MolNFT v1 · #180439 · protein
High resolution cryo EM analysis of HPV16 identifies minor structural protein L2 and describes capsid flexibility
7KZF · Major capsid protein L1: “High resolution cryo EM analysis of HPV16 identifies minor structural protein L2 and describes capsid…”. Electron microscopy, 20 pockets (best druggability 0.80). MolNFT v1 #180439 on GenesisL1: 3D…
- PDB
- 7KZF
- Type
- protein
- Length
- 2,864 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major capsid protein L1
- UniProt
- P03101
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 5 distinct chains · 11% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F | Major capsid protein L1 | protein | 483 | 11% helix, 35% strand | P03101 |
| B | Major capsid protein L1 | protein | 466 | 11% helix, 35% strand | P03101 |
| C, D | Major capsid protein L1 | protein | 480 | 10% helix, 33% strand | P03101 |
| E | Major capsid protein L1 | protein | 481 | 12% helix, 33% strand | P03101 |
| A | Major capsid protein L1 | protein | 474 | 11% helix, 30% strand | P03101 |
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1142 | 0.80 | 0.82 | 143 | empty |
| 2 | 986 | 0.70 | 0.75 | 52 | empty |
| 3 | 469 | 0.68 | 0.79 | 73 | empty |
| 4 | 475 | 0.68 | 0.79 | 62 | empty |
| 5 | 458 | 0.68 | 0.79 | 69 | empty |
Interfaces
12 interfaces between chains.
- B–C · 4156 Ų buried · 55 hydrogen bonds · protein-protein
- F–E · 4153 Ų buried · 54 hydrogen bonds · protein-protein
- C–D · 3988 Ų buried · 58 hydrogen bonds · protein-protein
- F–B · 3971 Ų buried · 56 hydrogen bonds · protein-protein
- D–E · 3915 Ų buried · 61 hydrogen bonds · protein-protein
Compared structures
- 7KZF · High resolution cryo EM analysis of HPV16 identifies minor structural protein L2 and… · the same entry in another collection · chain F against F, 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 7KZF · PDBe 7KZF · UniProt P03101
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