Research workbench
Crystal structure of beta-ketoacyl-acp synthase III (fabh) from neisseria meningitidis
Analyse Crystal structure of beta-ketoacyl-acp synthase III (fabh) from neisseria… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4RYB
- Type
- protein
- Length
- 638 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3-oxoacyl-[acyl-carrier-protein] synthase 3
- EC
- 2.3.1.180
- UniProt
- A1KRY9
- Pockets
- 5 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 3-oxoacyl-[acyl-carrier-protein] synthase 3 (EC 2.3.1.180) | protein | 319 | 39% helix, 29% strand | A1KRY9 |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 138 | 0.80 | 0.98 | 39 | empty |
| 2 | 108 | 0.69 | 0.91 | 27 | empty |
| 3 | 116 | 0.69 | 0.90 | 28 | empty |
| 4 | 118 | 0.43 | 0.77 | 24 | empty |
| 5 | 107 | 0.39 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 2697 Ų buried · 48 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (oxidation).
Compared structures
- 4RYB · Crystal structure of beta-ketoacyl-ACP synthase III (FabH) from Neisseria meningitidis · the same entry in another collection · chain A against A, TM-score 1.00
- A1KRY9 · AlphaFold monomer V2.0 prediction for 3-oxoacyl-[acyl-carrier- protein] synthase 3… · 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 A1KRY9
- Elsewhere: RCSB PDB 4RYB · PDBe 4RYB · UniProt A1KRY9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.