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Sodium in PDB 4k7y: OYE1-W116T

Enzymatic activity of OYE1-W116T

All present enzymatic activity of OYE1-W116T:
1.6.99.1;

Protein crystallography data

The structure of OYE1-W116T, PDB code: 4k7y was solved by B.Sullivan, Y.A.Pompeu, J.D.Stewart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.59 / 1.20
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 141.327, 141.327, 42.832, 90.00, 90.00, 90.00
R / Rfree (%) 11.5 / 13.5

Other elements in 4k7y:

The structure of OYE1-W116T also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the OYE1-W116T (pdb code 4k7y). 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 OYE1-W116T, PDB code: 4k7y:

Sodium binding site 1 out of 1 in 4k7y

Go back to Sodium Binding Sites List in 4k7y
Sodium binding site 1 out of 1 in the OYE1-W116T


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of OYE1-W116T within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na410

b:30.0
occ:0.64
HE1 A:TRP52 2.2 13.9 1.0
O2 A:PEG405 2.8 21.1 0.6
O4 A:PEG405 2.9 21.1 0.6
NE1 A:TRP52 3.0 11.6 1.0
O1 A:PEG405 3.0 21.1 0.6
C1 A:PEG405 3.3 21.1 0.6
C2 A:PEG405 3.7 21.1 0.6
C3 A:PEG405 3.7 21.1 0.6
HD1 A:TRP52 3.8 13.3 1.0
HB3 A:ASP51 3.8 13.0 1.0
CD1 A:TRP52 3.8 11.1 1.0
C4 A:PEG405 3.9 21.1 0.6
CE2 A:TRP52 4.1 11.3 1.0
HZ2 A:TRP52 4.1 14.2 1.0
CZ2 A:TRP52 4.5 11.8 1.0
HB2 A:ALA379 4.6 12.3 1.0
CB A:ASP51 4.7 10.8 1.0
HB2 A:ASP51 5.0 13.0 1.0

Reference:

Y.A.Pompeu, B.Sullivan, J.D.Stewart. X‑Ray Crystallography Reveals How Subtle Changes Control the Orientation of Substrate Binding in An Alkene Reductase Acs Catalysis V. 3 2376 2013.
ISSN: ESSN 2155-5435
DOI: 10.1021/CS400622E
Page generated: Tue Dec 15 06:49:23 2020

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