MolNFT v1 · #189491 · protein
Cryoem structure of bacteriophage lambda capsid at 5.6 ångström
7VII · Major capsid protein: “Cryoem structure of bacteriophage lambda capsid at 5.6 ångström”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #189491 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7VII
- Type
- protein
- Length
- 3,136 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major capsid protein; Capsid decoration protein
- UniProt
- P03713, P03712
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 2 distinct chains · 16% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Major capsid protein | protein | 339 | 19% helix, 22% strand | P03713 |
| H, I, J, K, L, M, N | Capsid decoration protein | protein | 109 | 7% helix, 29% strand | P03712 |
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 | 298 | 0.82 | 0.93 | 67 | empty |
| 2 | 900 | 0.76 | 0.79 | 104 | empty |
| 3 | 467 | 0.74 | 0.83 | 61 | empty |
| 4 | 55 | 0.72 | 0.98 | 26 | empty |
| 5 | 669 | 0.72 | 0.79 | 92 | empty |
Interfaces
38 interfaces between chains.
- A–B · 3033 Ų buried · 66 hydrogen bonds · protein-protein
- A–F · 3016 Ų buried · 59 hydrogen bonds · protein-protein
- D–E · 2970 Ų buried · 49 hydrogen bonds · protein-protein
- E–F · 2948 Ų buried · 60 hydrogen bonds · protein-protein
- C–D · 2902 Ų buried · 60 hydrogen bonds · protein-protein
Compared structures
- 7VII · cryoEM structure of bacteriophage lambda capsid at 5.6 Angstrom · 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 P03713
- Every structure of UniProt P03712
- Elsewhere: RCSB PDB 7VII · PDBe 7VII · UniProt P03713 · UniProt P03712
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