Research workbench
Crystal structure of 3,4-dihydroxy-2-butanone 4-phosphate synthase domain from mycobacterium tuberculosis with sulfate and zinc at pH 4.00
Analyse Crystal structure of 3,4-dihydroxy-2-butanone 4-phosphate synthase domain from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3MK5
- Type
- protein
- Length
- 191 residues
- Chains
- 1
- 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
- A5U2B7
- Ligands
- ZN, SO4
- Pockets
- 2 · best druggability 0.35
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) | protein | 191 | 43% helix, 21% strand | A5U2B7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 61 | 0.35 | 0.77 | 12 | empty |
| 2 | 60 | 0.29 | 0.75 | 19 | SO4, ZN |
Compared structures
- 3MK5 · Crystal structure of 3,4-dihydroxy-2-buta 4-phosphate synthase domain from Mycobacterium… · the same entry in another collection · chain A against A, TM-score 1.00
- A5U2B7 · AlphaFold monomer V2.0 prediction for riboflavin biosynthesis protein ribba (A5U2B7) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 A5U2B7
- Elsewhere: RCSB PDB 3MK5 · PDBe 3MK5 · UniProt A5U2B7
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