral coat protein subunitHomologous Superfamily
C [auth 3]IPR004080Foot-and-mouth disease virus VP1 coatDomain
C [auth 3]IPR009003Peptidase S1, PA clanHomologous Superfamily
C [auth 3]IPR004004Helicase/polymerase/peptidase polyprotein, Calicivirus-typeFamily
C [auth 3]IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
C [auth 3]IPR044067Picornavirales 3C/3C-like protease domainDomain
C [auth 3]IPR033703Picornavirus/Calicivirus coat proteinDomain
C [auth 3]IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily
C [auth 3]IPR007094RNA-directed RNA polymerase, catalytic domainDomain
C [auth 3]IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
C [auth 3]IPR037080Capsid protein VP4 superfamily, PicornavirusHomologous Superfamily
D [auth 4]IPR015031Capsid protein VP4, PicornavirusDomain
D [auth 4]IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
D [auth 4]IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
D [auth 4]IPR038765Papain-like cysteine peptidase superfamilyHomologous Superfamily
D [auth 4]IPR008739Peptidase C28, foot-and-mouth virus L-proteinaseDomain
D [auth 4]IPR000199Peptidase C3A/C3B, picornaviralDomain
D [auth 4]IPR001676Picornavirus capsidDomain
D [auth 4]IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
D [auth 4]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
D [auth 4]IPR029053Viral coat protein subunitHomologous Superfamily
D [auth 4]IPR004080Foot-and-mouth disease virus VP1 coatDomain
D [auth 4]IPR009003Peptidase S1, PA clanHomologous Superfamily
D [auth 4]IPR004004Helicase/polymerase/peptidase polyprotein, Calicivirus-typeFamily
D [auth 4]IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
D [auth 4]IPR044067Picornavirales 3C/3C-like protease domainDomain
D [auth 4]IPR033703Picornavirus/Calicivirus coat proteinDomain
D [auth 4]IPR043504Peptidase S1, PA clan, chymotrypsin-like foldHomologous Superfamily
D [auth 4]IPR007094RNA-directed RNA polymerase, catalytic domainDomain
D [auth 4]IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
D [auth 4]IPR037080Capsid protein VP4 superfamily, PicornavirusHomologous Superfamily