Magnesium in PDB 3wdq: Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus

All present enzymatic activity of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus:
3.2.1.78;

The structure of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus, PDB code: 3wdq was solved by H.Tsukagoshi, T.Ishida, K.K.Touhara, K.Igarashi, M.Samejima, S.Fushinobu, K.Kitamoto, M.Arioka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.87 / 1.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	45.503, 61.405, 57.806, 90.00, 92.74, 90.00
R / Rfree (%)	14.4 / 16.4

The structure of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Magnesium atom in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus (pdb code 3wdq). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus, PDB code: 3wdq:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:26.0 occ:1.00 O A:HOH873 2.0 37.2 1.0 O A:HOH708 2.0 28.5 1.0 O A:HOH871 2.2 25.4 1.0 O A:HOH709 2.2 24.5 1.0 O A:HOH872 2.5 28.4 1.0 OD2 A:ASP296 4.0 18.2 1.0 O A:HOH614 4.0 24.0 1.0 OE2 A:GLU294 4.1 24.5 0.5 CG A:ASP296 4.5 15.1 1.0 CD A:GLU294 4.6 21.5 0.5 OE1 A:GLU294 4.6 23.9 0.5 OD1 A:ASP296 5.0 15.3 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:17.7 occ:1.00 O A:HOH856 2.0 20.7 1.0 O A:HOH759 2.0 27.6 1.0 O A:HOH762 2.1 25.8 1.0 O A:HOH548 2.1 17.3 1.0 O A:HOH578 2.1 23.1 1.0 O A:HOH857 2.1 22.6 1.0 OD1 A:ASP248 4.1 15.2 1.0 O A:PRO245 4.2 14.7 1.0 OD2 A:ASP248 4.3 19.8 1.0 O A:HOH771 4.4 24.4 1.0 O A:HOH733 4.4 23.9 1.0 O A:HOH745 4.5 22.9 1.0 CG A:ASP248 4.6 15.9 1.0 O A:HOH699 4.6 26.7 1.0 CA A:GLY246 4.8 14.0 1.0

H.Tsukagoshi, A.Nakamura, T.Ishida, K.K.Touhara, M.Otagiri, S.Moriya, M.Samejima, K.Igarashi, S.Fushinobu, K.Kitamoto, M.Arioka. Structural and Biochemical Analyses of Glycoside Hydrolase Family 26 Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus J.Biol.Chem. V. 289 10843 2014.
ISSN: ISSN 0021-9258
PubMed: 24570006
DOI: 10.1074/JBC.M114.555383