Sodium in PDB 2vx6: Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form

The structure of Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form, PDB code: 2vx6 was solved by A.Cartmell, E.Topakas, V.M.-A.Ducros, M.D.L.Suits, G.J.Davies, H.J.Gilbert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.53 / 1.57
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	84.529, 84.529, 244.322, 90.00, 90.00, 120.00
R / Rfree (%)	10.861 / 13.672

The binding sites of Sodium atom in the Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form (pdb code 2vx6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form, PDB code: 2vx6:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1425 b:8.9 occ:1.00 O A:VAL408 2.2 7.7 1.0 O A:SER405 2.3 8.0 1.0 O A:HOH2649 2.3 13.8 1.0 O A:HOH2671 2.3 23.2 1.0 O A:TYR403 2.4 6.1 1.0 C A:SER405 3.3 6.9 1.0 C A:VAL408 3.4 6.1 1.0 C A:TYR403 3.5 5.7 1.0 C A:GLN404 3.6 7.5 1.0 O A:GLN404 3.7 10.2 1.0 N A:SER405 3.9 6.2 1.0 N A:VAL408 4.1 6.7 1.0 O A:HOH2668 4.1 8.4 1.0 CA A:VAL408 4.1 6.0 1.0 CA A:SER405 4.2 6.9 0.5 CA A:GLN404 4.2 6.8 1.0 CA A:SER405 4.2 7.3 0.5 N A:GLU406 4.3 7.9 1.0 N A:GLN404 4.3 6.6 1.0 CB A:VAL408 4.4 6.1 1.0 CA A:GLU406 4.4 8.1 0.5 CA A:GLU406 4.4 8.4 0.5 N A:LEU409 4.4 5.8 1.0 C A:GLU406 4.4 8.2 1.0 OG A:SER405 4.5 11.1 0.5 O A:GLU406 4.5 10.0 1.0 CA A:TYR403 4.6 6.0 1.0 OE1 A:GLU413 4.6 13.3 1.0 CA A:LEU409 4.7 6.0 1.0 O A:PHE402 4.7 7.1 1.0 O A:HOH2656 4.7 27.2 1.0 O A:HOH2672 4.7 26.3 1.0 CB A:SER405 4.9 6.6 0.5 CD2 A:LEU409 4.9 9.8 1.0 N A:VAL407 5.0 7.6 1.0

Sodium binding site 2 out of 2 in the Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Cellvibrio Japonicus Mannanase CJMAN26C GAL1MAN4-Bound Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1426 b:8.1 occ:1.00 O A:SER365 2.3 7.1 1.0 O A:ARG76 2.3 6.9 1.0 O A:HIS79 2.3 7.3 1.0 O A:ILE367 2.3 5.9 1.0 O A:HOH2607 2.4 13.2 1.0 C A:HIS79 3.3 6.6 1.0 C A:ARG76 3.3 7.8 1.0 C A:SER365 3.5 6.3 1.0 C A:ILE367 3.5 5.2 1.0 CA A:ARG76 3.8 7.8 1.0 C A:GLU366 3.9 6.3 1.0 N A:ILE367 4.0 5.7 1.0 CA A:GLU366 4.0 6.6 0.5 CA A:GLU366 4.0 6.8 0.5 N A:LEU80 4.1 7.5 1.0 N A:HIS79 4.1 7.8 1.0 N A:GLU366 4.2 6.7 1.0 O A:HOH2057 4.2 21.2 1.0 CA A:LEU80 4.2 8.5 1.0 CA A:HIS79 4.3 7.0 1.0 CB A:ARG76 4.3 7.2 1.0 O A:GLU366 4.4 6.8 1.0 CA A:ILE367 4.4 5.8 1.0 CB A:LEU80 4.4 11.1 1.0 N A:TYR77 4.5 7.8 1.0 O A:HOH2059 4.5 30.8 1.0 N A:ALA368 4.5 5.2 1.0 CD1 A:LEU80 4.5 15.7 1.0 CA A:SER365 4.6 7.3 0.5 CA A:SER365 4.6 7.2 0.5 CA A:ALA368 4.6 4.8 1.0 C A:TYR77 4.6 11.0 1.0 O A:TYR77 4.6 13.1 1.0 CG1 A:ILE367 4.7 5.7 1.0 O A:LEU75 4.8 8.7 1.0 CA A:TYR77 4.9 9.6 1.0 N A:LYS78 4.9 10.4 1.0 C A:LYS78 5.0 9.9 1.0 C A:ALA368 5.0 5.0 1.0 CB A:SER365 5.0 7.9 0.5 CB A:SER365 5.0 8.3 0.5

A.Cartmell, E.Topakas, V.M.-A.Ducros, M.D.L.Suits, G.J.Davies, H.J.Gilbert. The Cellvibrio Japonicus Mannanase CJMAN26C Displays A Unique Exo-Mode of Action That Is Conferred By Subtle Changes to the Distal Region of the Active Site. J.Biol.Chem. V. 283 34403 2008.
ISSN: ISSN 0021-9258
PubMed: 18799462
DOI: 10.1074/JBC.M804053200