MolNFT v1 · #157083 · protein
Crystal structure of ribbx, a two domain 3,4-dihydroxy-2-butanone 4- phosphate synthase from a. baumannii.
6MNZ · 3,4-dihydroxy-2-butanone 4-phosphate synthase: “Crystal structure of ribbx, a two domain 3,4-dihydroxy-2-butanone 4- phosphate synthase from a. baumannii.”. X-ray diffraction, 2 ligands (SO4, CL), 9 pockets (best druggability 0.65).…
- PDB
- 6MNZ
- Type
- protein
- Length
- 672 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3,4-dihydroxy-2-butanone 4-phosphate synthase
- EC
- 4.1.99.12
- UniProt
- V5V8R9
- Ligands
- SO4, CL
- Pockets
- 9 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) | protein | 336 | 31% helix, 25% strand | V5V8R9 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 332 | 0.65 | 0.80 | 49 | SO4 |
| 2 | 52 | 0.64 | 0.95 | 20 | empty |
| 3 | 347 | 0.64 | 0.79 | 44 | empty |
| 4 | 50 | 0.42 | 0.83 | 20 | empty |
| 5 | 60 | 0.38 | 0.80 | 20 | SO4 |
Interfaces
1 interface between chains.
- A–B · 1491 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 6MNZ · Crystal structure of RibBX, a two domain 3,4-dihydroxy-2-buta 4-phosphate synthase from… · 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 V5V8R9
- Elsewhere: RCSB PDB 6MNZ · PDBe 6MNZ · UniProt V5V8R9
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