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Sodium in PDB 4qce: Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27

Enzymatic activity of Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27

All present enzymatic activity of Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27:
3.2.1.8;

Protein crystallography data

The structure of Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27, PDB code: 4qce was solved by P.Mahanta, A.Bhardwaj, V.S.Reddy, S.Ramakumar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.68 / 2.32
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 54.770, 75.650, 176.910, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 22.7

Other elements in 4qce:

The structure of Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 (pdb code 4qce). 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 Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27, PDB code: 4qce:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 4qce

Go back to Sodium Binding Sites List in 4qce
Sodium binding site 1 out of 2 in the Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27


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 Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na402

b:18.5
occ:1.00
O A:HOH731 2.1 19.5 1.0
O A:SER18 2.2 19.1 1.0
O A:ASP302 2.3 19.4 1.0
O A:HOH592 2.3 20.2 1.0
O A:LEU305 2.5 17.0 1.0
O A:HOH658 2.7 30.9 1.0
C A:SER18 3.4 18.4 1.0
C A:ASP302 3.4 19.9 1.0
C A:LEU305 3.6 16.2 1.0
CA A:SER306 4.0 14.9 1.0
CA A:ASP302 4.1 19.4 1.0
CB A:ASP302 4.1 19.6 1.0
CA A:SER18 4.2 19.6 1.0
N A:SER306 4.2 15.3 1.0
N A:PHE19 4.4 16.9 1.0
O A:HOH668 4.4 24.9 1.0
N A:LEU305 4.4 17.6 1.0
N A:ALA303 4.4 20.9 1.0
CA A:PHE19 4.5 15.7 1.0
CA A:LEU305 4.6 16.5 1.0
O A:HOH623 4.6 21.8 1.0
CB A:PHE19 4.7 15.3 1.0
CA A:ALA303 4.7 21.4 1.0
O A:HOH580 4.8 30.4 1.0
C A:ALA303 4.8 20.9 1.0
O A:GLU17 4.9 22.5 1.0
CB A:SER306 4.9 14.9 1.0
C A:SER306 5.0 14.2 1.0
CG A:ASP302 5.0 20.5 1.0
O A:ALA303 5.0 21.0 1.0

Sodium binding site 2 out of 2 in 4qce

Go back to Sodium Binding Sites List in 4qce
Sodium binding site 2 out of 2 in the Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27


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 Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na402

b:28.2
occ:1.00
O B:SER18 2.3 23.0 1.0
O B:ASP302 2.3 25.2 1.0
O B:LEU305 2.6 20.1 1.0
O B:HOH597 2.6 24.0 1.0
C B:ASP302 3.5 25.2 1.0
C B:SER18 3.5 22.5 1.0
C B:LEU305 3.5 19.6 1.0
CA B:SER306 3.9 18.6 1.0
N B:SER306 4.1 18.8 1.0
CA B:ASP302 4.1 25.0 1.0
CB B:ASP302 4.2 25.0 1.0
CA B:SER18 4.3 23.6 1.0
N B:LEU305 4.4 21.4 1.0
N B:PHE19 4.5 21.4 1.0
N B:ALA303 4.5 25.6 1.0
CA B:PHE19 4.6 20.1 1.0
CA B:LEU305 4.6 20.2 1.0
CB B:PHE19 4.7 19.5 1.0
CA B:ALA303 4.7 25.9 1.0
CB B:SER306 4.8 18.7 1.0
C B:SER306 4.8 17.6 1.0
C B:ALA303 4.9 25.2 1.0
O B:GLU17 4.9 26.4 1.0
O B:SER306 5.0 17.5 1.0

Reference:

P.Mahanta, A.Bhardwaj, K.Kumar, V.S.Reddy, S.Ramakumar. Crystal Structure of Recombinant Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 To Be Published.
Page generated: Tue Dec 15 07:05:14 2020

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