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Zinc in PDB 3mmd: Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose

Enzymatic activity of Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose

All present enzymatic activity of Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose:
3.2.1.8;

Protein crystallography data

The structure of Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose, PDB code: 3mmd was solved by V.Solomon, G.Zolotnitsky, H.Feinberg, O.Tabachnikov, Y.Shoham, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.84 / 1.70
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 123.241, 61.856, 89.066, 90.00, 119.20, 90.00
R / Rfree (%) 21.4 / 23.6

Other elements in 3mmd:

The structure of Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Sodium (Na) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose (pdb code 3mmd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose, PDB code: 3mmd:

Zinc binding site 1 out of 1 in 3mmd

Go back to Zinc Binding Sites List in 3mmd
Zinc binding site 1 out of 1 in the Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the W241A Mutant of Xylanase From Geobacillus Stearothermophilus T-6 (XT6) Complexed with Hydrolyzed Xylopentaose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:18.5
occ:1.00
 OD2 A:ASP365 1.9 18.5 1.0
CL A:CL421 2.0 37.2 1.0
NE2 A:HIS11 2.1 17.4 1.0
CG A:ASP365 2.8 19.7 1.0
CD2 A:HIS11 3.0 20.2 1.0
CE1 A:HIS11 3.1 19.8 1.0
OD1 A:ASP365 3.1 18.2 1.0
O A:HOH806 3.3 29.2 1.0
O A:HOH540 3.9 24.1 1.0
CD A:LYS367 3.9 11.0 0.5
CG A:HIS11 4.1 20.1 1.0
ND1 A:HIS11 4.2 20.7 1.0
CB A:ASP365 4.2 18.3 1.0
CD A:LYS367 4.2 19.6 0.5
O A:HOH763 4.3 25.2 1.0
O A:HOH790 4.4 44.1 1.0
CB A:LYS367 4.5 14.7 0.5
CB A:LYS367 4.5 17.6 0.5
NZ A:LYS367 4.6 11.9 0.5
CG A:LYS367 4.6 13.8 0.5
CE A:LYS367 4.6 11.0 0.5
CG A:LYS367 4.9 18.1 0.5

Reference:

V.Solomon, G.Zolotnitsky, H.Feinberg, O.Tabachnikov, Y.Shoham, G.Shoham. Structural-Based Rational Mutagenesis of Xylanases From G.Stearothermophilus To Be Published.
Page generated: Wed Aug 20 11:53:39 2025

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