MolNFT v1 · #186974 · protein
Structure of CAP5 from lactococcus lactis
7RWM · Saved domain-containing protein: “Structure of CAP5 from lactococcus lactis”. X-ray diffraction, 1 ligand (ZN), 16 pockets (best druggability 0.50). MolNFT v1 #186974 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7RWM
- Type
- protein
- Length
- 1,413 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Saved domain-containing protein
- UniProt
- A0A1E7G0A2
- Ligands
- ZN
- Pockets
- 16 · best druggability 0.50
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Saved domain-containing protein | protein | 351 | 34% helix, 22% strand | A0A1E7G0A2 |
| B | Saved domain-containing protein | protein | 353 | 34% helix, 20% strand | A0A1E7G0A2 |
| C | Saved domain-containing protein | protein | 355 | 33% helix, 23% strand | A0A1E7G0A2 |
| D | Saved domain-containing protein | protein | 354 | 34% helix, 21% strand | A0A1E7G0A2 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 249 | 0.50 | 0.75 | 39 | empty |
| 2 | 251 | 0.49 | 0.74 | 41 | empty |
| 3 | 210 | 0.47 | 0.74 | 38 | empty |
| 4 | 72 | 0.46 | 0.82 | 17 | empty |
| 5 | 76 | 0.45 | 0.81 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2304 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 2296 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 41 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7RWM · Structure of Cap5 from Lactococcus lactis · 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 A0A1E7G0A2
- Elsewhere: RCSB PDB 7RWM · PDBe 7RWM · UniProt A0A1E7G0A2
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