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Sodium in PDB 5xc1: Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol

Enzymatic activity of Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol

All present enzymatic activity of Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol:
3.2.1.8;

Protein crystallography data

The structure of Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol, PDB code: 5xc1 was solved by H.Bansia, P.Mahanta, S.Ramakumar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.01 / 2.26
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.000, 75.730, 176.600, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 22.7

Other elements in 5xc1:

The structure of Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol (pdb code 5xc1). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol, PDB code: 5xc1:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 5xc1

Go back to Sodium Binding Sites List in 5xc1
Sodium binding site 1 out of 2 in the Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol


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 the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na403

b:20.0
occ:1.00
 O A:ASP302 2.2 19.8 1.0
O A:SER18 2.2 15.8 1.0
O A:HOH697 2.2 28.1 1.0
O A:HOH685 2.3 25.0 1.0
O A:LEU305 2.4 16.0 1.0
C A:ASP302 3.3 19.8 1.0
C A:SER18 3.4 15.8 1.0
C A:LEU305 3.5 15.3 1.0
CA A:SER306 4.0 14.1 1.0
CA A:ASP302 4.0 19.4 1.0
CB A:ASP302 4.0 20.2 1.0
N A:SER306 4.1 14.9 1.0
CA A:SER18 4.2 17.0 1.0
N A:PHE19 4.4 14.6 1.0
N A:LEU305 4.4 16.3 1.0
N A:ALA303 4.4 18.9 1.0
O A:HOH532 4.5 31.5 1.0
CA A:LEU305 4.5 15.3 1.0
O A:HOH601 4.5 20.1 1.0
CA A:PHE19 4.6 13.8 1.0
CB A:PHE19 4.6 13.6 1.0
CA A:ALA303 4.7 19.7 1.0
C A:ALA303 4.7 20.7 1.0
CG A:ASP302 4.8 21.2 1.0
C A:SER306 4.9 13.2 1.0
CB A:SER306 4.9 14.4 1.0
O A:GLU17 4.9 20.8 1.0
O A:ALA303 4.9 20.9 1.0
CD2 A:PHE19 4.9 13.8 1.0

Sodium binding site 2 out of 2 in 5xc1

Go back to Sodium Binding Sites List in 5xc1
Sodium binding site 2 out of 2 in the Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2- Propanediol within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na403

b:22.5
occ:1.00
 O B:SER18 2.2 19.0 1.0
O B:ASP302 2.2 30.0 1.0
O B:HOH652 2.4 26.0 1.0
O B:LEU305 2.4 18.1 1.0
C B:ASP302 3.3 31.7 1.0
C B:SER18 3.3 19.1 1.0
C B:LEU305 3.5 17.6 1.0
CA B:ASP302 3.9 33.4 1.0
CB B:ASP302 4.0 33.8 1.0
CA B:SER306 4.0 15.3 1.0
CA B:SER18 4.2 20.6 1.0
N B:SER306 4.2 16.0 1.0
N B:PHE19 4.3 18.1 1.0
N B:ALA303 4.4 29.9 1.0
N B:LEU305 4.4 20.2 1.0
CA B:PHE19 4.5 17.0 1.0
O B:HOH569 4.5 26.7 1.0
CB B:PHE19 4.5 17.6 1.0
CA B:LEU305 4.6 19.1 1.0
O B:HOH559 4.6 26.5 1.0
CA B:ALA303 4.7 28.6 1.0
CG B:ASP302 4.8 34.4 1.0
C B:ALA303 4.8 26.9 1.0
CD2 B:PHE19 4.8 18.6 1.0
C B:SER306 4.8 15.1 1.0
CB B:SER306 4.9 15.1 1.0
O B:ALA303 5.0 27.2 1.0
O B:GLU17 5.0 26.2 1.0

Reference:

H.Bansia, P.Mahanta, S.Ramakumar. Crystal Structure of the Complex of An Aromatic Mutant (W6A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 with S-1,2-Propanediol To Be Published.
Page generated: Tue Dec 15 11:49:43 2020

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