Research workbench
Crystal structure of hypothetical TRP repressor binding protein from sul folobus tokodaii (ST0872)
Analyse Crystal structure of hypothetical TRP repressor binding protein from sul… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZKI
- Type
- protein
- Length
- 1,555 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 199AA long hypothetical TRP repressor binding protein
- UniProt
- Q973M9
- Ligands
- SO4
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 5 distinct chains · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 199AA long hypothetical TRP repressor binding protein | protein | 196 | 41% helix, 17% strand | Q973M9 |
| B, C, F, H | 199AA long hypothetical TRP repressor binding protein | protein | 195 | 37% helix, 15% strand | Q973M9 |
| D | 199AA long hypothetical TRP repressor binding protein | protein | 194 | 41% helix, 15% strand | Q973M9 |
| E | 199AA long hypothetical TRP repressor binding protein | protein | 196 | 40% helix, 18% strand | Q973M9 |
| G | 199AA long hypothetical TRP repressor binding protein | protein | 189 | 40% helix, 19% strand | Q973M9 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 49 copies · chains A, B, G, C, F, D, E, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1041 | 0.82 | 0.83 | 70 | SO4 |
| 2 | 470 | 0.66 | 0.78 | 36 | SO4 |
| 3 | 532 | 0.65 | 0.77 | 40 | SO4 |
| 4 | 414 | 0.64 | 0.78 | 35 | SO4 |
| 5 | 580 | 0.60 | 0.73 | 54 | SO4 |
Interfaces
15 interfaces between chains.
- A–B · 1408 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 1322 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1319 Ų buried · 11 hydrogen bonds · protein-protein
- G–H · 1286 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 1279 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 2ZKI · Crystal structure of hypothetical Trp repressor binding protein from Sul folobus tokodaii… · 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 Q973M9
- Elsewhere: RCSB PDB 2ZKI · PDBe 2ZKI · UniProt Q973M9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.