MolNFT v2 · #129943 · protein

Crystal structure of NikA in complex with Fe-L2 (Fe-L2 (N-(2-hydroxy-3-methoxybenzyl)-N'-(2-thiomethylbenzyl)- N,N'-ethylenediamine diacetic acid) after dioxygen oxidation

5ON5: “Crystal structure of NikA in complex with Fe-L2 (Fe-L2 (N-(2-hydroxy-3-methoxybenzyl)-N'-(2-thiomethylbenzyl)…”. X-ray diffraction at 1.7, 2 ligands (FE, CL). MolNFT v2 #129943 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 5ON5
Type: protein
Length: 997 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.7
Source: Escherichia coli (strain K12)
UniProt: P33590
Ligands: FE, CL

Structure

x-ray diffraction · resolution 1.7 · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	499	—	P33590
B	—	protein	498	—	P33590

Ligands and binding sites

FE · Fe (III) ion · metal · 2 copies · chains A, B
CL · Chloride ion · ion · 2 copies · chains B
GOL · Glycerol · additive · 10 copies · chains A, B
ACT · Acetate ion · additive · 6 copies · chains A, B

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

Compared structures

5ON5 · Crystal structure of nika in complex with fe-L2 (fe-L2 (N-(2-hydroxy… · the same entry in another collection · chain A against A, TM-score 1.00
P33590 · AlphaFold monomer V2.0 prediction for nickel-binding periplasmic protein (P33590) · a predicted model of the same protein · chain A 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 P33590
Elsewhere: RCSB PDB 5ON5 · PDBe 5ON5 · UniProt P33590

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