Research workbench
Crystal structure of nitrite reductase from pseudoalteromonas haloplanktis TAC125
Analyse Crystal structure of nitrite reductase from pseudoalteromonas haloplanktis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZOO
- Type
- protein
- Length
- 438 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable nitrite reductase
- EC
- 1.7.99.3, 1.7.2.1
- UniProt
- Q3IGF7
- Ligands
- HEM, GLC, FRU, CU, SO4
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 18% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable nitrite reductase (EC 1.7.99.3, 1.7.2.1) | protein | 438 | 18% helix, 34% strand | Q3IGF7 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- GLC · alpha-D-glucopyranose · sugar
- FRU · beta-D-fructofuranose · sugar · chains A
- CU · Copper (II) ion · metal · 2 copies · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 205 | 0.74 | 0.89 | 33 | HEM |
| 2 | 202 | 0.49 | 0.76 | 41 | empty |
| 3 | 102 | 0.37 | 0.75 | 18 | empty |
Modifications
Observed in the structure: 2 cofactor (heme attachment).
Compared structures
- 2ZOO · Crystal structure of nitrite reductase from Pseudoalteromonas haloplanktis TAC125 · the same entry in another collection · 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 Q3IGF7
- Elsewhere: RCSB PDB 2ZOO · PDBe 2ZOO · UniProt Q3IGF7
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