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Zinc in PDB 3oca: Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis

Enzymatic activity of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis

All present enzymatic activity of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis:
3.5.1.88;

Protein crystallography data

The structure of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis, PDB code: 3oca was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.67 / 2.40
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 84.260, 64.430, 80.910, 90.00, 90.00, 90.00
R / Rfree (%) 19.2 / 24.6

Other elements in 3oca:

The structure of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis (pdb code 3oca). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis, PDB code: 3oca:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3oca

Go back to Zinc Binding Sites List in 3oca
Zinc binding site 1 out of 2 in the Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn300

b:28.8
occ:1.00
O A:HOH189 1.9 26.1 1.0
NE2 A:HIS157 2.0 24.9 1.0
NE2 A:HIS153 2.1 24.7 1.0
SG A:CYS111 2.3 26.6 1.0
CE1 A:HIS157 3.0 25.4 1.0
CD2 A:HIS153 3.0 20.6 1.0
CD2 A:HIS157 3.0 24.0 1.0
CE1 A:HIS153 3.1 26.7 1.0
CB A:CYS111 3.3 26.3 1.0
O A:HOH231 3.4 22.3 1.0
O A:HOH235 3.6 26.8 1.0
NE2 A:GLN51 3.6 25.2 1.0
OE1 A:GLN51 3.8 22.9 1.0
CD A:GLN51 3.9 24.2 1.0
CA A:CYS111 3.9 26.9 1.0
OE2 A:GLU154 3.9 31.6 1.0
ND1 A:HIS157 4.1 25.3 1.0
CG A:HIS153 4.1 20.6 1.0
CG A:HIS157 4.2 22.1 1.0
ND1 A:HIS153 4.2 22.9 1.0
O A:HOH192 4.3 26.0 1.0
OE1 A:GLU154 4.5 29.2 1.0
CD A:GLU154 4.5 27.3 1.0
O A:GLY110 4.6 28.1 1.0
N A:LEU112 4.7 26.8 1.0
C A:CYS111 4.7 27.6 1.0

Zinc binding site 2 out of 2 in 3oca

Go back to Zinc Binding Sites List in 3oca
Zinc binding site 2 out of 2 in the Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn300

b:25.9
occ:1.00
O B:HOH238 2.0 24.6 1.0
NE2 B:HIS153 2.1 21.9 1.0
NE2 B:HIS157 2.1 23.3 1.0
SG B:CYS111 2.2 27.8 1.0
CD2 B:HIS153 3.0 20.9 1.0
CD2 B:HIS157 3.0 22.8 1.0
O B:HOH215 3.1 19.5 1.0
CE1 B:HIS153 3.1 24.9 1.0
CE1 B:HIS157 3.2 26.0 1.0
CB B:CYS111 3.3 28.3 1.0
NE2 B:GLN51 3.7 27.2 1.0
OE1 B:GLN51 3.8 24.6 1.0
OE2 B:GLU154 4.0 29.2 1.0
CD B:GLN51 4.0 23.8 1.0
CA B:CYS111 4.0 29.0 1.0
CG B:HIS153 4.2 21.8 1.0
ND1 B:HIS153 4.2 24.6 1.0
O B:HOH192 4.2 20.2 1.0
CG B:HIS157 4.2 22.5 1.0
ND1 B:HIS157 4.3 23.0 1.0
N B:LEU112 4.6 29.0 1.0
CD B:GLU154 4.7 24.2 1.0
C B:CYS111 4.8 30.0 1.0
OE1 B:GLU154 4.8 25.5 1.0
O B:GLY110 4.8 28.4 1.0

Reference:

Seattle Structural Genomics Center For Infectious Disease(Ssgcid), J.Abendroth, B.Sankaran, T.E.Edwards, B.Staker. Crystal Structure of Peptide Deformylase From Ehrlichia Chaffeensis To Be Published.
Page generated: Thu Oct 29 08:46:38 2020
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