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Structure of spinach nitrite reductase

Analyse Structure of spinach nitrite reductase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2AKJ
Type: protein
Length: 535 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ferredoxin--nitrite reductase, chloroplast
EC: 1.7.7.1
UniProt: P05314
Ligands: SF4, SRM
Pockets: 4 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ferredoxin--nitrite reductase, chloroplast (EC 1.7.7.1)	protein	535	34% helix, 24% strand	P05314

Ligands and binding sites

SF4 · Iron/sulfur cluster · ligand · chains A
SRM · Siroheme · ligand · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	615	0.79	0.84	66	SF4, SRM
2	214	0.56	0.79	32	empty
3	98	0.40	0.77	21	empty
4	53	0.31	0.77	14	empty

Compared structures

2AKJ · Structure of spinach nitrite reductase · the same entry in another collection · chain A against A, TM-score 1.00
P05314 · AlphaFold monomer V2.0 prediction for ferredoxin--nitrite reductase, chloroplastic… · 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 P05314
Elsewhere: RCSB PDB 2AKJ · PDBe 2AKJ · UniProt P05314

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