MolNFT v1 · #115158 · protein
Crystal structure of mycobacterium tuberculosis malate synthase in complex with 5-(3H-indol-3-ylidene)-2,5-dihydro-1H-pyrazole-3- carboxylate
5CBB · Malate synthase G: “Crystal structure of mycobacterium tuberculosis malate synthase in complex with…”. X-ray diffraction, 2 ligands (4ZF, MG), 4 pockets (best druggability 0.74). MolNFT v1 #115158 on GenesisL1: 3D structure, binding…
- PDB
- 5CBB
- Type
- protein
- Length
- 713 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Malate synthase G
- EC
- 2.3.3.9
- UniProt
- P9WK17
- Ligands
- 4ZF, MG
- Pockets
- 4 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Malate synthase G (EC 2.3.3.9) | protein | 713 | 46% helix, 16% strand | P9WK17 |
Ligands and binding sites
- 4ZF · (5E)-5-(3H-indol-3-ylidene)-2,5-dihydro-1H-pyrazole-3-carboxylic acid · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 595 | 0.74 | 0.81 | 73 | MG, 4ZF |
| 2 | 146 | 0.54 | 0.81 | 33 | empty |
| 3 | 55 | 0.42 | 0.83 | 20 | empty |
| 4 | 69 | 0.37 | 0.78 | 15 | empty |
Compared structures
- 5CBB · Crystal structure of Mycobacterium tuberculosis malate synthase in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P9WK17 · AlphaFold monomer V2.0 prediction for malate synthase G (P9WK17) · a predicted model of the same protein · 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 P9WK17
- Elsewhere: RCSB PDB 5CBB · PDBe 5CBB · UniProt P9WK17
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