Atomistry » Sodium » PDB 3vif-3way » 3vio
Atomistry »
  Sodium »
    PDB 3vif-3way »
      3vio »

Sodium in PDB 3vio: Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product

Enzymatic activity of Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product

All present enzymatic activity of Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product:
3.2.1.21;

Protein crystallography data

The structure of Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product, PDB code: 3vio was solved by W.Y.Jeng, C.I.Liu, A.H.J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.20 / 1.12
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 92.954, 68.506, 75.326, 90.00, 95.55, 90.00
R / Rfree (%) 12.9 / 15.1

Other elements in 3vio:

The structure of Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product (pdb code 3vio). 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 Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product, PDB code: 3vio:

Sodium binding site 1 out of 1 in 3vio

Go back to Sodium Binding Sites List in 3vio
Sodium binding site 1 out of 1 in the Crystal Structure of Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product


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 Beta-Glucosidase From Termite Neotermes Koshunensis in Complex with A New Glucopyranosidic Product within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na509

b:14.9
occ:1.00
 O A:HOH870 3.0 21.2 1.0
O A:HOH819 3.2 29.2 1.0
ND2 A:ASN180 3.2 11.0 1.0
NZ A:LYS179 3.3 29.7 1.0
CE A:LYS179 3.8 25.2 1.0
CD A:LYS179 3.9 22.0 1.0
CG2 A:VAL120 4.0 13.1 1.0
CG1 A:VAL176 4.2 9.5 1.0
CG A:ASN180 4.2 10.9 1.0
CG1 A:VAL120 4.2 13.8 1.0
OD1 A:ASN180 4.3 13.2 1.0
CB A:VAL120 4.5 11.2 1.0
CG2 A:VAL176 4.7 9.2 1.0
CB A:VAL176 4.8 8.4 1.0
CG A:LYS179 4.9 15.9 1.0
O A:HOH780 5.0 28.5 1.0
CA A:VAL176 5.0 8.6 1.0

Reference:

W.Y.Jeng, N.C.Wang, C.T.Lin, W.J.Chang, C.I.Liu, A.H.J.Wang. High-Resolution Structures of Neotermes Koshunensis Beta-Glucosidase Mutants Provide Insights Into the Catalytic Mechanism and the Synthesis of Glucoconjugates Acta Crystallogr.,Sect.D V. 68 829 2012.
ISSN: ISSN 0907-4449
PubMed: 22751668
DOI: 10.1107/S0907444912013224
Page generated: Mon Oct 7 13:51:58 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy