Nickel in PDB 5d27: Crystal Structure of the P-REX1 pH Domain

The structure of Crystal Structure of the P-REX1 pH Domain, PDB code: 5d27 was solved by J.N.Cash, J.J.G.Tesmer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.92
Space group	P 32 1 2
Cell size a, b, c (Å), α, β, γ (°)	39.897, 39.897, 187.269, 90.00, 90.00, 120.00
R / Rfree (%)	18.8 / 23.2

The binding sites of Nickel atom in the Crystal Structure of the P-REX1 pH Domain (pdb code 5d27). 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 Crystal Structure of the P-REX1 pH Domain, PDB code: 5d27:

Nickel binding site 1 out of 1 in the Crystal Structure of the P-REX1 pH Domain


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of the P-REX1 pH Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni501 b:23.0 occ:0.50 NE2 A:HIS349 2.3 30.5 1.0 NE2 A:HIS362 2.4 28.4 1.0 CD2 A:HIS362 3.2 25.6 1.0 CD2 A:HIS349 3.2 29.0 1.0 CE1 A:HIS349 3.4 33.3 1.0 CE1 A:HIS362 3.4 27.9 1.0 CG A:HIS362 4.3 25.3 1.0 CG A:HIS349 4.4 28.9 1.0 ND1 A:HIS362 4.4 27.9 1.0 ND1 A:HIS349 4.5 30.5 1.0 OH A:TYR348 4.7 40.3 1.0 CD2 A:TRP369 4.9 20.1 1.0 CG A:TRP369 4.9 20.1 1.0 CE3 A:TRP369 5.0 19.6 1.0

J.N.Cash, E.M.Davis, J.J.Tesmer. Structural and Biochemical Characterization of the Catalytic Core of the Metastatic Factor P-REX1 and Its Regulation By Ptdins(3,4,5)P3. Structure V. 24 730 2016.
ISSN: ISSN 0969-2126
PubMed: 27150042
DOI: 10.1016/J.STR.2016.02.022