Atomistry » Sodium » PDB 6vf7-6w0r » 6vo6
Atomistry »
  Sodium »
    PDB 6vf7-6w0r »
      6vo6 »

Sodium in PDB 6vo6: Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp

Enzymatic activity of Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp

All present enzymatic activity of Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp:
5.1.3.2;

Protein crystallography data

The structure of Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp, PDB code: 6vo6 was solved by T.K.Anderson, K.D.Spencer, J.B.Thoden, J.P.Huddleston, F.M.Raushel, H.M.Holden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.14 / 1.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 132.608, 84.343, 135.450, 90.00, 96.97, 90.00
R / Rfree (%) 16.3 / 18.9

Other elements in 6vo6:

The structure of Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp (pdb code 6vo6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp, PDB code: 6vo6:

Sodium binding site 1 out of 1 in 6vo6

Go back to Sodium Binding Sites List in 6vo6
Sodium binding site 1 out of 1 in the Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of CJ1427, An Essential Nad-Dependent Dehydrogenase From Campylobacter Jejuni, in the Presence of Nadh and Gdp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na403

b:17.8
occ:1.00
O D:GLY124 2.2 19.4 1.0
O D:GLU127 2.3 21.9 1.0
O D:ASP271 2.3 16.8 1.0
O D:HOH605 2.4 16.1 1.0
O D:HOH662 2.4 21.2 1.0
C D:GLY124 3.2 18.5 1.0
C D:ASP271 3.4 16.1 1.0
C D:GLU127 3.4 27.9 1.0
CB D:ALA130 3.7 20.9 1.0
CA D:GLY124 3.9 17.8 1.0
CB D:ASP271 3.9 15.8 1.0
N D:ASP271 3.9 14.8 1.0
CA D:ASP271 3.9 15.6 1.0
N D:GLU127 4.0 27.0 1.0
O D:LYS269 4.0 16.0 1.0
N D:ILE125 4.1 19.6 1.0
CA D:GLU127 4.2 27.2 1.0
N D:ALA130 4.2 20.9 1.0
CA D:ILE125 4.3 22.4 1.0
N D:LYS128 4.4 26.4 1.0
CG D:ASP271 4.5 16.7 1.0
N D:TYR272 4.5 14.9 1.0
N D:ASP129 4.5 24.3 1.0
O D:TYR123 4.6 15.4 1.0
CA D:LYS128 4.6 29.7 1.0
N D:GLY126 4.6 28.3 1.0
CA D:ALA130 4.6 20.1 1.0
O D:HOH607 4.7 31.0 1.0
C D:ILE125 4.7 25.6 1.0
C D:LYS128 4.7 27.4 1.0
CB D:GLU127 4.8 28.6 1.0
CB D:TYR272 4.8 14.4 1.0
OD2 D:ASP271 4.8 20.7 1.0
CA D:TYR272 4.8 14.8 1.0

Reference:

J.P.Huddleston, T.K.Anderson, K.D.Spencer, J.B.Thoden, F.M.Raushel, H.M.Holden. Structural Analysis of CJ1427, An Essential Nad-Dependent Dehydrogenase For the Biosynthesis of the Heptose Residues in the Capsular Polysaccharides of Campylobacter Jejuni. Biochemistry 2020.
ISSN: ISSN 0006-2960
PubMed: 32168450
DOI: 10.1021/ACS.BIOCHEM.0C00096
Page generated: Tue Oct 8 14:25:06 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