MolNFT v1 · #84928 · protein
Crystal structure of the amino acid kinase domain from saccharomyces cerevisiae acetylglutamate kinase without ligands
3ZZG: “Crystal structure of the amino acid kinase domain from saccharomyces cerevisiae acetylglutamate kinase…”. X-ray diffraction, 14 pockets (best druggability 0.72). MolNFT v1 #84928 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 3ZZG
- Type
- protein
- Length
- 1,160 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acetylglutamate kinase
- EC
- 2.7.2.8
- UniProt
- Q01217
- Pockets
- 14 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Acetylglutamate kinase (EC 2.7.2.8) | protein | 291 | 45% helix, 23% strand | Q01217 |
| B, D | Acetylglutamate kinase (EC 2.7.2.8) | protein | 289 | 46% helix, 22% strand | Q01217 |
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 638 | 0.72 | 0.79 | 53 | empty |
| 2 | 622 | 0.71 | 0.79 | 53 | empty |
| 3 | 541 | 0.70 | 0.79 | 50 | empty |
| 4 | 548 | 0.70 | 0.79 | 45 | empty |
| 5 | 295 | 0.67 | 0.82 | 39 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1105 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 1092 Ų buried · 17 hydrogen bonds · protein-protein
- A–D · 968 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 962 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 3ZZG · Crystal structure of the amino acid kinase domain from Saccharomyces cerevisiae… · the same entry in another collection · chain D against D, TM-score 1.00
- Q01217 · AlphaFold monomer V2.0 prediction for protein ARG5,6, mitochondrial (Q01217) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 Q01217
- Elsewhere: RCSB PDB 3ZZG · PDBe 3ZZG · UniProt Q01217
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