Zinc in PDB 2x3y: Crystal Structure of Gmha From Burkholderia Pseudomallei

The structure of Crystal Structure of Gmha From Burkholderia Pseudomallei, PDB code: 2x3y was solved by N.J.Harmer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.63 / 2.40
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	47.095, 69.091, 128.148, 98.35, 89.96, 104.19
R / Rfree (%)	18.9 / 24.5

The binding sites of Zinc atom in the Crystal Structure of Gmha From Burkholderia Pseudomallei (pdb code 2x3y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Crystal Structure of Gmha From Burkholderia Pseudomallei, PDB code: 2x3y:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


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 Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1196 b:43.6 occ:0.78 OE2 A:GLU68 2.2 57.3 1.0 NE2 A:HIS183 2.3 29.6 1.0 NE2 A:HIS64 2.3 23.5 1.0 OE1 B:GLN175 2.3 25.1 1.0 CD A:GLU68 2.7 33.0 1.0 OE1 A:GLU68 2.7 49.0 1.0 CD2 A:HIS64 2.9 16.0 1.0 CD2 A:HIS183 3.0 12.9 1.0 CE1 A:HIS183 3.3 17.6 1.0 CD B:GLN175 3.4 34.6 1.0 CE1 A:HIS64 3.5 35.0 1.0 O A:HOH2043 3.7 46.5 1.0 NE2 B:GLN175 3.8 27.1 1.0 CG A:GLU68 4.1 28.4 1.0 CG A:HIS64 4.2 36.1 1.0 CG A:HIS183 4.2 19.8 1.0 ND1 A:HIS183 4.3 30.2 1.0 ND1 A:HIS64 4.4 27.2 1.0 CD1 A:LEU179 4.5 19.5 1.0 CG B:GLN175 4.6 16.8 1.0 CB B:GLN175 4.8 17.8 1.0 CA B:GLY57 4.9 17.4 1.0 CE2 A:PHE73 4.9 25.7 1.0 CA B:PRO172 4.9 20.3 1.0

Zinc binding site 2 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1196 b:48.6 occ:1.00 OE2 B:GLU68 2.1 49.8 1.0 OE1 A:GLN175 2.2 29.5 1.0 NE2 B:HIS183 2.3 13.4 1.0 NE2 B:HIS64 2.3 29.4 1.0 CD B:GLU68 2.7 24.8 1.0 OE1 B:GLU68 2.8 48.0 1.0 CD2 B:HIS64 2.9 9.4 1.0 CD2 B:HIS183 3.0 10.4 1.0 CE1 B:HIS183 3.3 24.6 1.0 CD A:GLN175 3.3 25.6 1.0 CE1 B:HIS64 3.5 37.0 1.0 NE2 A:GLN175 3.8 20.5 1.0 CG B:GLU68 4.0 28.1 1.0 CG B:HIS183 4.2 23.2 1.0 CG B:HIS64 4.2 38.4 1.0 ND1 B:HIS183 4.3 35.6 1.0 ND1 B:HIS64 4.5 39.7 1.0 CG A:GLN175 4.6 18.2 1.0 CD1 B:LEU179 4.6 20.4 1.0 CB A:GLN175 4.7 14.3 1.0 CA A:GLY57 4.7 14.6 1.0 CA A:PRO172 4.7 25.0 1.0 CE2 B:PHE73 4.9 25.7 1.0

