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Zinc in PDB 2vw7: Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3

Enzymatic activity of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3

All present enzymatic activity of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3:
1.7.2.1;

Protein crystallography data

The structure of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3, PDB code: 2vw7 was solved by M.J.Ellis, S.G.Buffey, M.A.Hough, S.S.Hasnain, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.24 / 1.90
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 89.072, 89.072, 288.268, 90.00, 90.00, 120.00
R / Rfree (%) 16.2 / 20.1

Other elements in 2vw7:

The structure of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3 also contains other interesting chemical elements:

Copper (Cu) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3 (pdb code 2vw7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3, PDB code: 2vw7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2vw7

Go back to Zinc Binding Sites List in 2vw7
Zinc binding site 1 out of 2 in the Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn503

b:23.6
occ:1.00
NE2 A:HIS165 1.9 15.5 1.0
O A:HOH2333 2.0 24.8 1.0
OE2 B:GLU195 2.0 15.1 0.5
OD2 A:ASP167 2.0 19.6 1.0
OD1 A:ASP167 2.3 21.0 1.0
OE1 B:GLU195 2.3 15.9 0.5
CG A:ASP167 2.5 19.0 1.0
OE2 B:GLU195 2.7 17.4 0.5
CD B:GLU195 2.8 16.0 1.0
CE1 A:HIS165 2.8 17.5 1.0
OE1 B:GLU195 2.9 12.7 0.5
CD2 A:HIS165 3.0 17.5 1.0
O A:HOH2264 3.8 31.0 1.0
OG1 A:THR234 4.0 20.7 1.0
ND1 A:HIS165 4.0 17.5 1.0
CB A:ASP167 4.0 19.8 1.0
O B:HOH2248 4.1 24.0 1.0
CG A:HIS165 4.1 16.9 1.0
CG B:GLU195 4.1 17.1 1.0
O A:HOH2265 4.3 27.5 1.0
CB A:THR234 4.3 20.7 1.0
N A:THR234 4.5 20.9 1.0
N A:ASP167 4.6 18.5 1.0
CB B:ALA191 4.6 17.8 1.0
CA A:ASP167 4.8 19.1 1.0
O A:GLY232 4.8 22.8 1.0

Zinc binding site 2 out of 2 in 2vw7

Go back to Zinc Binding Sites List in 2vw7
Zinc binding site 2 out of 2 in the Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Nitrite Reductase From Alcaligenes Xylosoxidans - 1 of 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn503

b:22.1
occ:1.00
NE2 B:HIS165 2.0 14.9 1.0
O B:HOH2359 2.0 21.2 1.0
OD2 B:ASP167 2.1 16.6 1.0
OD1 B:ASP167 2.4 16.5 1.0
CG B:ASP167 2.5 16.3 1.0
CD2 B:HIS165 2.9 16.4 1.0
CE1 B:HIS165 3.0 15.6 1.0
OG1 B:THR234 4.0 16.1 1.0
CB B:ASP167 4.0 17.4 1.0
CG B:HIS165 4.1 15.4 1.0
ND1 B:HIS165 4.1 16.2 1.0
O B:HOH2286 4.1 25.5 1.0
CB B:THR234 4.3 16.1 1.0
N B:THR234 4.5 17.5 1.0
N B:ASP167 4.6 16.7 1.0
CA B:ASP167 4.7 17.0 1.0
O B:GLY232 4.8 19.3 1.0
C B:TYR166 5.0 15.6 1.0

Reference:

M.J.Ellis, S.G.Buffey, M.A.Hough, S.S.Hasnain. On-Line Optical and X-Ray Spectroscopies with Crystallography: An Integrated Approach For Determining Metalloprotein Structures in Functionally Well Defined States. J.Synchrotron Radiat. V. 15 433 2008.
ISSN: ISSN 0909-0495
PubMed: 18728313
DOI: 10.1107/S0909049508014945
Page generated: Thu Oct 17 04:38:10 2024

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