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Zinc in PDB 1q1y: Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin

Enzymatic activity of Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin

All present enzymatic activity of Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin:
3.5.1.88;

Protein crystallography data

The structure of Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin, PDB code: 1q1y was solved by H.J.Yoon, S.K.Lee, H.L.Kim, H.W.Kim, H.W.Kim, J.Y.Lee, B.Mikami, S.W.Suh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.99 / 1.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 94.417, 120.844, 48.057, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 23.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin (pdb code 1q1y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin, PDB code: 1q1y:

Zinc binding site 1 out of 1 in 1q1y

Go back to Zinc Binding Sites List in 1q1y
Zinc binding site 1 out of 1 in the Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structures of Peptide Deformylase From Staphylococcus Aureus Complexed with Actinonin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn350

b:29.9
occ:1.00
 NE2 A:HIS154 2.1 11.0 1.0
NE2 A:HIS158 2.2 13.0 1.0
SG A:CSD111 2.3 22.9 1.0
O4 A:BB2301 2.4 24.8 1.0
O2 A:BB2301 2.4 19.9 1.0
OD2 A:CSD111 2.8 25.6 1.0
C3 A:BB2301 2.9 26.2 1.0
N1 A:BB2301 2.9 25.0 1.0
CD2 A:HIS154 3.0 12.4 1.0
CE1 A:HIS158 3.1 12.3 1.0
CE1 A:HIS154 3.1 12.1 1.0
CD2 A:HIS158 3.3 13.1 1.0
OD1 A:CSD111 3.3 29.9 1.0
NE2 A:GLN65 3.3 17.2 1.0
CB A:CSD111 3.6 23.0 1.0
O A:HOH673 3.6 14.1 1.0
CA A:CSD111 3.9 21.3 1.0
CD A:GLN65 4.1 18.2 1.0
CG A:HIS154 4.2 11.8 1.0
C5 A:BB2301 4.2 27.7 1.0
ND1 A:HIS154 4.2 13.2 1.0
ND1 A:HIS158 4.3 15.8 1.0
N A:LEU112 4.3 21.0 1.0
OE1 A:GLN65 4.3 19.1 1.0
CG A:HIS158 4.4 13.0 1.0
O A:HOH501 4.6 13.9 1.0
C A:CSD111 4.6 21.7 1.0
C6 A:BB2301 4.6 29.1 1.0
O A:GLY110 4.7 22.4 1.0
OE2 A:GLU155 4.8 14.5 1.0
C7 A:BB2301 4.8 29.1 1.0
OE1 A:GLU155 5.0 14.0 1.0

Reference:

H.J.Yoon, H.L.Kim, S.K.Lee, H.W.Kim, H.W.Kim, J.Y.Lee, B.Mikami, S.W.Suh. Crystal Structure of Peptide Deformylase From Staphylococcus Aureus in Complex with Actinonin, A Naturally Occurring Antibacterial Agent Proteins V. 57 639 2004.
ISSN: ISSN 0887-3585
PubMed: 15382235
DOI: 10.1002/PROT.20231
Page generated: Mon Jan 25 16:11:54 2021

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