Atomistry » Nickel » PDB 473d-4cxy » 4a2c
Atomistry »
  Nickel »
    PDB 473d-4cxy »
      4a2c »

Nickel in PDB 4a2c: Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli

Enzymatic activity of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli

All present enzymatic activity of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli:
1.1.1.251;

Protein crystallography data

The structure of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli, PDB code: 4a2c was solved by Y.Alvarez, M.Esteban-Torres, I.Acebron, B.De Las Rivas, R.Munoz, J.M.Mancheno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.952 / 1.87
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 43.720, 77.140, 107.510, 90.00, 95.36, 90.00
R / Rfree (%) 21.27 / 27.29

Other elements in 4a2c:

The structure of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli (pdb code 4a2c). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 3 binding sites of Nickel where determined in the Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli, PDB code: 4a2c:
Jump to Nickel binding site number: 1; 2; 3;

Nickel binding site 1 out of 3 in 4a2c

Go back to Nickel Binding Sites List in 4a2c
Nickel binding site 1 out of 3 in the Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1347

b:41.6
occ:1.00
NE2 A:HIS59 2.3 25.0 1.0
SG A:CYS38 2.6 34.0 1.0
OE2 A:GLU60 3.1 27.5 1.0
O A:HOH2051 3.2 38.3 1.0
CE1 A:HIS59 3.2 29.3 1.0
O A:HOH2147 3.3 35.8 1.0
CD2 A:HIS59 3.3 24.7 1.0
CB A:CYS38 3.4 27.0 1.0
OE1 A:GLU144 3.6 24.7 1.0
OE2 A:GLU144 3.8 34.7 1.0
CD A:GLU60 4.1 26.9 1.0
CD A:GLU144 4.1 30.2 1.0
CG A:GLU60 4.2 23.6 1.0
OG A:SER40 4.3 36.4 1.0
ND1 A:HIS59 4.3 25.5 1.0
CG A:HIS59 4.4 23.4 1.0
O A:HOH2066 4.8 25.8 1.0
CA A:CYS38 4.8 31.5 1.0
O A:HOH2048 4.9 27.8 1.0

Nickel binding site 2 out of 3 in 4a2c

Go back to Nickel Binding Sites List in 4a2c
Nickel binding site 2 out of 3 in the Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1348

b:25.4
occ:1.00
O A:HOH2238 2.3 18.9 1.0
ND1 A:HIS267 2.3 37.9 1.0
ND1 B:HIS267 2.4 29.9 1.0
CG A:HIS267 3.2 33.4 1.0
CE1 B:HIS267 3.2 33.1 1.0
CE1 A:HIS267 3.3 35.3 1.0
CG B:HIS267 3.3 29.6 1.0
CB A:HIS267 3.4 24.5 1.0
CB B:HIS267 3.6 29.5 1.0
NE2 B:HIS267 4.3 34.4 1.0
CD2 A:HIS267 4.3 38.4 1.0
NE2 A:HIS267 4.3 36.2 1.0
CD2 B:HIS267 4.3 32.5 1.0
CA A:HIS267 4.5 23.7 1.0
CA B:HIS267 4.6 27.6 1.0

Nickel binding site 3 out of 3 in 4a2c

Go back to Nickel Binding Sites List in 4a2c
Nickel binding site 3 out of 3 in the Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Crystal Structure of Galactitol-1-Phosphate Dehydrogenase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni1347

b:34.1
occ:1.00
NE2 B:HIS59 2.3 21.7 1.0
O B:HOH2165 2.4 40.9 1.0
SG B:CYS38 2.4 27.1 1.0
OE2 B:GLU60 2.6 24.9 1.0
CD2 B:HIS59 3.1 21.0 1.0
CB B:CYS38 3.1 32.1 1.0
CE1 B:HIS59 3.4 17.8 1.0
OE1 B:GLU144 3.5 16.7 1.0
CD B:GLU60 3.6 18.0 1.0
CG B:GLU60 3.9 17.8 1.0
OE2 B:GLU144 4.2 26.0 1.0
CD B:GLU144 4.2 22.8 1.0
CG B:HIS59 4.3 16.5 1.0
ND1 B:HIS59 4.4 18.0 1.0
CA B:CYS38 4.4 31.5 1.0
OG B:SER40 4.4 25.4 1.0
O B:HOH2078 4.7 28.4 1.0
OE1 B:GLU60 4.8 18.6 1.0
O B:HOH2057 4.8 45.3 1.0

Reference:

M.Esteban-Torres, Y.Alvarez, I.Acebron, B.De Las Rivas, R.Munoz, G.-W.Kohring, A.M.Roa, M.Sobrino, J.M.Mancheno. The Crystal Structure of Galactitol-1-Phosphate 5-Dehydrogenase From Escherichia Coli K12 Provides Insights Into Its Anomalous Behavior on Imac Processes Febs Lett. V. 586 3127 2012.
ISSN: ISSN
PubMed: 22979983
DOI: 10.1016/J.FEBSLET.2012.07.073
Page generated: Wed Dec 16 01:29:09 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy