Nickel in PDB 8ryz: Structures of Selenoneine Synthase Sena From Variovorax Paradoxus

The structure of Structures of Selenoneine Synthase Sena From Variovorax Paradoxus, PDB code: 8ryz was solved by Y.Y.Ma, Y.Gao, S.H.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.82 / 2.02
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	118.002, 118.002, 72.803, 90, 90, 120
R / Rfree (%)	18 / 21.7

The structure of Structures of Selenoneine Synthase Sena From Variovorax Paradoxus also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Nickel atom in the Structures of Selenoneine Synthase Sena From Variovorax Paradoxus (pdb code 8ryz). 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 Structures of Selenoneine Synthase Sena From Variovorax Paradoxus, PDB code: 8ryz:

Nickel binding site 1 out of 1 in the Structures of Selenoneine Synthase Sena From Variovorax Paradoxus


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Structures of Selenoneine Synthase Sena From Variovorax Paradoxus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni501 b:27.5 occ:1.00 NAT A:AVJ502 2.1 27.4 1.0 N3 A:IMD504 2.2 29.9 1.0 NE2 A:HIS71 2.2 24.2 1.0 NE2 A:HIS171 2.2 27.7 1.0 NE2 A:HIS167 2.2 24.3 1.0 N3 A:IMD503 2.3 27.4 1.0 CAZ A:AVJ502 3.0 32.8 1.0 C4 A:IMD504 3.0 29.7 1.0 CE1 A:HIS71 3.1 25.3 1.0 CE1 A:HIS171 3.2 28.0 1.0 CAM A:AVJ502 3.2 27.9 1.0 CD2 A:HIS167 3.2 24.3 1.0 CE1 A:HIS167 3.2 24.2 1.0 CD2 A:HIS171 3.2 26.5 1.0 CD2 A:HIS71 3.2 24.7 1.0 C4 A:IMD503 3.2 34.6 1.0 C2 A:IMD504 3.2 33.1 1.0 C2 A:IMD503 3.2 29.3 1.0 NAR A:AVJ502 4.2 28.0 1.0 ND1 A:HIS71 4.3 24.2 1.0 C5 A:IMD504 4.3 31.4 1.0 ND1 A:HIS171 4.3 28.1 1.0 CAY A:AVJ502 4.3 32.2 1.0 ND1 A:HIS167 4.3 22.0 1.0 CG A:HIS71 4.3 26.6 1.0 N1 A:IMD504 4.3 36.1 1.0 CG A:HIS167 4.3 25.1 1.0 CG A:HIS171 4.3 29.3 1.0 N1 A:IMD503 4.4 34.8 1.0 C5 A:IMD503 4.4 34.6 1.0 OH A:TYR363 4.7 32.3 1.0

Y.Y.Ma, Y.Gao. Structures of Selenoneine Synthase Sena From Variovorax Paradoxus at 2.02 Angstroms Resolution To Be Published.