Research workbench
Helicobacter pylori formamidase amif contains a fine-tuned cysteine- glutamate-lysine catalytic triad
Analyse Helicobacter pylori formamidase amif contains a fine-tuned cysteine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2DYV
- Type
- protein
- Length
- 644 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Formamidase
- EC
- 3.5.1.49
- UniProt
- O25836
- Pockets
- 1 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Formamidase (EC 3.5.1.49) | protein | 322 | 30% helix, 22% strand | O25836 |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 52 | 0.65 | 0.95 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 4369 Ų buried · 56 hydrogen bonds · protein-protein
Compared structures
- 2DYV · Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine… · the same entry in another collection · chain A against A, TM-score 1.00
- O25836 · AlphaFold monomer V2.0 prediction for formamidase (O25836) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 O25836
- Elsewhere: RCSB PDB 2DYV · PDBe 2DYV · UniProt O25836
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