Research workbench
Asymmetric unit of cryoem structure of bacteriophage lambda capsid at 3.76 ångström
Analyse Asymmetric unit of cryoem structure of bacteriophage lambda capsid at 3.76… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7VIK
- 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 0.72
Structure
electron microscopy · 2 distinct chains · 15% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Major capsid protein | protein | 339 | 19% helix, 24% strand | P03713 |
| H, I, J, K, L, M, N | Capsid decoration protein | protein | 109 | 5% helix, 32% 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 | 682 | 0.72 | 0.79 | 87 | empty |
| 2 | 452 | 0.69 | 0.80 | 79 | empty |
| 3 | 114 | 0.69 | 0.91 | 24 | empty |
| 4 | 121 | 0.68 | 0.90 | 26 | empty |
| 5 | 257 | 0.63 | 0.81 | 47 | empty |
Interfaces
38 interfaces between chains.
- A–B · 3242 Ų buried · 45 hydrogen bonds · protein-protein
- D–E · 3155 Ų buried · 38 hydrogen bonds · protein-protein
- C–D · 3086 Ų buried · 39 hydrogen bonds · protein-protein
- A–F · 3071 Ų buried · 40 hydrogen bonds · protein-protein
- E–F · 3064 Ų buried · 42 hydrogen bonds · protein-protein
Compared structures
- 7VIK · Asymmetric unit of cryoEM structure of bacteriophage lambda capsid at 3.76 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 7VIK · PDBe 7VIK · UniProt P03713 · UniProt P03712
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