MolNFT v1 · #1569 · protein
Thermus thermophilus aspartate aminotransferase double mutant 1
1B5P · Protein (aspartate aminotransferase): “Thermus thermophilus aspartate aminotransferase double mutant 1”. X-ray diffraction, 2 ligands (PLP, PO4), 5 pockets (best druggability 0.74). MolNFT v1 #1569 on GenesisL1: 3D structure…
- PDB
- 1B5P
- Type
- protein
- Length
- 764 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (aspartate aminotransferase)
- EC
- 2.6.1.1
- UniProt
- Q56232
- Ligands
- PLP, PO4
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Protein (aspartate aminotransferase) (EC 2.6.1.1) | protein | 382 | 46% helix, 15% strand | Q56232 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · ligand · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 764 | 0.74 | 0.79 | 80 | PO4, PLP |
| 2 | 541 | 0.73 | 0.81 | 47 | PO4, PLP |
| 3 | 111 | 0.47 | 0.79 | 19 | empty |
| 4 | 68 | 0.42 | 0.81 | 18 | empty |
| 5 | 106 | 0.41 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 3072 Ų buried · 69 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor (pyridoxal phosphate Schiff base).
Compared structures
- 1B5P · Thermus thermophilus aspartate aminotransferase double mutant 1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q56232 · AlphaFold monomer V2.0 prediction for ASPARTATE/PREPHENATE aminotransferase (Q56232) · 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 Q56232
- Elsewhere: RCSB PDB 1B5P · PDBe 1B5P · UniProt Q56232
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