Zinc in PDB 1odz: Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides

All present enzymatic activity of Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides:
3.2.1.78;

The structure of Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides, PDB code: 1odz was solved by M.Jahn, D.Stoll, R.A.J.Warren, L.Szabo, P.Singh, H.J.Gilbert, V.M.A.Ducros, G.J.Davies, S.G.Withers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.40
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	131.855, 131.855, 54.268, 90.00, 90.00, 90.00
R / Rfree (%)	15.1 / 17.7

The structure of Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Zinc atom in the Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides (pdb code 1odz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides, PDB code: 1odz:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1423 b:13.2 occ:1.00 NE2 A:HIS71 2.0 11.7 1.0 N A:TRS1424 2.0 14.3 1.0 OE2 A:GLU67 2.0 14.0 1.0 O3 A:TRS1424 2.4 13.1 1.0 C A:TRS1424 3.0 14.7 1.0 CD A:GLU67 3.0 13.8 1.0 CD2 A:HIS71 3.0 12.4 1.0 CE1 A:HIS71 3.0 12.7 1.0 C3 A:TRS1424 3.2 15.2 1.0 OE1 A:GLU67 3.3 15.3 1.0 C2 A:TRS1424 3.4 15.0 1.0 O2 A:TRS1424 3.8 15.5 1.0 O A:HOH2036 4.0 25.4 1.0 ND1 A:HIS71 4.1 12.1 1.0 CG A:HIS71 4.1 12.2 1.0 O A:HOH2483 4.3 14.8 1.0 C1 A:TRS1424 4.3 15.8 1.0 CG A:GLU67 4.4 13.7 1.0 O A:GLU67 4.5 14.2 1.0 O A:HOH2029 4.6 21.4 1.0 O A:HOH2034 4.9 22.7 1.0

Zinc binding site 2 out of 2 in the Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Expansion of the Glycosynthase Repertoire to Produce Defined Manno- Oligosaccharides within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1423 b:13.7 occ:1.00 OE2 B:GLU67 2.0 13.6 1.0 NE2 B:HIS71 2.0 12.8 1.0 N B:TRS1426 2.0 14.7 1.0 O3 B:TRS1426 2.4 14.1 1.0 C B:TRS1426 3.0 15.7 1.0 CD B:GLU67 3.0 13.6 1.0 CE1 B:HIS71 3.0 11.7 1.0 CD2 B:HIS71 3.0 12.0 1.0 C3 B:TRS1426 3.2 15.5 1.0 OE1 B:GLU67 3.3 14.8 1.0 C2 B:TRS1426 3.3 16.0 1.0 O2 B:TRS1426 3.8 15.6 1.0 ND1 B:HIS71 4.1 12.6 1.0 O B:HOH2038 4.1 21.2 1.0 CG B:HIS71 4.1 11.9 1.0 O B:HOH2539 4.2 14.5 1.0 C1 B:TRS1426 4.3 16.0 1.0 CG B:GLU67 4.3 14.3 1.0 O B:GLU67 4.4 14.7 1.0 O B:HOH2032 4.6 24.0 1.0

M.Jahn, D.Stoll, R.A.J.Warren, L.Szabo, P.Singh, H.J.Gilbert, V.M.A.Ducros, G.J.Davies, S.G.Withers. Expansion of the Glycosynthase Repertoire to Produce Defined Manno-Oligosaccharides Chem.Commun.(Camb.) V. 12 1327 2003.
ISSN: ISSN 1359-7345
PubMed: 12841226
DOI: 10.1039/B302380J