Nickel in PDB 7olt: Dioxygenase Asqj in Complex with 2 and Tris

The structure of Dioxygenase Asqj in Complex with 2 and Tris, PDB code: 7olt 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)	15.00 / 1.50
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	72.62, 120.75, 67.29, 90, 90, 90
R / Rfree (%)	14.1 / 18.3

The structure of Dioxygenase Asqj in Complex with 2 and Tris also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Bromine	(Br)	2 atoms
Potassium	(K)	1 atom

The binding sites of Nickel atom in the Dioxygenase Asqj in Complex with 2 and Tris (pdb code 7olt). 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 in Complex with 2 and Tris, PDB code: 7olt:

Nickel binding site 1 out of 1 in the Dioxygenase Asqj in Complex with 2 and Tris


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Dioxygenase Asqj in Complex with 2 and Tris within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni401 b:20.9 occ:1.00 NE2 A:HIS211 2.0 18.0 1.0 NE2 A:HIS134 2.1 18.1 1.0 OD1 A:ASP136 2.1 20.6 1.0 O3 A:TRS403 2.2 29.1 1.0 O1 A:TRS403 2.2 22.9 1.0 N A:TRS403 2.3 26.3 1.0 C A:TRS403 2.8 25.3 1.0 C3 A:TRS403 2.9 28.4 1.0 C1 A:TRS403 3.0 25.0 1.0 CE1 A:HIS211 3.0 19.0 1.0 CD2 A:HIS211 3.0 19.4 1.0 CD2 A:HIS134 3.0 19.4 1.0 CG A:ASP136 3.1 20.9 1.0 CE1 A:HIS134 3.1 19.4 1.0 OD2 A:ASP136 3.3 22.6 1.0 ND1 A:HIS211 4.1 17.3 1.0 CG A:HIS211 4.1 18.3 1.0 ND1 A:HIS134 4.2 19.0 1.0 CG A:HIS134 4.2 19.0 1.0 C2 A:TRS403 4.3 25.7 1.0 OE1 A:GLN131 4.4 18.5 1.0 C8 A:58J402 4.4 21.3 1.0 CB A:ASP136 4.5 18.0 1.0 C9 A:58J402 4.7 20.6 1.0 CA A:ASP136 4.8 16.3 1.0 O2 A:TRS403 4.9 27.5 1.0 N A:ASP136 4.9 17.1 1.0 C10 A:58J402 5.0 19.9 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