Research workbench
Neutralizing antibody MAB#8 in complex with the epitope II of HCV E2 envelope protein
Analyse Neutralizing antibody MAB#8 in complex with the epitope II of HCV E2 envelope… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4HZL
- Type
- protein
- Length
- 894 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab heavy chain; Fab light chain; E2 envelop protein
- UniProt
- F5BWY6
- Pockets
- 10 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 9% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H, A | Fab heavy chain | protein | 217 | 9% helix, 51% strand | — |
| L, B | Fab light chain | protein | 217 | 7% helix, 51% strand | — |
| E, F | E2 envelop protein | protein | 13 | 38% helix, 0% strand | F5BWY6 |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 972 | 0.76 | 0.78 | 93 | empty |
| 2 | 921 | 0.75 | 0.79 | 79 | empty |
| 3 | 414 | 0.67 | 0.80 | 62 | empty |
| 4 | 267 | 0.59 | 0.79 | 34 | empty |
| 5 | 53 | 0.57 | 0.90 | 24 | empty |
Interfaces
10 interfaces between chains.
- H–L · 1688 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1677 Ų buried · 15 hydrogen bonds · protein-protein
- A–F · 618 Ų buried · 20 hydrogen bonds · protein-protein
- H–E · 615 Ų buried · 17 hydrogen bonds · protein-protein
- L–A · 531 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4HZL · Neutralizing antibody mAb#8 in complex with the Epitope II of HCV E2 envelope protein · the same entry in another collection · chain H against H, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt F5BWY6
- Elsewhere: RCSB PDB 4HZL · PDBe 4HZL · UniProt F5BWY6
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