Research workbench
Mutant enzyme W27G lumazine synthase from S.POMBE
Analyse Mutant enzyme W27G lumazine synthase from S.POMBE in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1KZ1
- Type
- protein
- Length
- 746 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 6,7-dimethyl-8-ribityllumazine synthase
- EC
- 2.5.1.78
- UniProt
- Q9UUB1
- Pockets
- 8 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 53% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) | protein | 150 | 52% helix, 19% strand | Q9UUB1 |
| B | 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) | protein | 148 | 52% helix, 20% strand | Q9UUB1 |
| C | 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) | protein | 151 | 55% helix, 21% strand | Q9UUB1 |
| E | 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) | protein | 147 | 52% helix, 20% strand | Q9UUB1 |
Pockets
8 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 354 | 0.77 | 0.87 | 51 | empty |
| 2 | 366 | 0.63 | 0.78 | 37 | empty |
| 3 | 372 | 0.63 | 0.78 | 35 | empty |
| 4 | 382 | 0.62 | 0.78 | 38 | empty |
| 5 | 344 | 0.61 | 0.78 | 36 | empty |
Interfaces
10 interfaces between chains.
- D–E · 1222 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1208 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1167 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 1155 Ų buried · 16 hydrogen bonds · protein-protein
- A–E · 1141 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 1KZ1 · Mutant enzyme W27G Lumazine Synthase from S.pombe · the same entry in another collection · chain B against B, TM-score 1.00
- Q9UUB1 · AlphaFold monomer V2.0 prediction for 6,7-dimethyl-8-ribityllumazine synthase (Q9UUB1) · a predicted model of the same protein · chain E against A, TM-score 0.99
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 Q9UUB1
- Elsewhere: RCSB PDB 1KZ1 · PDBe 1KZ1 · UniProt Q9UUB1
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