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Sodium in PDB 1pox: The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum

Enzymatic activity of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum

All present enzymatic activity of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum:
1.2.3.3;

Protein crystallography data

The structure of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum, PDB code: 1pox was solved by Y.A.Muller, G.E.Schulz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.10
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 121.600, 155.400, 167.100, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / n/a

Other elements in 1pox:

The structure of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum (pdb code 1pox). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum, PDB code: 1pox:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 1pox

Go back to Sodium Binding Sites List in 1pox
Sodium binding site 1 out of 2 in the The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na614

b:11.7
occ:0.50
 OE1 A:GLN455 2.7 10.1 1.0
O A:MET452 2.9 10.0 1.0
O A:HOH617 3.0 7.0 1.0
CD A:GLN455 3.6 7.7 1.0
C A:MET452 3.9 10.2 1.0
NE2 A:GLN455 4.1 6.2 1.0
CD2 A:HIS58 4.2 6.8 1.0
O A:SER451 4.7 9.6 1.0
CA A:THR453 4.7 10.6 1.0
N A:THR453 4.7 10.3 1.0
NE2 A:HIS58 4.7 7.3 1.0
CA A:MET452 4.7 9.9 1.0
CG A:GLN455 4.7 7.5 1.0
CG A:HIS58 5.0 8.7 1.0

Sodium binding site 2 out of 2 in 1pox

Go back to Sodium Binding Sites List in 1pox
Sodium binding site 2 out of 2 in the The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na614

b:11.5
occ:0.50
 OE1 B:GLN455 2.7 8.5 1.0
O B:MET452 2.8 6.6 1.0
O B:HOH623 2.9 5.9 1.0
CD B:GLN455 3.6 6.2 1.0
C B:MET452 3.9 6.7 1.0
NE2 B:GLN455 4.1 4.8 1.0
CD2 B:HIS58 4.3 5.3 1.0
CA B:THR453 4.6 6.8 1.0
N B:THR453 4.6 6.8 1.0
O B:SER451 4.7 9.3 1.0
CA B:MET452 4.7 7.7 1.0
NE2 B:HIS58 4.8 5.3 1.0
CG B:GLN455 4.8 5.7 1.0
CG B:HIS58 4.9 5.5 1.0

Reference:

Y.A.Muller, G.Schumacher, R.Rudolph, G.E.Schulz. The Refined Structures of A Stabilized Mutant and of Wild-Type Pyruvate Oxidase From Lactobacillus Plantarum. J.Mol.Biol. V. 237 315 1994.
ISSN: ISSN 0022-2836
PubMed: 8145244
DOI: 10.1006/JMBI.1994.1233
Page generated: Tue Dec 15 05:33:00 2020

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