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 5HDO | pdb_00005hdo

Crystal structure of a nanobody raised against urokinase-type plasminogen activator

External Resource: Annotation


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Dd5hdod_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches Dromedary (Camelus dromedarius ) [TaxId: 9838 ], SCOPe (2.08)
Cd5hdoc1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches Dromedary (Camelus dromedarius ) [TaxId: 9838 ], SCOPe (2.08)
Cd5hdoc2 Artifacts Tags Tags Tags C-terminal Tags Dromedary (Camelus dromedarius ) [TaxId: 9838 ], SCOPe (2.08)
Bd5hdob_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches Dromedary (Camelus dromedarius ) [TaxId: 9838 ], SCOPe (2.08)
Ad5hdoa_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches Dromedary (Camelus dromedarius ) [TaxId: 9838 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DDnaJe5hdoD1 A: alpha arraysX: Thymine dioxygenase JBP1 DNA-binding domain-likeH: Oligo-peptide binding protein (OPPA) insertion domainT: Oligo-peptide binding protein (OPPA) insertion domainF: DnaJECOD (v295.2)
CDnaJe5hdoC1 A: alpha arraysX: Thymine dioxygenase JBP1 DNA-binding domain-likeH: Oligo-peptide binding protein (OPPA) insertion domainT: Oligo-peptide binding protein (OPPA) insertion domainF: DnaJECOD (v295.2)
BDnaJe5hdoB1 A: alpha arraysX: Thymine dioxygenase JBP1 DNA-binding domain-likeH: Oligo-peptide binding protein (OPPA) insertion domainT: Oligo-peptide binding protein (OPPA) insertion domainF: DnaJECOD (v295.2)
ADnaJe5hdoA1 A: alpha arraysX: Thymine dioxygenase JBP1 DNA-binding domain-likeH: Oligo-peptide binding protein (OPPA) insertion domainT: Oligo-peptide binding protein (OPPA) insertion domainF: DnaJECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
D2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
C2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
B2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
A2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
A, B, C, D
Anti-HCV NS3/4A serine protease VH Camelus dromedarius (Arabian camel) IGHV3S1*01, IGHJ6*01 V-DOMAIN VH IG (VH) IMGT (202638-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A, B, C, D
Heavy ChainIGHV1 --SAbDab (2026-10-02)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D
Anti-HCV NS3/4A serine protease immoglobulin heavy chain- -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D
IPR050199Immunoglobulin Heavy VariableFamily
A, B, C, D
IPR013783Immunoglobulin-like foldHomologous Superfamily
A, B, C, D
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
A, B, C, D
IPR013106Immunoglobulin V-set domainDomain
A, B, C, D
IPR003599Immunoglobulin domain subtypeDomain
A, B, C, D
IPR007110Immunoglobulin-like domainDomain