Nickel in PDB 7olo: Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol

The structure of Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol, PDB code: 7olo was solved by D.Auman, S.L.Mader, F.Ecker, K.Dorst, A.Braeuer, G.Widmalm, M.Groll, V.R.I.Kaila, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	73.98, 121.24, 67.32, 90, 90, 90
R / Rfree (%)	18 / 20.6

The structure of Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol also contains other interesting chemical elements:

Bromine	(Br)	1 atom
Chlorine	(Cl)	1 atom

The binding sites of Nickel atom in the Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol (pdb code 7olo). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol, PDB code: 7olo:

Nickel binding site 1 out of 1 in the Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Dioxygenase Asqj Mutant (V72I) in Complex with 2B and Glycerol within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni401 b:42.7 occ:1.00 NE2 A:HIS211 2.1 35.4 1.0 NE2 A:HIS134 2.2 39.1 1.0 OD1 A:ASP136 2.2 35.2 1.0 O2 A:GOL406 2.2 51.5 1.0 O3 A:GOL406 2.2 51.0 1.0 O1 A:GOL406 2.4 49.6 1.0 C2 A:GOL406 2.8 52.6 1.0 C3 A:GOL406 3.0 53.3 1.0 CE1 A:HIS211 3.0 36.0 1.0 C1 A:GOL406 3.1 53.1 1.0 CD2 A:HIS134 3.1 37.6 1.0 CG A:ASP136 3.1 37.6 1.0 CD2 A:HIS211 3.2 36.0 1.0 CE1 A:HIS134 3.2 39.4 1.0 OD2 A:ASP136 3.4 38.1 1.0 ND1 A:HIS211 4.2 36.5 1.0 CG A:HIS211 4.2 36.5 1.0 ND1 A:HIS134 4.3 38.8 1.0 C8 A:CO0402 4.3 43.7 1.0 CG A:HIS134 4.3 37.9 1.0 CB A:ASP136 4.5 36.3 1.0 C9 A:CO0402 4.6 43.0 1.0 OE1 A:GLN131 4.9 40.7 1.0 CA A:ASP136 4.9 36.0 1.0 N A:ASP136 5.0 37.1 1.0

D.Auman, F.Ecker, S.L.Mader, K.M.Dorst, A.Brauer, G.Widmalm, M.Groll, V.R.I.Kaila. Peroxy Intermediate Drives Carbon Bond Activation in the Dioxygenase Asqj. J.Am.Chem.Soc. V. 144 15622 2022.
ISSN: ESSN 1520-5126
PubMed: 35980821
DOI: 10.1021/JACS.2C05650