Research workbench
Structure of the synthase subunit PDX1.1 (SNZ1) of plp synthase from saccharomyces cerevisiae
Analyse Structure of the synthase subunit PDX1.1 (SNZ1) of plp synthase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3FEM
- Type
- protein
- Length
- 1,686 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pyridoxine biosynthesis protein SNZ1
- UniProt
- Q03148
- Pockets
- 20 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Pyridoxine biosynthesis protein SNZ1 | protein | 281 | 44% helix, 12% strand | Q03148 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 90 | 0.74 | 0.97 | 26 | empty |
| 2 | 86 | 0.74 | 0.97 | 27 | empty |
| 3 | 85 | 0.73 | 0.96 | 28 | empty |
| 4 | 85 | 0.73 | 0.96 | 28 | empty |
| 5 | 95 | 0.73 | 0.95 | 30 | empty |
Interfaces
6 interfaces between chains.
- A–F · 1123 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 1116 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 1115 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 1110 Ų buried · 14 hydrogen bonds · protein-protein
- D–E · 1110 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 3FEM · Structure of the synthase subunit Pdx1.1 (Snz1) of PLP synthase from Saccharomyces… · the same entry in another collection · chain C against C, TM-score 1.00
- Q03148 · AlphaFold monomer V2.0 prediction for pyridoxal 5'-phosphate synthase subunit SNZ1… · a predicted model of the same protein · chain A 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 Q03148
- Elsewhere: RCSB PDB 3FEM · PDBe 3FEM · UniProt Q03148
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.