Nickel in PDB 1xcv: Crystal Structure of (H79AC102D)Dtxr Complexed with Nickel(II)

The structure of Crystal Structure of (H79AC102D)Dtxr Complexed with Nickel(II), PDB code: 1xcv was solved by J.A.D'aquino, D.Ringe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	7.95 / 2.10
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	63.082, 63.082, 105.987, 90.00, 90.00, 120.00
R / Rfree (%)	27.9 / 30

The binding sites of Nickel atom in the Crystal Structure of (H79AC102D)Dtxr Complexed with Nickel(II) (pdb code 1xcv). 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 (H79AC102D)Dtxr Complexed with Nickel(II), PDB code: 1xcv:

Nickel binding site 1 out of 1 in the Crystal Structure of (H79AC102D)Dtxr Complexed with Nickel(II)


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 (H79AC102D)Dtxr Complexed with Nickel(II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni252 b:25.9 occ:1.00 OD1 A:ASP102 1.9 29.8 1.0 OE2 A:GLU105 2.0 24.8 1.0 O A:ASP102 2.0 24.2 1.0 NE2 A:HIS106 2.2 25.4 1.0 SD A:MET10 2.5 26.8 1.0 C A:ASP102 3.1 24.7 1.0 CD2 A:HIS106 3.1 24.9 1.0 CD A:GLU105 3.1 24.8 1.0 CG A:ASP102 3.1 27.8 1.0 CE1 A:HIS106 3.2 28.1 1.0 CE A:MET10 3.2 20.6 1.0 CA A:ASP102 3.5 23.8 1.0 CG A:MET10 3.5 21.4 1.0 CG A:GLU105 3.6 23.6 1.0 CB A:ASP102 3.8 26.4 1.0 OD2 A:ASP102 4.1 33.7 1.0 NH1 A:ARG13 4.1 28.3 1.0 OE1 A:GLU105 4.2 23.0 1.0 CG A:HIS106 4.2 23.6 1.0 ND1 A:HIS106 4.2 23.1 1.0 N A:ARG103 4.2 19.7 1.0 O A:LEU4 4.4 29.8 1.0 CA A:ARG103 4.7 19.2 1.0 CD A:ARG13 4.8 28.9 1.0 N A:ASP102 4.9 22.8 1.0 CB A:MET10 4.9 23.4 1.0

J.A.D'aquino, J.Tetenbaum-Novatt, A.White, F.Berkovitch, D.Ringe. Mechanism of Metal Ion Activation of the Diphtheria Toxin Repressor Dtxr. Proc.Natl.Acad.Sci.Usa V. 102 18408 2005.
ISSN: ISSN 0027-8424
PubMed: 16352732
DOI: 10.1073/PNAS.0500908102