Atomistry » Cobalt » PDB 4as7-4fck » 4e9a
Atomistry »
  Cobalt »
    PDB 4as7-4fck »
      4e9a »

Cobalt in PDB 4e9a: Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor

Enzymatic activity of Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor

All present enzymatic activity of Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor:
3.5.1.88;

Protein crystallography data

The structure of Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor, PDB code: 4e9a was solved by K.Cui, L.Zhu, W.Lu, J.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.48 / 1.66
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.891, 52.057, 92.064, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 23

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor (pdb code 4e9a). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor, PDB code: 4e9a:

Cobalt binding site 1 out of 1 in 4e9a

Go back to Cobalt Binding Sites List in 4e9a
Cobalt binding site 1 out of 1 in the Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Structure of Peptide Deformylase Form Helicobacter Pylori in Complex with Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co201

b:20.3
occ:1.00
NE2 A:HIS138 2.1 17.9 1.0
NE2 A:HIS142 2.1 17.6 1.0
O A:HOH332 2.2 24.0 1.0
SG A:CYS96 2.4 21.7 1.0
CD2 A:HIS138 2.9 21.0 1.0
CD2 A:HIS142 3.1 19.1 1.0
CE1 A:HIS142 3.2 17.9 1.0
CE1 A:HIS138 3.2 20.5 1.0
CB A:CYS96 3.4 21.1 1.0
O A:HOH305 3.5 19.5 1.0
O A:HOH317 3.7 25.3 1.0
NE2 A:GLN51 3.7 19.3 1.0
OE1 A:GLN51 3.8 19.8 1.0
CA A:CYS96 3.9 21.2 1.0
CD A:GLN51 4.0 20.1 1.0
OE2 A:GLU139 4.0 23.3 1.0
CG A:HIS138 4.2 19.4 1.0
CG A:HIS142 4.2 18.0 1.0
ND1 A:HIS142 4.2 18.6 1.0
ND1 A:HIS138 4.3 20.3 1.0
C1 A:QAP202 4.5 30.7 1.0
OE1 A:GLU139 4.5 21.2 1.0
N A:LEU97 4.5 20.3 1.0
O A:HOH308 4.5 19.9 1.0
CD A:GLU139 4.6 22.6 1.0
C A:CYS96 4.6 24.0 1.0
O A:GLY95 4.7 22.1 1.0
C3 A:QAP202 4.7 30.1 1.0
O1 A:QAP202 4.8 30.0 1.0

Reference:

K.Cui, L.Zhu, W.Lu, J.Huang. Identification of Novel Peptide Deformylase Inhibitors From Natural Products To Be Published.
Page generated: Sun Jul 13 19:41:44 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy