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 6XW4 | pdb_00006xw4

Crystal structure of murine norovirus P domain in complex with Nanobody NB-5867

External Resource: Annotation


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Dd6xw4d1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Dd6xw4d3 Artifacts Tags Tags Tags C-terminal Tags alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Dd6xw4d2 Artifacts Tags Tags Tags N-terminal Tags alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Cd6xw4c1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Cd6xw4c3 Artifacts Tags Tags Tags C-terminal Tags alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Cd6xw4c2 Artifacts Tags Tags Tags N-terminal Tags alpaca (Vicugna pacos ) [TaxId: 30538 ], SCOPe (2.08)
Bd6xw4b_ All beta proteins Nucleoplasmin-like/VP (viral coat and capsid proteins) Positive stranded ssRNA viruses automated matches automated matches (Murine norovirus 1 ) [TaxId: 223997 ], SCOPe (2.08)
Ad6xw4a_ All beta proteins Nucleoplasmin-like/VP (viral coat and capsid proteins) Positive stranded ssRNA viruses automated matches automated matches (Murine norovirus 1 ) [TaxId: 223997 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DCation_ATPasee6xw4D1 A: alpha arraysX: putative RnfG subunit of electron transport complexH: putative RnfG subunit of electron transport complexT: Aspartate/ornithine carbamoyltransferaseF: Cation_ATPaseECOD (v295.2)
CCation_ATPasee6xw4C1 A: alpha arraysX: putative RnfG subunit of electron transport complexH: putative RnfG subunit of electron transport complexT: Aspartate/ornithine carbamoyltransferaseF: Cation_ATPaseECOD (v295.2)
BCation_ATPasee6xw4B1 A: alpha arraysX: putative RnfG subunit of electron transport complexH: putative RnfG subunit of electron transport complexT: Aspartate/ornithine carbamoyltransferaseF: Cation_ATPaseECOD (v295.2)
ACation_ATPasee6xw4A1 A: alpha arraysX: putative RnfG subunit of electron transport complexH: putative RnfG subunit of electron transport complexT: Aspartate/ornithine carbamoyltransferaseF: Cation_ATPaseECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B2.40.510.10 Mainly Beta Beta Barrel Nucleoplasmin-like/VP (viral coat and capsid proteins) Positive stranded ssRNA virusesCATH (utative)
B2.40.30.120 Mainly Beta Beta Barrel Elongation Factor Tu (Ef-tu) domain 3CATH (utative)
A2.40.510.10 Mainly Beta Beta Barrel Nucleoplasmin-like/VP (viral coat and capsid proteins) Positive stranded ssRNA virusesCATH (utative)
A2.40.30.120 Mainly Beta Beta Barrel Elongation Factor Tu (Ef-tu) domain 3CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
C, D
Heavy ChainIGHV1 -capsid proteinSAbDab (2026-09-18)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C, D
Nanobody NB-5867---
A, B
Capsid protein- -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B
IPR029053Viral coat protein subunitHomologous Superfamily
A, B
IPR004005Calicivirus coat proteinDomain
A, B
IPR013643Calicivirus coat protein C-terminalDomain
A, B
IPR033703Picornavirus/Calicivirus coat proteinDomain