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Zinc in PDB 3gri: The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus

Enzymatic activity of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus

All present enzymatic activity of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus:
3.5.2.3;

Protein crystallography data

The structure of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus, PDB code: 3gri was solved by J.S.Brunzelle, Z.Wawrzak, T.Skarina, O.Onopriyenko, A.Savchenko, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases(Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.00
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 50.217, 55.229, 85.647, 88.33, 76.56, 76.97
R / Rfree (%) 18.9 / 23.7

Other elements in 3gri:

The structure of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Calcium (Ca) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus (pdb code 3gri). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus, PDB code: 3gri:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3gri

Go back to Zinc Binding Sites List in 3gri
Zinc binding site 1 out of 2 in the The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn500

b:47.4
occ:0.70
NE2 A:HIS58 2.1 35.2 1.0
OD1 A:ASP303 2.3 25.5 1.0
O A:HOH658 2.3 39.2 1.0
O A:HOH491 2.4 44.3 1.0
NE2 A:HIS60 2.5 27.3 1.0
CE1 A:HIS58 2.9 34.1 1.0
CG A:ASP303 3.1 25.4 1.0
CD2 A:HIS58 3.3 30.6 1.0
CE1 A:HIS60 3.4 28.0 1.0
OD2 A:ASP303 3.5 26.7 1.0
CD2 A:HIS60 3.5 26.0 1.0
NE2 A:HIS230 3.8 19.9 1.0
CD2 A:HIS230 4.0 21.9 1.0
ND1 A:HIS58 4.1 31.1 1.0
CB A:ASP303 4.2 24.5 1.0
CG A:HIS58 4.3 28.5 1.0
ND1 A:HIS60 4.6 27.7 1.0
CE A:MSE90 4.6 42.2 1.0
CG A:MSE90 4.7 32.4 1.0
CG A:HIS60 4.7 25.8 1.0
CA A:ASP303 4.7 24.1 1.0
OD1 A:ASP150 4.7 32.6 1.0
OD2 A:ASP150 4.7 33.2 1.0
ND1 A:HIS177 5.0 26.0 1.0

Zinc binding site 2 out of 2 in 3gri

Go back to Zinc Binding Sites List in 3gri
Zinc binding site 2 out of 2 in the The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn500

b:42.6
occ:0.70
OD1 B:ASP303 2.0 33.3 1.0
NE2 B:HIS60 2.1 33.6 1.0
NE2 B:HIS58 2.2 32.1 1.0
O B:HOH492 2.7 44.6 1.0
CG B:ASP303 3.0 29.9 1.0
CE1 B:HIS60 3.0 31.1 1.0
CE1 B:HIS58 3.1 32.9 1.0
CD2 B:HIS58 3.2 29.9 1.0
CD2 B:HIS60 3.2 30.4 1.0
OD2 B:ASP303 3.5 32.5 1.0
NE2 B:HIS230 4.0 20.9 1.0
CD2 B:HIS230 4.2 21.4 1.0
ND1 B:HIS60 4.2 29.2 1.0
ND1 B:HIS58 4.2 29.8 1.0
CB B:ASP303 4.2 28.0 1.0
OD2 B:ASP150 4.3 37.1 1.0
CG B:HIS58 4.3 27.4 1.0
CG B:HIS60 4.3 27.8 1.0
OD1 B:ASP150 4.5 35.7 1.0
CE B:MSE90 4.5 43.3 1.0
CG B:MSE90 4.5 32.3 1.0
CA B:ASP303 4.7 27.6 1.0
CG B:ASP150 4.7 35.6 1.0
O B:HOH558 4.9 28.3 1.0

Reference:

J.S.Brunzelle, Z.Wawrzak, T.Skarina, O.Onopriyenko, A.Savchenko, W.F.Anderson. The Crystal Structure of A Dihydroorotase From Staphylococcus Aureus To Be Published.
Page generated: Wed Dec 16 04:21:30 2020

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