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Zinc in PDB 1lry: Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin

Enzymatic activity of Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin

All present enzymatic activity of Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin:
3.5.1.88;

Protein crystallography data

The structure of Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin, PDB code: 1lry was solved by J.-P.Guilloteau, M.Mathieu, C.Giglione, V.Blanc, A.Dupuy, M.Chevrier, P.Gil, A.Famechon, T.Meinnel, V.Mikol, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 50.430, 60.130, 73.290, 90.00, 90.00, 90.00
R / Rfree (%) 22.1 / n/a

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin (pdb code 1lry). 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 Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin, PDB code: 1lry:

Zinc binding site 1 out of 1 in 1lry

Go back to Zinc Binding Sites List in 1lry
Zinc binding site 1 out of 1 in the Crystal Structure of P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin


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 P. Aeruginosa Peptide Deformylase Complexed with Antibiotic Actinonin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn168

b:21.2
occ:1.00
 O4 A:BB2170 2.2 20.4 1.0
O2 A:BB2170 2.2 14.3 1.0
NE2 A:HIS133 2.3 3.6 1.0
NE2 A:HIS137 2.3 5.5 1.0
SG A:CYS91 2.5 13.8 1.0
C3 A:BB2170 2.6 18.7 1.0
N1 A:BB2170 2.6 12.8 1.0
CD2 A:HIS133 3.0 6.2 1.0
CE1 A:HIS137 3.2 8.7 1.0
CD2 A:HIS137 3.3 6.3 1.0
CE1 A:HIS133 3.4 2.9 1.0
NE2 A:GLN50 3.4 7.1 1.0
CB A:CYS91 3.4 2.5 1.0
CD A:GLN50 3.9 8.4 1.0
OE1 A:GLN50 3.9 14.8 1.0
CA A:CYS91 3.9 2.7 1.0
C5 A:BB2170 4.0 15.4 1.0
CG A:HIS133 4.3 8.2 1.0
ND1 A:HIS137 4.3 2.8 1.0
N A:LEU92 4.3 5.4 1.0
ND1 A:HIS133 4.4 7.8 1.0
C6 A:BB2170 4.4 15.2 1.0
CG A:HIS137 4.4 4.4 1.0
O A:HOH286 4.6 27.1 1.0
OE2 A:GLU134 4.6 7.3 1.0
C A:CYS91 4.6 2.9 1.0
O A:GLY90 4.8 6.7 1.0
O A:HIS133 4.9 10.4 1.0
C7 A:BB2170 4.9 13.6 1.0
CG A:GLN50 4.9 3.0 1.0

Reference:

J.P.Guilloteau, M.Mathieu, C.Giglione, V.Blanc, A.Dupuy, M.Chevrier, P.Gil, A.Famechon, T.Meinnel, V.Mikol. The Crystal Structures of Four Peptide Deformylases Bound to the Antibiotic Actinonin Reveal Two Distinct Types: A Platform For the Structure-Based Design of Antibacterial Agents. J.Mol.Biol. V. 320 951 2002.
ISSN: ISSN 0022-2836
PubMed: 12126617
DOI: 10.1016/S0022-2836(02)00549-1
Page generated: Tue Aug 19 21:36:22 2025

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