Zinc in PDB 3czn: Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN

All present enzymatic activity of Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN:
3.2.1.114;

The structure of Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN, PDB code: 3czn was solved by N.Shah, D.R.Rose, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.54 / 1.40
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	68.926, 109.576, 138.956, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 19.7

The binding sites of Zinc atom in the Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN (pdb code 3czn). 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 Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN, PDB code: 3czn:

Zinc binding site 1 out of 1 in the Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Golgi Alpha-Mannosidase II (D204A Nucleophile Mutant) in Complex with GNMAN5GN within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1102 b:12.2 occ:1.00 OD1 A:ASP92 2.0 11.9 1.0 NE2 A:HIS471 2.1 10.1 1.0 NE2 A:HIS90 2.1 10.3 1.0 O37 A:M5G1103 2.1 13.9 1.0 O27 A:M5G1103 2.4 18.1 1.0 CG A:ASP92 2.8 12.6 1.0 CE1 A:HIS471 3.0 10.3 1.0 OD2 A:ASP92 3.0 16.7 1.0 CD2 A:HIS90 3.1 11.1 1.0 C27 A:M5G1103 3.1 15.8 1.0 CE1 A:HIS90 3.1 10.9 1.0 C37 A:M5G1103 3.1 13.7 1.0 CD2 A:HIS471 3.1 9.9 1.0 OD2 A:ASP472 3.8 11.0 1.0 CB A:ALA204 4.1 11.8 1.0 C47 A:M5G1103 4.1 11.3 1.0 ND1 A:HIS471 4.1 10.8 1.0 ND1 A:HIS90 4.2 11.6 1.0 CG A:HIS90 4.2 10.7 1.0 NE2 A:HIS470 4.2 14.3 1.0 CB A:ASP92 4.2 11.0 1.0 CG A:HIS471 4.2 9.9 1.0 O A:HOH1210 4.4 14.8 1.0 C17 A:M5G1103 4.6 16.1 1.0 OH A:TYR269 4.7 15.4 1.0 OD2 A:ASP341 4.7 15.8 1.0 CA A:ASP92 4.7 11.1 1.0 CG A:ASP472 4.8 11.0 1.0 CE1 A:HIS470 4.9 10.0 1.0 O47 A:M5G1103 4.9 12.2 1.0

N.Shah, D.A.Kuntz, D.R.Rose. Golgi Alpha-Mannosidase II Cleaves Two Sugars Sequentially in the Same Catalytic Site. Proc.Natl.Acad.Sci.Usa V. 105 9570 2008.
ISSN: ISSN 0027-8424
PubMed: 18599462
DOI: 10.1073/PNAS.0802206105