Zinc in PDB 2y3g: Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs

The structure of Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs, PDB code: 2y3g was solved by J.Trepreau, E.Girard, A.P.Maillard, E.De Rosny, I.Petit-Haertlein, R.Kahn, J.Coves, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.666 / 1.91
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	31.896, 81.809, 93.336, 90.00, 90.47, 90.00
R / Rfree (%)	18.73 / 23.82

The structure of Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

The binding sites of Zinc atom in the Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs (pdb code 2y3g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs, PDB code: 2y3g:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn150 b:40.7 occ:0.60 NE2 A:HIS46 2.0 69.1 0.6 OE1 A:GLU63 2.2 35.9 1.0 NE2 A:HIS42 2.3 71.0 1.0 NE2 A:HIS119 2.5 32.5 1.0 OE2 A:GLU63 2.5 40.8 1.0 CE1 A:HIS46 2.6 68.3 0.6 CD A:GLU63 2.7 45.9 1.0 CD2 A:HIS42 2.7 67.5 1.0 CD2 A:HIS46 3.1 65.9 0.6 CD2 A:HIS119 3.1 32.1 1.0 CE1 A:HIS42 3.5 73.2 1.0 CE1 A:HIS119 3.6 27.4 1.0 ND1 A:HIS46 3.7 65.3 0.6 SE A:MSE123 3.8 47.6 0.8 CG A:HIS46 4.0 65.7 0.6 CE A:MSE123 4.0 6.8 0.2 CG A:HIS42 4.0 67.1 1.0 CG A:GLU63 4.2 33.5 1.0 CD2 A:PHE66 4.2 29.1 1.0 CE A:MSE123 4.3 14.5 0.8 ND1 A:HIS42 4.4 69.9 1.0 CG A:HIS119 4.4 25.1 1.0 CE2 A:PHE66 4.6 37.8 1.0 ND1 A:HIS119 4.6 31.1 1.0 CB A:GLU63 4.9 28.0 1.0 CG A:MSE123 4.9 27.8 0.2 O A:HIS42 4.9 54.2 1.0 ND1 A:HIS46 5.0 68.0 0.4 CG A:MSE123 5.0 29.7 0.8

Zinc binding site 2 out of 3 in the Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn150 b:36.4 occ:0.40 OE2 B:GLU63 2.1 48.6 1.0 NE2 B:HIS42 2.1 67.5 1.0 NE2 B:HIS46 2.1 29.2 0.4 NE2 B:HIS119 2.3 29.1 1.0 CD2 B:HIS42 2.5 70.9 1.0 CD B:GLU63 2.7 55.0 1.0 OE1 B:GLU63 2.7 51.7 1.0 CD2 B:HIS46 2.8 32.3 0.4 CD2 B:HIS119 3.0 31.2 1.0 CE1 B:HIS46 3.3 34.6 0.4 CE1 B:HIS42 3.3 65.2 1.0 CE1 B:HIS119 3.5 31.8 1.0 SE B:MSE123 3.6 37.9 0.5 CG B:HIS42 3.8 66.3 1.0 SE B:MSE123 4.0 40.5 0.3 CE B:MSE123 4.0 21.1 0.5 CG B:HIS46 4.1 39.2 0.4 CG B:GLU63 4.1 51.4 1.0 ND1 B:HIS42 4.2 64.1 1.0 CD2 B:PHE66 4.2 30.9 1.0 CG B:HIS119 4.2 26.8 1.0 ND1 B:HIS46 4.3 33.1 0.4 CE B:MSE123 4.3 12.2 0.2 ND1 B:HIS119 4.4 25.7 1.0 CE2 B:PHE66 4.6 38.4 1.0 CG B:MSE123 4.8 24.9 0.2 SE B:MSE123 4.9 41.5 0.2 CG B:MSE123 4.9 25.0 0.3 CG B:MSE123 4.9 24.1 0.5

Zinc binding site 3 out of 3 in the Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Se-Met Form of Cupriavidus Metallidurans CH34 Cnrxs within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn150 b:47.1 occ:0.25 OE1 C:GLU63 2.2 77.1 1.0 NE2 C:HIS42 2.4 58.6 1.0 NE2 C:HIS119 2.5 41.3 1.0 NE2 C:HIS46 2.5 70.4 0.6 SE C:MSE123 2.7 61.6 0.6 CD C:GLU63 2.8 80.2 1.0 CD2 C:HIS42 2.9 56.2 1.0 CD2 C:HIS119 3.2 35.2 1.0 CD2 C:HIS46 3.3 67.6 0.6 OE2 C:GLU63 3.3 86.5 1.0 CE1 C:HIS119 3.5 42.3 1.0 CE1 C:HIS46 3.5 73.2 0.6 CE1 C:HIS42 3.6 63.4 1.0 CG C:GLU63 3.6 72.9 1.0 CG C:MSE123 3.6 33.3 0.6 CG C:MSE123 3.7 25.9 0.4 CE C:MSE123 3.8 27.8 0.6 SE C:MSE123 4.0 48.0 0.4 CG C:HIS42 4.2 51.9 1.0 O C:HOH2009 4.4 46.8 1.0 CG C:HIS119 4.4 31.2 1.0 ND1 C:HIS42 4.5 59.8 1.0 CG C:HIS46 4.5 67.7 0.6 ND1 C:HIS119 4.5 29.9 1.0 ND1 C:HIS46 4.6 72.5 0.6 CB C:GLU63 4.7 62.4 1.0 CA C:GLU63 4.9 46.4 1.0 CB C:MSE123 4.9 30.6 0.4 CD2 C:PHE66 5.0 35.0 1.0

J.Trepreau, E.Girard, A.P.Maillard, E.De Rosny, I.Petit-Haertlein, R.Kahn, J.Coves. Structural Basis For Metal Sensing By Cnrx. J.Mol.Biol. V. 408 766 2011.
ISSN: ISSN 0022-2836
PubMed: 21414325
DOI: 10.1016/J.JMB.2011.03.014