Research workbench
Structure of NADH peroxidase from streptococcus faecalis 10C1 refined at 2.16 ångströms resolution
Analyse Structure of NADH peroxidase from streptococcus faecalis 10C1 refined at 2.16… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1NPX
- Type
- protein
- Length
- 447 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NADH peroxidase
- EC
- 1.11.1.1
- UniProt
- P37062
- Ligands
- FAD
- Pockets
- 2 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NADH peroxidase (EC 1.11.1.1) | protein | 447 | 28% helix, 30% strand | P37062 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1001 | 0.79 | 0.81 | 90 | FAD |
| 2 | 87 | 0.33 | 0.73 | 22 | empty |
Modifications
Observed in the structure: 1 modified (oxidation).
Compared structures
- 1NPX · Structure of NADH peroxidase from streptococcus faecalis 10C1 refined at 2.16 ångströms… · the same entry in another collection · chain A against A, TM-score 1.00
- P37062 · AlphaFold monomer V2.0 prediction for NADH peroxidase (P37062) · 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 P37062
- Elsewhere: RCSB PDB 1NPX · PDBe 1NPX · UniProt P37062
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