Zinc binding site 3 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1196 b:61.4 occ:0.91 OE2 C:GLU68 2.1 58.1 1.0 NE2 C:HIS64 2.2 33.6 1.0 OE1 D:GLN175 2.3 35.5 1.0 NE2 C:HIS183 2.5 32.7 1.0 CD C:GLU68 2.7 30.8 1.0 CD2 C:HIS64 2.8 13.8 1.0 OE1 C:GLU68 2.8 43.1 1.0 CD2 C:HIS183 3.2 21.2 1.0 CD D:GLN175 3.3 37.6 1.0 CE1 C:HIS64 3.4 32.8 1.0 CE1 C:HIS183 3.6 28.4 1.0 NE2 D:GLN175 3.7 26.6 1.0 CG C:GLU68 4.0 35.0 1.0 CG C:HIS64 4.1 31.6 1.0 ND1 C:HIS64 4.3 36.2 1.0 CG C:HIS183 4.5 25.9 1.0 ND1 C:HIS183 4.6 38.5 1.0 CA D:GLY57 4.6 20.6 1.0 CG D:GLN175 4.6 17.2 1.0 CD1 C:LEU179 4.6 25.1 1.0 CB D:GLN175 4.8 16.7 1.0

Zinc binding site 4 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1196 b:48.3 occ:0.93 OE2 D:GLU68 2.1 57.1 1.0 NE2 D:HIS183 2.3 20.0 1.0 NE2 D:HIS64 2.4 35.2 1.0 OE1 C:GLN175 2.4 29.6 1.0 CD D:GLU68 2.7 30.3 1.0 OE1 D:GLU68 2.8 47.7 1.0 CD2 D:HIS64 2.9 10.9 1.0 CD2 D:HIS183 3.0 13.3 1.0 CE1 D:HIS183 3.4 27.9 1.0 CD C:GLN175 3.5 31.8 1.0 CE1 D:HIS64 3.6 33.9 1.0 NE2 C:GLN175 3.9 16.4 1.0 CG D:GLU68 4.1 25.8 1.0 CG D:HIS183 4.2 29.6 1.0 CG D:HIS64 4.2 40.1 1.0 ND1 D:HIS183 4.3 35.3 1.0 ND1 D:HIS64 4.5 38.6 1.0 CD1 D:LEU179 4.6 28.3 1.0 CG C:GLN175 4.8 19.9 1.0 CE2 D:PHE73 4.9 21.3 1.0 CB C:GLN175 4.9 15.7 1.0 CA C:GLY57 4.9 14.1 1.0 CA C:PRO172 4.9 15.0 1.0

Zinc binding site 5 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn1196 b:42.4 occ:0.96 OE2 E:GLU68 2.1 58.7 1.0 OE1 F:GLN175 2.2 30.4 1.0 NE2 E:HIS183 2.3 20.8 1.0 NE2 E:HIS64 2.4 34.0 1.0 CD E:GLU68 2.8 38.0 1.0 OE1 E:GLU68 2.9 46.4 1.0 CD2 E:HIS183 3.1 9.2 1.0 CD2 E:HIS64 3.1 15.0 1.0 CD F:GLN175 3.2 33.5 1.0 CE1 E:HIS183 3.3 23.3 1.0 NE2 F:GLN175 3.6 23.6 1.0 CE1 E:HIS64 3.6 37.6 1.0 CG E:GLU68 4.1 32.1 1.0 CG E:HIS183 4.2 33.6 1.0 ND1 E:HIS183 4.3 41.0 1.0 CG E:HIS64 4.3 34.7 1.0 CG F:GLN175 4.5 22.6 1.0 ND1 E:HIS64 4.6 41.5 1.0 CB F:GLN175 4.7 14.1 1.0 CD1 E:LEU179 4.7 18.1 1.0 CA F:PRO172 4.8 13.4 1.0 CE2 E:PHE73 4.8 27.4 1.0 CA F:GLY57 4.9 14.3 1.0

