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Magnesium in PDB 3wdr: Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide

Enzymatic activity of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide

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

Protein crystallography data

The structure of Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide, PDB code: 3wdr 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) 36.51 / 1.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 45.522, 61.644, 58.068, 90.00, 92.27, 90.00
R / Rfree (%) 13.7 / 16

Other elements in 3wdr:

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

Sodium (Na) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide (pdb code 3wdr). 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 Complexed with Gluco-Manno- Oligosaccharide, PDB code: 3wdr:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3wdr

Go back to Magnesium Binding Sites List in 3wdr
Magnesium binding site 1 out of 2 in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide


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 Complexed with Gluco-Manno- Oligosaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg411

b:12.9
occ:1.00
 O A:HOH789 2.0 13.4 1.0
O A:HOH782 2.1 21.3 1.0
O A:HOH735 2.1 16.3 1.0
O A:HOH784 2.1 23.0 1.0
O A:HOH734 2.1 18.9 1.0
O A:HOH736 2.1 17.1 1.0
OD1 A:ASP248 4.1 10.7 1.0
O A:PRO245 4.2 9.8 1.0
OD2 A:ASP248 4.3 14.1 1.0
O A:HOH691 4.4 22.2 1.0
O A:HOH742 4.4 21.1 1.0
O A:HOH668 4.5 16.9 1.0
CG A:ASP248 4.5 10.6 1.0
O A:HOH705 4.7 25.8 1.0
CA A:GLY246 4.8 8.4 1.0

Magnesium binding site 2 out of 2 in 3wdr

Go back to Magnesium Binding Sites List in 3wdr
Magnesium binding site 2 out of 2 in the Crystal Structure of Beta-Mannanase From A Symbiotic Protist of the Termite Reticulitermes Speratus Complexed with Gluco-Manno- Oligosaccharide


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 Complexed with Gluco-Manno- Oligosaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg412

b:25.9
occ:1.00
 O A:HOH785 2.1 27.6 1.0
O A:HOH781 2.2 20.5 1.0
O A:HOH833 2.2 31.5 1.0
O A:HOH795 2.2 29.1 1.0
O A:HOH737 2.2 20.2 1.0
O A:HOH611 3.8 20.6 1.0
OD2 A:ASP296 4.0 13.4 1.0
OE1 A:GLU294 4.3 26.7 1.0
CG A:ASP296 4.5 10.9 1.0
OE2 A:GLU294 4.6 26.1 1.0
CD A:GLU294 4.7 21.2 1.0

Reference:

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
Page generated: Thu Aug 15 13:23:11 2024

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