Atomistry » Nickel » PDB 3qsi-3tsn » 3str
Atomistry »
  Nickel »
    PDB 3qsi-3tsn »
      3str »

Nickel in PDB 3str: Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid

Enzymatic activity of Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid

All present enzymatic activity of Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid:
3.5.1.88;

Protein crystallography data

The structure of Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid, PDB code: 3str was solved by N.Campobasso, P.Ward, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.07 / 1.75
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 50.274, 50.274, 91.486, 90.00, 90.00, 90.00
R / Rfree (%) 19.2 / 23

Other elements in 3str:

The structure of Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Nickel Binding Sites:

The binding sites of Nickel atom in the Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid (pdb code 3str). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid, PDB code: 3str:

Nickel binding site 1 out of 1 in 3str

Go back to Nickel Binding Sites List in 3str
Nickel binding site 1 out of 1 in the Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Strep Peptide Deformylase with A Time Dependent Thiazolidine Hydroxamic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Ni204

b:26.1
occ:1.00
 NE2 P:HIS177 2.1 19.6 1.0
NE2 P:HIS173 2.2 21.5 1.0
O44 P:3LI209 2.3 21.6 1.0
O42 P:3LI209 2.3 32.4 1.0
SG P:CYS130 2.5 25.4 1.0
C41 P:3LI209 3.0 25.3 1.0
CD2 P:HIS177 3.0 18.9 1.0
CD2 P:HIS173 3.1 24.3 1.0
N43 P:3LI209 3.1 24.6 1.0
CE1 P:HIS177 3.2 22.6 1.0
CE1 P:HIS173 3.2 23.9 1.0
NE2 P:GLN77 3.3 22.4 1.0
CB P:CYS130 3.6 24.0 1.0
O P:HOH261 3.8 24.1 1.0
CA P:CYS130 3.9 22.9 1.0
CD P:GLN77 4.0 23.3 1.0
CG P:HIS177 4.2 21.6 1.0
OE1 P:GLN77 4.2 21.8 1.0
ND1 P:HIS177 4.2 21.9 1.0
CG P:HIS173 4.3 20.5 1.0
N P:LEU131 4.3 20.9 1.0
ND1 P:HIS173 4.3 18.7 1.0
C40 P:3LI209 4.3 25.9 1.0
OE1 P:GLU174 4.5 20.6 1.0
C P:CYS130 4.5 26.2 1.0
O P:HOH255 4.6 20.5 1.0
N39 P:3LI209 4.7 23.1 1.0
OE2 P:GLU174 4.7 22.9 1.0
O P:GLY129 4.9 25.3 1.0
CD P:GLU174 5.0 21.2 1.0

Reference:

R.Totoritis, C.Duraiswami, A.N.Taylor, J.J.Kerrigan, N.Campobasso, K.J.Smith, P.Ward, B.W.King, M.Murrayz-Thompson, A.D.Jones, G.S.Van Aller, K.M.Aubart, M.Zalacain, S.H.Thrall, T.D.Meek, B.Schwartz. Understanding the Origins of Time-Dependent Inhibition By Polypeptide Deformylase Inhibitors. Biochemistry V. 50 6642 2011.
ISSN: ISSN 0006-2960
PubMed: 21711014
DOI: 10.1021/BI200655G
Page generated: Wed Oct 9 17:48:23 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy