MolNFT v1 · #188829 · protein
Crystal structure of adenosylmethionie-8-amino-7-oxononanoate aminotransferase from klebsiella pneumoniae
7UG3 · Adenosylmethionine-8-amino-7-oxononanoate aminotransferase: “Crystal structure of adenosylmethionie-8-amino-7-oxononanoate aminotransferase from klebsiella pneumoniae”. X-ray diffraction, 1 ligand (NA), 10 pockets (best druggability…
- PDB
- 7UG3
- Type
- protein
- Length
- 1,556 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenosylmethionine-8-amino-7-oxononanoate aminotransferase
- EC
- 2.6.1.62
- UniProt
- A0A422Z2E3
- Ligands
- NA
- Pockets
- 10 · best druggability 0.68
Structure
x-ray diffraction · 4 distinct chains · 41% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) | protein | 390 | 40% helix, 20% strand | A0A422Z2E3 |
| B | Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) | protein | 389 | 41% helix, 20% strand | A0A422Z2E3 |
| C | Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) | protein | 390 | 43% helix, 21% strand | A0A422Z2E3 |
| D | Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) | protein | 387 | 41% helix, 21% strand | A0A422Z2E3 |
Ligands and binding sites
- NA · Sodium ion · metal · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 650 | 0.68 | 0.77 | 67 | empty |
| 2 | 516 | 0.66 | 0.77 | 60 | empty |
| 3 | 533 | 0.66 | 0.76 | 61 | empty |
| 4 | 514 | 0.64 | 0.76 | 52 | empty |
| 5 | 83 | 0.41 | 0.78 | 14 | empty |
Interfaces
3 interfaces between chains.
- C–D · 3827 Ų buried · 55 hydrogen bonds · protein-protein
- A–B · 3798 Ų buried · 54 hydrogen bonds · protein-protein
- B–C · 425 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7UG3 · Crystal structure of adenosylmethionie-8-amino-7-oxononanoate aminotransferase 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 A0A422Z2E3
- Elsewhere: RCSB PDB 7UG3 · PDBe 7UG3 · UniProt A0A422Z2E3
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