MolNFT v1 · #144412 · protein
High-resolution structure analysis of antibody V5 and U4 conformational epitope on human papillomavirus 16
6BSP · U4 heavy chain: “High-resolution structure analysis of antibody V5 and U4 conformational epitope on human papillomavirus 16”. Electron microscopy, 20 pockets (best druggability 0.90). MolNFT v1 #144412 on GenesisL1: 3D structure…
- PDB
- 6BSP
- Type
- protein
- Length
- 3,019 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- U4 heavy chain; U4 light chain; Major capsid protein L1
- UniProt
- P03101
- Pockets
- 20 · best druggability 0.90
Structure
electron microscopy · 6 distinct chains · 11% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | U4 heavy chain | protein | 109 | 3% helix, 31% strand | — |
| B | U4 light chain | protein | 110 | 0% helix, 21% strand | — |
| C, F, H | Major capsid protein L1 | protein | 468 | 12% helix, 30% strand | P03101 |
| D | Major capsid protein L1 | protein | 460 | 13% helix, 26% strand | P03101 |
| E | Major capsid protein L1 | protein | 469 | 13% helix, 28% strand | P03101 |
| G | Major capsid protein L1 | protein | 467 | 13% helix, 28% strand | P03101 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1008 | 0.90 | 0.92 | 173 | empty |
| 2 | 1019 | 0.80 | 0.81 | 103 | empty |
| 3 | 1039 | 0.78 | 0.80 | 136 | empty |
| 4 | 983 | 0.77 | 0.79 | 105 | empty |
| 5 | 805 | 0.75 | 0.79 | 114 | empty |
Interfaces
16 interfaces between chains.
- F–G · 3622 Ų buried · 31 hydrogen bonds · protein-protein
- E–F · 3566 Ų buried · 32 hydrogen bonds · protein-protein
- G–H · 3526 Ų buried · 29 hydrogen bonds · protein-protein
- D–E · 3496 Ų buried · 31 hydrogen bonds · protein-protein
- D–H · 3258 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6BSP · High-Resolution Structure Analysis of Antibody V5 and U4 Conformational Epitope on Human… · 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 P03101
- Elsewhere: RCSB PDB 6BSP · PDBe 6BSP · UniProt P03101
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