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Sodium in PDB 5eff: Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27

Enzymatic activity of Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27

All present enzymatic activity of Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27:
3.2.1.8;

Protein crystallography data

The structure of Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27, PDB code: 5eff 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) 90.77 / 2.23
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 52.620, 67.710, 181.540, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 24

Other elements in 5eff:

The structure of Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 (pdb code 5eff). 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 An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27, PDB code: 5eff:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 5eff

Go back to Sodium Binding Sites List in 5eff
Sodium binding site 1 out of 2 in the Crystal Structure of An Aromatic Mutant (F4A) of An 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 An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na402

b:16.3
occ:1.00
 O A:ASP302 2.3 15.5 1.0
O A:SER18 2.4 11.1 1.0
O A:LEU305 2.4 7.9 1.0
C A:LEU305 3.4 8.1 1.0
C A:ASP302 3.4 15.7 1.0
C A:SER18 3.6 11.4 1.0
CA A:SER306 3.9 7.2 1.0
N A:SER306 4.0 7.5 1.0
CA A:ASP302 4.1 16.0 1.0
CB A:ASP302 4.3 16.4 1.0
N A:LEU305 4.3 10.3 1.0
CA A:LEU305 4.5 9.0 1.0
CA A:SER18 4.5 12.6 1.0
N A:ALA303 4.5 15.4 1.0
N A:PHE19 4.5 10.6 1.0
CA A:PHE19 4.5 9.8 1.0
CB A:PHE19 4.5 9.3 1.0
C A:ALA303 4.6 15.5 1.0
CA A:ALA303 4.7 15.7 1.0
O A:ALA303 4.8 15.5 1.0
C A:SER306 4.8 6.8 1.0
CB A:SER306 4.9 7.2 1.0
CD2 A:PHE19 4.9 8.9 1.0
N A:ASP304 4.9 14.5 1.0
O A:SER306 5.0 6.7 1.0

Sodium binding site 2 out of 2 in 5eff

Go back to Sodium Binding Sites List in 5eff
Sodium binding site 2 out of 2 in the Crystal Structure of An Aromatic Mutant (F4A) of An 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 An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na402

b:13.8
occ:1.00
 O B:SER18 2.2 9.2 1.0
O B:ASP302 2.3 9.2 1.0
O B:LEU305 2.4 7.2 1.0
C B:SER18 3.4 9.6 1.0
C B:LEU305 3.4 7.1 1.0
C B:ASP302 3.5 9.5 1.0
CA B:SER306 3.9 6.0 1.0
N B:SER306 4.1 6.3 1.0
CA B:ASP302 4.1 9.6 1.0
CB B:ASP302 4.2 9.9 1.0
CA B:SER18 4.3 10.6 1.0
N B:PHE19 4.3 8.7 1.0
N B:LEU305 4.4 8.0 1.0
CA B:PHE19 4.4 8.0 1.0
CA B:LEU305 4.5 7.5 1.0
N B:ALA303 4.5 9.9 1.0
CB B:PHE19 4.5 7.9 1.0
O B:HOH559 4.6 16.1 1.0
CA B:ALA303 4.7 10.5 1.0
C B:SER306 4.7 5.6 1.0
C B:ALA303 4.8 11.0 1.0
CD2 B:PHE19 4.8 7.8 1.0
CB B:SER306 4.8 6.0 1.0
O B:SER306 5.0 5.4 1.0
O B:ALA303 5.0 12.5 1.0

Reference:

P.Mahanta, A.Bhardwaj, V.S.Reddy, S.Ramakumar. Crystal Structure of An Aromatic Mutant (F4A) of An Alkali Thermostable GH10 Xylanase From Bacillus Sp. Ng-27 To Be Published.
Page generated: Tue Dec 15 10:56:14 2020

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