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Zinc in PDB 3bkf: Zinc-Bound C-Terminal Domain of Nikr

Protein crystallography data

The structure of Zinc-Bound C-Terminal Domain of Nikr, PDB code: 3bkf was solved by C.M.Phillips, E.R.Schreiter, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.90
Space group P 62 2 2
Cell size a, b, c (Å), α, β, γ (°) 46.220, 46.220, 124.900, 90.00, 90.00, 120.00
R / Rfree (%) 25 / 27.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Zinc-Bound C-Terminal Domain of Nikr (pdb code 3bkf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Zinc-Bound C-Terminal Domain of Nikr, PDB code: 3bkf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3bkf

Go back to Zinc Binding Sites List in 3bkf
Zinc binding site 1 out of 2 in the Zinc-Bound C-Terminal Domain of Nikr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Zinc-Bound C-Terminal Domain of Nikr within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn500

b:46.2
occ:0.25
NE2 A:HIS89 2.2 60.6 1.0
CD2 A:HIS89 2.6 58.8 1.0
CB A:CYS95 2.7 43.5 1.0
SG A:CYS95 3.1 46.5 1.0
CE1 A:HIS89 3.4 61.4 1.0
CG A:HIS89 3.8 57.9 1.0
CA A:CYS95 3.9 41.8 1.0
ZN A:ZN501 4.0 48.5 0.6
ND1 A:HIS89 4.2 60.6 1.0
N A:CYS95 4.4 46.1 1.0
C A:ASP94 4.9 50.9 1.0
O A:ASP94 5.0 50.4 1.0

Zinc binding site 2 out of 2 in 3bkf

Go back to Zinc Binding Sites List in 3bkf
Zinc binding site 2 out of 2 in the Zinc-Bound C-Terminal Domain of Nikr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Zinc-Bound C-Terminal Domain of Nikr within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:48.5
occ:0.57
ND1 A:HIS87 2.0 39.1 1.0
OE1 A:GLU97 2.3 46.0 1.0
SG A:CYS95 2.3 46.5 1.0
CG A:HIS87 3.0 37.0 1.0
CE1 A:HIS87 3.0 41.4 1.0
CD A:GLU97 3.0 44.3 1.0
CG A:GLU97 3.1 38.9 1.0
CB A:HIS87 3.3 32.9 1.0
CB A:CYS95 3.5 43.5 1.0
ZN A:ZN500 4.0 46.2 0.2
NE2 A:HIS87 4.1 41.6 1.0
OE2 A:GLU97 4.1 44.0 1.0
CD2 A:HIS87 4.1 39.1 1.0
CA A:HIS87 4.1 32.1 1.0
CB A:GLU97 4.5 34.0 1.0
CA A:CYS95 4.8 41.8 1.0
O A:LEU96 4.9 30.6 1.0
C A:CYS95 5.0 38.6 1.0
C A:HIS87 5.0 33.6 1.0

Reference:

C.M.Phillips, E.R.Schreiter, Y.Guo, S.C.Wang, D.B.Zamble, C.L.Drennan. Structural Basis of the Metal Specificity For Nickel Regulatory Protein Nikr. Biochemistry V. 47 1938 2008.
ISSN: ISSN 0006-2960
PubMed: 18193897
DOI: 10.1021/BI702006H
Page generated: Thu Oct 24 11:31:09 2024

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