Research workbench
Short chain specific acyl-CoA oxidase from arabidopsis thaliana, ACX4 in complex with acetoacetyl-CoA
Analyse Short chain specific acyl-CoA oxidase from arabidopsis thaliana, ACX4 in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IX5
- Type
- protein
- Length
- 1,660 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acyl-coenzyme a oxidase 4, peroxisomal
- EC
- 1.3.3.6
- UniProt
- Q96329
- Ligands
- CAA, FAD
- Pockets
- 10 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 54% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Acyl-coenzyme a oxidase 4, peroxisomal (EC 1.3.3.6) | protein | 415 | 54% helix, 15% strand | Q96329 |
Ligands and binding sites
- CAA · Acetoacetyl-coenzyme A · ligand · 4 copies · chains A, B, C, D
- FAD · Flavin-adenine dinucleotide · ligand · 4 copies · chains A, B, D, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 586 | 0.86 | 0.90 | 68 | FAD |
| 2 | 605 | 0.85 | 0.90 | 68 | CAA, FAD |
| 3 | 567 | 0.85 | 0.90 | 63 | CAA, FAD |
| 4 | 528 | 0.85 | 0.90 | 62 | CAA, FAD |
| 5 | 1132 | 0.84 | 0.85 | 87 | empty |
Interfaces
6 interfaces between chains.
- C–D · 3613 Ų buried · 66 hydrogen bonds · protein-protein
- A–B · 3599 Ų buried · 64 hydrogen bonds · protein-protein
- A–D · 2191 Ų buried · 37 hydrogen bonds · protein-protein
- B–C · 2171 Ų buried · 35 hydrogen bonds · protein-protein
- B–D · 408 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2IX5 · Short chain specific acyl-CoA oxidase from Arabidopsis thaliana, ACX4 in complex with… · the same entry in another collection · chain D against D, TM-score 1.00
- Q96329 · AlphaFold monomer V2.0 prediction for acyl-coenzyme a oxidase 4, peroxisomal (Q96329) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 Q96329
- Elsewhere: RCSB PDB 2IX5 · PDBe 2IX5 · UniProt Q96329
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