MolNFT v1 · #15545 · protein
Structure and location of gene product 8 in the bacteriophage T4 baseplate
1N7Z · Baseplate structural protein GP8: “Structure and location of gene product 8 in the bacteriophage T4 baseplate”. X-ray diffraction, 1 ligand (CL), 15 pockets (best druggability 0.83). MolNFT v1 #15545 on GenesisL1: 3D structure…
- PDB
- 1N7Z
- Type
- protein
- Length
- 1,312 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Baseplate structural protein GP8
- UniProt
- P19062
- Ligands
- CL
- Pockets
- 15 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 21% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Baseplate structural protein GP8 | protein | 328 | 21% helix, 30% strand | P19062 |
Ligands and binding sites
- CL · Chloride ion · ion · 30 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1140 | 0.83 | 0.84 | 110 | CL |
| 2 | 416 | 0.65 | 0.78 | 41 | empty |
| 3 | 243 | 0.65 | 0.83 | 40 | CL |
| 4 | 399 | 0.62 | 0.77 | 38 | empty |
| 5 | 194 | 0.62 | 0.83 | 30 | CL |
Interfaces
6 interfaces between chains.
- C–D · 2787 Ų buried · 43 hydrogen bonds · protein-protein
- A–B · 2749 Ų buried · 37 hydrogen bonds · protein-protein
- B–D · 493 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 142 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 121 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 48 modified, 4 disulfide (engineered, disulfide).
Compared structures
- 1N7Z · Structure and location of gene product 8 in the bacteriophage T4 baseplate · 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 P19062
- Elsewhere: RCSB PDB 1N7Z · PDBe 1N7Z · UniProt P19062
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