Atomistry » Sodium » PDB 5gwl-5hn2 » 5hi0
Atomistry »
  Sodium »
    PDB 5gwl-5hn2 »
      5hi0 »

Sodium in PDB 5hi0: The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase

Enzymatic activity of The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase

All present enzymatic activity of The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase:
4.1.1.2;

Protein crystallography data

The structure of The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase, PDB code: 5hi0 was solved by W.Zhu, L.M.Easthon, L.A.Reinhardt, C.Tu, S.E.Cohen, D.N.Silverman, K.N.Allen, N.G.J.Richards, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.78 / 2.60
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 154.619, 154.619, 121.954, 90.00, 90.00, 120.00
R / Rfree (%) 17.5 / 22.4

Other elements in 5hi0:

The structure of The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase also contains other interesting chemical elements:

Cobalt (Co) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase (pdb code 5hi0). 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 The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase, PDB code: 5hi0:

Sodium binding site 1 out of 1 in 5hi0

Go back to Sodium Binding Sites List in 5hi0
Sodium binding site 1 out of 1 in the The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Substrate Binding Mode and Chemical Basis of A Reaction Specificity Switch in Oxalate Decarboxylase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na404

b:52.5
occ:1.00
O A:HOH543 3.0 42.0 1.0
CD A:GLU197 4.3 43.7 1.0
OD1 A:ASP169 4.3 37.2 1.0
CG A:GLU197 4.5 43.1 1.0
OE2 A:GLU197 4.5 39.8 1.0
OE1 A:GLU197 4.5 41.7 1.0
OD2 A:ASP169 4.6 34.0 1.0
CG A:ASP169 4.7 37.5 1.0

Reference:

W.Zhu, L.M.Easthon, L.A.Reinhardt, C.Tu, S.E.Cohen, D.N.Silverman, K.N.Allen, N.G.Richards. Substrate Binding Mode and Molecular Basis of A Specificity Switch in Oxalate Decarboxylase. Biochemistry V. 55 2163 2016.
ISSN: ISSN 0006-2960
PubMed: 27014926
DOI: 10.1021/ACS.BIOCHEM.6B00043
Page generated: Tue Dec 15 11:03:17 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