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Crystal structure of alkyl hydroperoxide-reductase (ahpc) from helicobacter pylori
Analyse Crystal structure of alkyl hydroperoxide-reductase (ahpc) from helicobacter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZOF
- Type
- protein
- Length
- 1,725 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alkyl hydroperoxide-reductase
- EC
- 1.11.1.15
- UniProt
- P56876
- Pockets
- 20 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 28% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I | Alkyl hydroperoxide-reductase (EC 1.11.1.15) | protein | 170 | 26% helix, 28% strand | P56876 |
| B, D, F, H, J | Alkyl hydroperoxide-reductase (EC 1.11.1.15) | protein | 175 | 30% helix, 26% strand | P56876 |
Pockets
20 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 132 | 0.74 | 0.93 | 21 | empty |
| 2 | 139 | 0.73 | 0.91 | 22 | empty |
| 3 | 136 | 0.72 | 0.91 | 21 | empty |
| 4 | 141 | 0.72 | 0.91 | 21 | empty |
| 5 | 131 | 0.72 | 0.91 | 21 | empty |
Interfaces
10 interfaces between chains.
- E–F · 1743 Ų buried · 30 hydrogen bonds · protein-protein
- G–H · 1726 Ų buried · 29 hydrogen bonds · protein-protein
- A–B · 1726 Ų buried · 31 hydrogen bonds · protein-protein
- C–D · 1723 Ų buried · 28 hydrogen bonds · protein-protein
- I–J · 1718 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 1ZOF · Crystal structure of alkyl hydroperoxide-reductase (AhpC) from Helicobacter Pylori · the same entry in another collection · chain J against J, TM-score 1.00
- P56876 · AlphaFold monomer V2.0 prediction for alkyl hydroperoxide reductase C (P56876) · a predicted model of the same protein · chain I against A, TM-score 0.94
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 P56876
- Elsewhere: RCSB PDB 1ZOF · PDBe 1ZOF · UniProt P56876
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