Sodium in PDB 2q8x: The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus

All present enzymatic activity of The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus:
3.2.1.8;

The structure of The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus, PDB code: 2q8x was solved by V.Solomon, A.Teplitsky, R.Gilboa, G.Zolotnitsky, G.Golan, V.Reiland, S.Moryles, Y.Shoham, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 1.45
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	169.481, 80.579, 79.054, 90.00, 91.89, 90.00
R / Rfree (%)	15 / 19

The binding sites of Sodium atom in the The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus (pdb code 2q8x). 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 High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus, PDB code: 2q8x:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:25.4 occ:1.00 O A:ASP15 2.2 24.9 1.0 OE1 A:GLN286 2.2 36.9 1.0 O A:ARG282 2.3 25.6 1.0 O A:ILE285 2.4 23.5 1.0 O A:HOH4002 2.5 32.3 1.0 CD A:GLN286 2.9 35.4 1.0 NE2 A:GLN286 3.2 43.2 1.0 C A:ASP15 3.4 23.9 1.0 C A:ARG282 3.4 24.9 1.0 C A:ILE285 3.5 23.1 1.0 CA A:ARG282 3.9 24.7 1.0 CA A:GLN286 3.9 21.8 1.0 O A:HOH4344 4.1 47.7 1.0 N A:GLN286 4.1 21.8 1.0 CG A:GLN286 4.2 30.6 1.0 CB A:ARG282 4.2 26.4 1.0 CA A:ASP15 4.2 24.9 1.0 N A:PHE16 4.3 23.2 1.0 CA A:PHE16 4.4 22.4 1.0 N A:ASP283 4.5 26.1 1.0 CB A:PHE16 4.5 21.9 1.0 N A:ILE285 4.5 22.5 1.0 O A:HOH4317 4.6 38.9 1.0 CA A:ILE285 4.6 22.1 1.0 CD2 A:PHE16 4.7 22.4 1.0 CB A:GLN286 4.7 24.6 1.0 CA A:ASP283 4.7 28.0 1.0 C A:ASP283 4.8 27.1 1.0 C A:GLN286 4.9 20.9 1.0 O A:ASN14 5.0 30.6 1.0 N A:VAL284 5.0 25.3 1.0

Sodium binding site 2 out of 2 in the The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The High-Resolution Crystal Structure of IXT6, A Thermophilic, Intracellular Xylanase From G. Stearothermophilus within 5.0Å range: probe atom residue distance (Å) B Occ B:Na402 b:31.4 occ:1.00 O B:ASP15 2.1 29.2 1.0 O B:ARG282 2.3 36.5 1.0 OE1 B:GLN286 2.3 32.0 0.5 O B:ILE285 2.4 29.6 1.0 O B:HOH4208 2.5 39.6 1.0 CD B:GLN286 2.9 32.4 0.5 NE2 B:GLN286 3.2 37.6 0.5 C B:ASP15 3.3 28.0 1.0 C B:ARG282 3.3 35.5 1.0 C B:ILE285 3.6 29.0 1.0 CA B:ARG282 3.9 33.4 1.0 CA B:GLN286 4.0 27.5 1.0 CA B:ASP15 4.1 29.3 1.0 CB B:ARG282 4.2 35.8 1.0 CG B:GLN286 4.2 31.0 0.5 N B:PHE16 4.3 25.9 1.0 N B:GLN286 4.3 27.7 1.0 CA B:PHE16 4.4 25.0 1.0 N B:ASP283 4.5 38.3 1.0 CG B:GLN286 4.5 30.4 0.5 N B:ILE285 4.5 32.7 1.0 O B:HOH4418 4.5 46.7 1.0 CB B:PHE16 4.6 25.2 1.0 CB B:GLN286 4.6 29.2 0.5 CA B:ILE285 4.6 30.2 1.0 CD2 B:PHE16 4.7 27.5 1.0 CB B:GLN286 4.8 28.8 0.5 CA B:ASP283 4.8 40.3 1.0 C B:ASP283 4.8 40.9 1.0 C B:GLN286 4.9 25.9 1.0 NE2 B:GLN286 5.0 39.1 0.5 O B:ASN14 5.0 37.2 1.0

V.Solomon, A.Teplitsky, S.Shulami, G.Zolotnitsky, Y.Shoham, G.Shoham. Structure-Specificity Relationships of An Intracellular Xylanase From Geobacillus Stearothermophilus Acta Crystallogr.,Sect.D V. 63 845 2007.
ISSN: ISSN 0907-4449
PubMed: 17642511
DOI: 10.1107/S0907444907024845