Research workbench
Crystal structure of plp bound phosphoserine aminotransferase (psat) from trichomonas vaginalis
Analyse Crystal structure of plp bound phosphoserine aminotransferase (psat) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5F8V
- Type
- protein
- Length
- 2,904 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aminotransferase, class V family protein
- UniProt
- A2DW27
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 5 distinct chains · 38% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D, G | Aminotransferase, class V family protein | protein | 367 | 38% helix, 16% strand | A2DW27 |
| E | Aminotransferase, class V family protein | protein | 364 | 39% helix, 17% strand | A2DW27 |
| C | Aminotransferase, class V family protein | protein | 363 | 38% helix, 17% strand | A2DW27 |
| F | Aminotransferase, class V family protein | protein | 343 | 37% helix, 17% strand | A2DW27 |
| H | Aminotransferase, class V family protein | protein | 366 | 39% helix, 16% strand | A2DW27 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 916 | 0.73 | 0.77 | 73 | empty |
| 2 | 57 | 0.72 | 0.98 | 19 | empty |
| 3 | 57 | 0.71 | 0.98 | 18 | empty |
| 4 | 58 | 0.71 | 0.98 | 19 | empty |
| 5 | 52 | 0.71 | 0.99 | 18 | empty |
Interfaces
9 interfaces between chains.
- A–E · 2411 Ų buried · 33 hydrogen bonds · protein-protein
- B–C · 2381 Ų buried · 32 hydrogen bonds · protein-protein
- G–H · 2360 Ų buried · 32 hydrogen bonds · protein-protein
- D–F · 2352 Ų buried · 32 hydrogen bonds · protein-protein
- B–G · 451 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (cofactor).
Compared structures
- 5F8V · Crystal structure of PLP bound phosphoserine aminotransferase (PSAT) from Trichomonas… · 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 A2DW27
- Elsewhere: RCSB PDB 5F8V · PDBe 5F8V · UniProt A2DW27
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