Zinc binding site 6 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn1196 b:54.2 occ:0.83 OE2 F:GLU68 2.2 59.3 1.0 OE1 E:GLN175 2.2 35.2 1.0 NE2 F:HIS64 2.3 33.5 1.0 NE2 F:HIS183 2.4 16.4 1.0 CD F:GLU68 2.8 39.6 1.0 OE1 F:GLU68 2.9 49.2 1.0 CD2 F:HIS64 2.9 17.9 1.0 CD2 F:HIS183 3.2 15.3 1.0 CD E:GLN175 3.3 29.9 1.0 CE1 F:HIS183 3.4 29.0 1.0 CE1 F:HIS64 3.5 40.5 1.0 NE2 E:GLN175 3.7 28.9 1.0 CG F:GLU68 4.1 30.9 1.0 CG F:HIS64 4.2 30.5 1.0 CG F:HIS183 4.4 25.4 1.0 ND1 F:HIS183 4.4 35.6 1.0 ND1 F:HIS64 4.5 33.5 1.0 CG E:GLN175 4.5 22.1 1.0 CD1 F:LEU179 4.6 21.9 1.0 CB E:GLN175 4.7 17.9 1.0 CA E:GLY57 4.8 22.7 1.0 CA E:PRO172 4.9 25.4 1.0 CE2 F:PHE73 4.9 36.9 1.0

Zinc binding site 7 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn1196 b:57.6 occ:0.97 OE2 G:GLU68 2.0 56.2 1.0 OE1 H:GLN175 2.3 33.8 1.0 NE2 G:HIS183 2.3 21.2 1.0 NE2 G:HIS64 2.4 35.1 1.0 CD G:GLU68 2.6 26.1 1.0 OE1 G:GLU68 2.7 43.7 1.0 CD2 G:HIS64 3.0 12.5 1.0 CD2 G:HIS183 3.0 13.5 1.0 CD H:GLN175 3.3 31.3 1.0 CE1 G:HIS183 3.3 31.9 1.0 CE1 G:HIS64 3.7 41.7 1.0 NE2 H:GLN175 3.8 17.4 1.0 CG G:GLU68 4.0 27.2 1.0 CG G:HIS183 4.2 25.7 1.0 ND1 G:HIS183 4.3 39.0 1.0 CG G:HIS64 4.3 34.8 1.0 ND1 G:HIS64 4.6 41.2 1.0 CG H:GLN175 4.6 23.0 1.0 CA H:PRO172 4.7 21.7 1.0 CB H:GLN175 4.8 16.6 1.0 CD1 G:LEU179 4.8 25.1 1.0 CA H:GLY57 4.8 26.4 1.0 CE2 G:PHE73 4.8 30.8 1.0

Zinc binding site 8 out of 8 in the Crystal Structure of Gmha From Burkholderia Pseudomallei


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of Gmha From Burkholderia Pseudomallei within 5.0Å range: probe atom residue distance (Å) B Occ H:Zn1196 b:48.2 occ:0.85 OE2 H:GLU68 2.1 56.1 1.0 OE1 G:GLN175 2.3 21.1 1.0 NE2 H:HIS183 2.3 33.4 1.0 NE2 H:HIS64 2.4 33.1 1.0 CD H:GLU68 2.7 34.0 1.0 OE1 H:GLU68 2.8 42.2 1.0 CD2 H:HIS64 3.0 19.8 1.0 CD2 H:HIS183 3.1 17.7 1.0 CD G:GLN175 3.3 31.6 1.0 CE1 H:HIS183 3.3 22.5 1.0 CE1 H:HIS64 3.6 33.7 1.0 O H:HOH2025 3.6 48.6 1.0 NE2 G:GLN175 3.8 26.2 1.0 CG H:GLU68 4.1 32.7 1.0 CG H:HIS64 4.3 33.5 1.0 CG H:HIS183 4.3 23.5 1.0 ND1 H:HIS183 4.4 29.7 1.0 ND1 H:HIS64 4.5 31.8 1.0 CD1 H:LEU179 4.6 24.6 1.0 CG G:GLN175 4.6 23.2 1.0 CB G:GLN175 4.7 11.5 1.0 CA G:PRO172 4.8 18.6 1.0 CA G:GLY57 4.8 25.1 1.0 CE2 H:PHE73 4.9 35.5 1.0

N.J.Harmer, N.J.Harmer. N/A N/A.
ISSN: ISSN 0022-2836
PubMed: 20447408
DOI: 10.1016/J.JMB.2010.04.058