Research workbench
Crystal structure of the clp gene regulator clgr from corynebacterium glutamicum
Analyse Crystal structure of the clp gene regulator clgr from corynebacterium glutamicum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3F51
- Type
- protein
- Length
- 557 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Clp gene regulator (clgr)
- UniProt
- Q8NP59
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 6 distinct chains · 75% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Clp gene regulator (clgr) | protein | 94 | 74% helix, 0% strand | Q8NP59 |
| B | Clp gene regulator (clgr) | protein | 93 | 73% helix, 0% strand | Q8NP59 |
| C | Clp gene regulator (clgr) | protein | 90 | 79% helix, 0% strand | Q8NP59 |
| D | Clp gene regulator (clgr) | protein | 93 | 75% helix, 0% strand | Q8NP59 |
| E | Clp gene regulator (clgr) | protein | 94 | 73% helix, 0% strand | Q8NP59 |
| F | Clp gene regulator (clgr) | protein | 93 | 75% helix, 0% strand | Q8NP59 |
Ligands and binding sites
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 3 copies · chains B, C, D, F, A, E
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 755 | 0.72 | 0.78 | 68 | empty |
| 2 | 555 | 0.66 | 0.77 | 56 | empty |
| 3 | 162 | 0.41 | 0.73 | 23 | empty |
Interfaces
10 interfaces between chains.
- D–F · 858 Ų buried · 20 hydrogen bonds · protein-protein
- A–E · 835 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 759 Ų buried · 13 hydrogen bonds · protein-protein
- E–F · 597 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 546 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3F51 · Crystal Structure of the clp gene regulator ClgR from 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 Q8NP59
- Elsewhere: RCSB PDB 3F51 · PDBe 3F51 · UniProt Q8NP59
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.