Crystal structure of hVEGF in complex with VK domain antibody
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
| Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| C [auth V] | d5fv1v_ | Small proteins | Cystine-knot cytokines | Cystine-knot cytokines | Platelet-derived growth factor-like | automated matches | HUMAN (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
| D [auth W] | d5fv1w1 | Small proteins | Cystine-knot cytokines | Cystine-knot cytokines | Platelet-derived growth factor-like | automated matches | HUMAN (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
| D [auth W] | d5fv1w2 | Artifacts | Tags | Tags | Tags | C-terminal Tags | HUMAN (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
| A [auth L] | d5fv1l_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | HUMAN (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
| B [auth M] | d5fv1m_ | All beta proteins | Immunoglobulin-like beta-sandwich | Immunoglobulin | V set domains (antibody variable domain-like) | automated matches | HUMAN (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| C [auth V] | Glyco_hydro_31_2nd | e5fv1V1 | A: alpha bundles | X: Lipocalins/Streptavidin | H: Fibronectin type I module-like | T: Fibronectin type I module | F: Glyco_hydro_31_2nd | ECOD (develop294) |
| D [auth W] | Glyco_hydro_31_2nd | e5fv1W1 | A: alpha bundles | X: Lipocalins/Streptavidin | H: Fibronectin type I module-like | T: Fibronectin type I module | F: Glyco_hydro_31_2nd | ECOD (develop294) |
| A [auth L] | Glyco_hydro_31_2nd | e5fv1L1 | A: alpha bundles | X: Lipocalins/Streptavidin | H: Fibronectin type I module-like | T: Fibronectin type I module | F: Glyco_hydro_31_2nd | ECOD (develop294) |
| B [auth M] | Glyco_hydro_31_2nd | e5fv1M1 | A: alpha bundles | X: Lipocalins/Streptavidin | H: Fibronectin type I module-like | T: Fibronectin type I module | F: Glyco_hydro_31_2nd | ECOD (develop294) |
Domain Annotation: CATH CATH Database Homepage
| Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
|---|---|---|---|---|---|---|
| C [auth V] | 2.10.90.10 | Mainly Beta | Ribbon | Cystine Knot Cytokines, subunit B | Cystine-knot cytokines | CATH (4.3.0) |
| D [auth W] | 2.10.90.10 | Mainly Beta | Ribbon | Cystine Knot Cytokines, subunit B | Cystine-knot cytokines | CATH (4.3.0) |
| A [auth L] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
| B [auth M] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (4.3.0) |
IMGT Antibody Annotation IMGT Database Homepage
| Chain | Protein Name | Description | Organism Name | Gene Allele Name(s) | Domain Name(s) | Receptor Type | Receptor Description | Provenance Source |
|---|---|---|---|---|---|---|---|---|
| A [auth L], B [auth M] | V-KAPPA | V-KAPPA | Homo sapiens (human) | IGKV1-16*01, IGKV1-39*01, IGKV1D-39*01, IGKV1D-16*01, IGKJ1*01 | V-DOMAIN V-KAPPA | IG | (V-KAPPA) | IMGT (202610-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
| Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
|---|---|---|---|---|---|
| A [auth L], B [auth M] | Light Chain | IGKV1 | Kappa | vascular endothelial growth factor a | SAbDab (2026-03-20) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| C [auth V], D [auth W] | PF00341 | PDGF/VEGF domain (PDGF) | PDGF/VEGF domain | Domain | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
| Chains | Accession | Name | Type |
|---|---|---|---|
| C [auth V], D [auth W] | IPR029034 | Cystine-knot cytokine | Homologous Superfamily |
| C [auth V], D [auth W] | IPR036841 | Vascular endothelial growth factor, heparin-binding domain superfamily | Homologous Superfamily |
| C [auth V], D [auth W] | IPR023581 | Platelet-derived growth factor, conserved site | Conserved Site |
| C [auth V], D [auth W] | IPR000072 | PDGF/VEGF domain | Domain |
| C [auth V], D [auth W] | IPR027928 | Vascular endothelial growth factor, heparin-binding domain | Domain |
| C [auth V], D [auth W] | IPR050507 | Platelet-derived/Vascular endothelial growth factor | Family |














