MolNFT v1 · #25570 · protein
Ornithine acetyltransferase (ORF6 gene product - clavulanic acid biosynthesis) from streptomyces clavuligerus
1VZ7 · Ornithine acetyl-transferase: “Ornithine acetyltransferase (ORF6 gene product - clavulanic acid biosynthesis) from streptomyces clavuligerus”. X-ray diffraction, 1 ligand (SO4), 12 pockets (best druggability 0.77). MolNFT v1 #25570…
- PDB
- 1VZ7
- Type
- protein
- Length
- 1,485 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ornithine acetyl-transferase
- EC
- 2.3.1.35
- UniProt
- Q53940
- Ligands
- SO4
- Pockets
- 12 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 33% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ornithine acetyl-transferase (EC 2.3.1.35) | protein | 376 | 35% helix, 26% strand | Q53940 |
| C | Ornithine acetyl-transferase (EC 2.3.1.35) | protein | 359 | 33% helix, 23% strand | Q53940 |
| D | Ornithine acetyl-transferase (EC 2.3.1.35) | protein | 374 | 29% helix, 21% strand | Q53940 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 820 | 0.77 | 0.81 | 82 | SO4 |
| 2 | 397 | 0.74 | 0.85 | 73 | empty |
| 3 | 662 | 0.69 | 0.77 | 50 | empty |
| 4 | 332 | 0.69 | 0.83 | 37 | empty |
| 5 | 179 | 0.56 | 0.81 | 21 | SO4 |
Interfaces
5 interfaces between chains.
- A–B · 2091 Ų buried · 25 hydrogen bonds · protein-protein
- C–D · 2079 Ų buried · 29 hydrogen bonds · protein-protein
- A–C · 477 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 260 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 212 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 1VZ7 · Ornithine Acetyltransferase (ORF6 Gene Product - Clavulanic Acid Biosynthesis) from… · 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 Q53940
- Elsewhere: RCSB PDB 1VZ7 · PDBe 1VZ7 · UniProt Q53940
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