Research workbench
Transcriptional repressor amtr of corynebacterium glutamicum
Analyse Transcriptional repressor amtr of corynebacterium glutamicum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MQQ
- Type
- protein
- Length
- 1,211 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amtr protein
- UniProt
- H7C699
- Ligands
- SO4
- Pockets
- 19 · best druggability 0.87
Structure
x-ray diffraction · 4 distinct chains · 71% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Amtr protein | protein | 203 | 71% helix, 0% strand | H7C699 |
| B | Amtr protein | protein | 199 | 72% helix, 0% strand | H7C699 |
| C, E, F | Amtr protein | protein | 202 | 72% helix, 0% strand | H7C699 |
| D | Amtr protein | protein | 203 | 71% helix, 0% strand | H7C699 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 724 | 0.87 | 0.90 | 101 | SO4 |
| 2 | 1194 | 0.85 | 0.86 | 119 | empty |
| 3 | 569 | 0.80 | 0.86 | 57 | empty |
| 4 | 261 | 0.79 | 0.91 | 39 | empty |
| 5 | 291 | 0.66 | 0.82 | 43 | SO4 |
Interfaces
12 interfaces between chains.
- C–D · 953 Ų buried · 1 hydrogen bond · protein-protein
- E–F · 928 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 899 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 693 Ų buried · 12 hydrogen bonds · protein-protein
- B–E · 636 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 5MQQ · Transcriptional repressor AmtR of corynebacterium glutamicum · 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 H7C699
- Elsewhere: RCSB PDB 5MQQ · PDBe 5MQQ · UniProt H7C699
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