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Zinc in PDB 3giu: 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus

Enzymatic activity of 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus

All present enzymatic activity of 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus:
3.4.19.3;

Protein crystallography data

The structure of 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus, PDB code: 3giu was solved by G.Minasov, Z.Wawrzak, T.Skarina, O.Onopriyenko, S.N.Peterson, 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) 24.55 / 1.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 42.790, 81.000, 119.910, 90.00, 90.00, 90.00
R / Rfree (%) 11.6 / 14.8

Zinc Binding Sites:

The binding sites of Zinc atom in the 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus (pdb code 3giu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus, PDB code: 3giu:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3giu

Go back to Zinc Binding Sites List in 3giu
Zinc binding site 1 out of 2 in the 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) 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 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn213

b:10.2
occ:0.10
SG A:CYS141 1.8 11.1 0.9
SG A:CYS141 1.9 9.6 0.1
OE1 B:GLU212 2.1 5.3 0.5
CD B:GLU212 2.4 6.7 0.5
NE2 A:HIS165 2.4 10.3 1.0
O A:ACY214 2.6 13.4 1.0
OE2 B:GLU212 2.6 7.5 0.5
CB A:CYS141 2.8 8.1 0.1
CB A:CYS141 2.8 9.4 0.9
O A:GLN68 3.0 9.4 1.0
CD2 A:HIS165 3.1 8.1 1.0
CG B:GLU212 3.4 7.9 0.5
C A:ACY214 3.4 12.8 1.0
CE1 A:HIS165 3.6 10.0 1.0
O B:THR211 3.7 17.2 0.5
CB B:GLU212 3.8 10.3 0.5
C A:GLN68 4.0 7.6 1.0
OXT A:ACY214 4.1 10.5 1.0
CA A:CYS141 4.1 8.0 0.1
CA A:CYS141 4.1 8.8 0.9
CH3 A:ACY214 4.2 14.0 1.0
N A:GLN68 4.3 7.7 1.0
N A:CYS141 4.3 7.8 0.1
N A:CYS141 4.3 7.4 0.9
CG A:HIS165 4.4 7.6 1.0
C A:GLY67 4.4 6.4 1.0
CA A:GLY67 4.4 6.7 1.0
O A:HOH226 4.4 8.7 1.0
ND1 A:HIS165 4.6 8.9 1.0
CZ A:PHE163 4.6 7.9 1.0
CE2 A:PHE163 4.7 7.3 1.0
CA A:GLN68 4.8 6.8 1.0
C B:THR211 4.9 16.2 0.5
N A:ALA69 4.9 7.2 1.0
O A:GLY67 5.0 8.0 1.0
O A:ALA136 5.0 10.9 1.0

Zinc binding site 2 out of 2 in 3giu

Go back to Zinc Binding Sites List in 3giu
Zinc binding site 2 out of 2 in the 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) 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 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn213

b:11.4
occ:0.20
SG B:CYS141 1.9 10.2 0.8
OE2 A:GLU212 2.1 6.5 0.5
SG B:CYS141 2.1 11.6 0.2
CD A:GLU212 2.3 7.3 0.5
NE2 B:HIS165 2.4 11.1 1.0
O B:ACY214 2.5 16.3 1.0
OE1 A:GLU212 2.7 7.2 0.5
CB B:CYS141 2.9 9.4 0.2
CB B:CYS141 2.9 10.7 0.8
O B:GLN68 3.0 10.9 1.0
CD2 B:HIS165 3.0 9.2 1.0
CG A:GLU212 3.2 11.5 0.5
C B:ACY214 3.4 14.0 1.0
CB A:GLU212 3.6 14.8 0.5
O A:THR211 3.6 15.0 0.5
CE1 B:HIS165 3.6 12.3 1.0
C B:GLN68 4.0 9.0 1.0
OXT B:ACY214 4.1 11.4 1.0
CA B:CYS141 4.2 8.3 0.8
CA B:CYS141 4.2 8.7 0.2
CH3 B:ACY214 4.3 16.5 1.0
N B:GLN68 4.3 8.6 1.0
CG B:HIS165 4.3 7.2 1.0
C B:GLY67 4.4 7.1 1.0
CA B:GLY67 4.4 7.9 1.0
N B:CYS141 4.5 8.3 0.2
N B:CYS141 4.5 8.2 0.8
O B:HOH225 4.5 4.6 1.0
ND1 B:HIS165 4.6 9.5 1.0
CZ B:PHE163 4.7 8.3 1.0
CA B:GLN68 4.7 8.3 1.0
C A:THR211 4.8 13.2 0.5
CE2 B:PHE163 4.8 7.9 1.0
N B:ALA69 4.8 8.8 1.0
O A:HOH518 4.9 20.1 0.5
O B:GLY67 5.0 8.9 1.0

Reference:

G.Minasov, Z.Wawrzak, T.Skarina, O.Onopriyenko, S.N.Peterson, A.Savchenko, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases(Csgid). 1.25 Angstrom Crystal Structure of Pyrrolidone-Carboxylate Peptidase (Pcp) From Staphylococcus Aureus To Be Published.
Page generated: Sat Sep 26 10:16:24 2020
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