Research workbench
Crystal structure of aminotransferase from anaerococcus prevotii dsm 20548.
Analyse Crystal structure of aminotransferase from anaerococcus prevotii dsm 20548. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EMY
- Type
- protein
- Length
- 1,632 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aminotransferase class I and II
- UniProt
- C7REB0
- Ligands
- PLP
- Pockets
- 17 · best druggability 0.78
Structure
x-ray diffraction · 3 distinct chains · 46% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Aminotransferase class I and II | protein | 409 | 47% helix, 15% strand | C7REB0 |
| C | Aminotransferase class I and II | protein | 407 | 43% helix, 16% strand | C7REB0 |
| D | Aminotransferase class I and II | protein | 407 | 46% helix, 16% strand | C7REB0 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1041 | 0.78 | 0.80 | 86 | PLP |
| 2 | 1028 | 0.78 | 0.80 | 81 | PLP |
| 3 | 1049 | 0.77 | 0.79 | 88 | PLP |
| 4 | 987 | 0.76 | 0.79 | 81 | PLP |
| 5 | 96 | 0.67 | 0.91 | 22 | empty |
Interfaces
3 interfaces between chains.
- C–D · 3187 Ų buried · 45 hydrogen bonds · protein-protein
- A–B · 3177 Ų buried · 48 hydrogen bonds · protein-protein
- A–D · 197 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 modified (engineered).
Compared structures
- 4EMY · Crystal structure of aminotransferase from anaerococcus prevotii dsm 20548. · 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 C7REB0
- Elsewhere: RCSB PDB 4EMY · PDBe 4EMY · UniProt C7REB0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.