MolNFT v1 · #163180 · protein
Human ALANINE:GLYOXYLATE aminotransferase major allele (agt-ma)
6RV1 · Serine--pyruvate aminotransferase: “Human ALANINE:GLYOXYLATE aminotransferase major allele (agt-ma)”. X-ray diffraction, 1 ligand (PLP), 4 pockets (best druggability 0.75). MolNFT v1 #163180 on GenesisL1: 3D structure, binding sites…
- PDB
- 6RV1
- Type
- protein
- Length
- 379 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Serine--pyruvate aminotransferase
- EC
- 2.6.1.51, 2.6.1.44
- UniProt
- P21549
- Ligands
- PLP
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Serine--pyruvate aminotransferase (EC 2.6.1.51, 2.6.1.44) | protein | 379 | 42% helix, 15% strand | P21549 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 216 | 0.75 | 0.90 | 44 | empty |
| 2 | 50 | 0.66 | 0.96 | 17 | empty |
| 3 | 142 | 0.66 | 0.88 | 27 | empty |
| 4 | 85 | 0.46 | 0.81 | 23 | PLP |
Modifications
Observed in the structure: 1 cofactor (pyridoxal phosphate Schiff base).
Compared structures
- 6RV1 · human Alanine:Glyoxylate Aminotransferase major allele (AGT-Ma) · the same entry in another collection · chain A against A, TM-score 1.00
- P21549 · AlphaFold monomer V2.0 prediction for serine--pyruvate aminotransferase (P21549) · a predicted model of the same protein · 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 P21549
- Elsewhere: RCSB PDB 6RV1 · PDBe 6RV1 · UniProt P21549
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