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Nickel in PDB 3d9b: Symmetric Structure of E. Coli Acrb

Protein crystallography data

The structure of Symmetric Structure of E. Coli Acrb, PDB code: 3d9b was solved by D.Veesler, S.Blangy, C.Cambillau, G.Sciara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.97 / 3.42
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 145.740, 145.740, 514.000, 90.00, 90.00, 120.00
R / Rfree (%) 28.9 / 35.5

Nickel Binding Sites:

The binding sites of Nickel atom in the Symmetric Structure of E. Coli Acrb (pdb code 3d9b). 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 Symmetric Structure of E. Coli Acrb, PDB code: 3d9b:

Nickel binding site 1 out of 1 in 3d9b

Go back to Nickel Binding Sites List in 3d9b
Nickel binding site 1 out of 1 in the Symmetric Structure of E. Coli Acrb


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Symmetric Structure of E. Coli Acrb within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1201

b:24.6
occ:0.50
OD2 A:ASP529 2.2 76.8 1.0
NE2 A:HIS525 2.4 78.8 1.0
OD1 A:ASP529 2.7 76.8 1.0
CG A:ASP529 2.8 77.0 1.0
CE1 A:HIS525 2.9 78.7 1.0
CD2 A:HIS525 3.3 77.9 1.0
ND1 A:HIS525 3.9 78.0 1.0
CG A:HIS525 4.1 77.5 1.0
CB A:ASP529 4.2 77.1 1.0
O A:HIS525 4.6 77.8 1.0

Reference:

D.Veesler, S.Blangy, C.Cambillau, G.Sciara. There Is A Baby in the Bath Water: Acrb Contamination Is A Major Problem in Membrane-Protein Crystallization. Acta Crystallogr.,Sect.F V. 64 880 2008.
ISSN: ESSN 1744-3091
PubMed: 18931428
DOI: 10.1107/S1744309108028248
Page generated: Fri Sep 25 08:20:54 2020
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