MolNFT v1 · #118911 · protein
Three dimensional structure of broadly neutralizing human anti - hepatitis C virus (HCV) glycoprotein E2 Fab fragment HC33.8
5FGC · Genome polyprotein: “Three dimensional structure of broadly neutralizing human anti - hepatitis C virus (HCV) glycoprotein E2 Fab…”. X-ray diffraction, 4 pockets (best druggability 0.62). MolNFT v1 #118911 on GenesisL1: 3D…
- PDB
- 5FGC
- Type
- protein
- Length
- 448 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein; Anti-HCV E2 Fab HC33.8 light chain; Anti-HCV E2 Fab HC33.8 heavy chain
- EC
- 3.4.22.-, 3.4.21.98, 3.6.1.15, 3.6.4.13, 2.7.7.48
- UniProt
- P27958
- Pockets
- 4 · best druggability 0.62
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Genome polyprotein (EC 3.4.22.-, 3.4.21.98, 3.6.1.15, 3.6.4.13, 2.7.7.48) | protein | 9 | 0% helix, 0% strand | P27958 |
| B | Anti-HCV E2 Fab HC33.8 light chain | protein | 214 | 7% helix, 50% strand | — |
| E | Anti-HCV E2 Fab HC33.8 heavy chain | protein | 225 | 7% helix, 52% strand | — |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 622 | 0.62 | 0.74 | 55 | empty |
| 2 | 137 | 0.51 | 0.80 | 24 | empty |
| 3 | 75 | 0.31 | 0.74 | 17 | empty |
| 4 | 72 | 0.30 | 0.73 | 19 | empty |
Interfaces
3 interfaces between chains.
- B–E · 2105 Ų buried · 23 hydrogen bonds · protein-protein
- A–E · 627 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 94 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 5FGC · Three dimensional structure of broadly neutralizing human anti - Hepatitis C virus (HCV)… · the same entry in another collection · chain A against A, 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 P27958
- Elsewhere: RCSB PDB 5FGC · PDBe 5FGC · UniProt P27958
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