Research workbench
High-resolution structure analysis of antibody V5 conformational epitope on human papillomavirus 16
Analyse High-resolution structure analysis of antibody V5 conformational epitope on… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6BT3
- Type
- protein
- Length
- 4,572 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- V5 Fab light-chain; V5 Fab heavy-chain; Major capsid protein L1
- UniProt
- P03101
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 6 distinct chains · 10% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | V5 Fab light-chain | protein | 220 | 6% helix, 40% strand | — |
| B, D, F, H | V5 Fab heavy-chain | protein | 223 | 0% helix, 39% strand | — |
| I, L, N | Major capsid protein L1 | protein | 468 | 12% helix, 30% strand | P03101 |
| J | Major capsid protein L1 | protein | 460 | 12% helix, 29% strand | P03101 |
| K | Major capsid protein L1 | protein | 469 | 12% helix, 28% strand | P03101 |
| M | Major capsid protein L1 | protein | 467 | 12% 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 | 883 | 0.84 | 0.85 | 118 | empty |
| 2 | 1022 | 0.84 | 0.84 | 135 | empty |
| 3 | 900 | 0.83 | 0.85 | 119 | empty |
| 4 | 936 | 0.81 | 0.83 | 105 | empty |
| 5 | 606 | 0.80 | 0.85 | 90 | empty |
Interfaces
42 interfaces between chains.
- J–K · 3718 Ų buried · 29 hydrogen bonds · protein-protein
- L–M · 3696 Ų buried · 28 hydrogen bonds · protein-protein
- K–L · 3656 Ų buried · 34 hydrogen bonds · protein-protein
- M–N · 3589 Ų buried · 28 hydrogen bonds · protein-protein
- J–N · 3538 Ų buried · 30 hydrogen bonds · protein-protein
Compared structures
- 6BT3 · High-Resolution Structure Analysis of Antibody V5 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 6BT3 · PDBe 6BT3 · UniProt P03101
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.