Research workbench
Crystal structure of human glutamate oxaloacetate transaminase 1 (GOT1)
Analyse Crystal structure of human glutamate oxaloacetate transaminase 1 (GOT1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3II0
- Type
- protein
- Length
- 1,624 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aspartate aminotransferase, cytoplasmic
- EC
- 2.6.1.1
- UniProt
- P17174
- Ligands
- PLP
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Aspartate aminotransferase, cytoplasmic (EC 2.6.1.1) | protein | 405 | 47% helix, 14% strand | P17174 |
| C, D | Aspartate aminotransferase, cytoplasmic (EC 2.6.1.1) | protein | 407 | 47% helix, 14% strand | P17174 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · ligand · 4 copies · chains A, D, B, C
- EDO · 1,2-ethanediol · additive · 13 copies · chains A, C, B, D
- TAR · D(-)-tartaric acid · additive · 4 copies · chains A, D, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1146 | 0.76 | 0.78 | 83 | EDO |
| 2 | 162 | 0.74 | 0.91 | 39 | PLP, TAR |
| 3 | 159 | 0.73 | 0.91 | 37 | PLP, TAR |
| 4 | 161 | 0.72 | 0.90 | 37 | PLP, TAR |
| 5 | 201 | 0.72 | 0.88 | 44 | PLP, TAR |
Interfaces
5 interfaces between chains.
- B–C · 2344 Ų buried · 40 hydrogen bonds · protein-protein
- A–D · 2329 Ų buried · 43 hydrogen bonds · protein-protein
- A–C · 294 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 139 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 53 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 3II0 · Crystal structure of human Glutamate oxaloacetate transaminase 1 (GOT1) · the same entry in another collection · chain C against C, TM-score 1.00
- P17174 · AlphaFold monomer V2.0 prediction for aspartate aminotransferase, cytoplasmic (P17174) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P17174
- Elsewhere: RCSB PDB 3II0 · PDBe 3II0 · UniProt P17174
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