Zinc in PDB 7dh1: The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine

All present enzymatic activity of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine:
3.5.4.15;

The structure of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine, PDB code: 7dh1 was solved by W.Xie, Q.Jia, H.Zeng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.35 / 1.85
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	118.776, 118.776, 39.54, 90, 90, 120
R / Rfree (%)	16.3 / 19.9

The binding sites of Zinc atom in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine (pdb code 7dh1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine, PDB code: 7dh1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:25.4 occ:1.00 ND1 A:HIS80 2.0 21.7 1.0 SG A:CYS113 2.2 24.7 1.0 SG A:CYS110 2.3 24.8 1.0 O2 A:4UO202 2.4 30.6 1.0 C2 A:4UO202 2.6 34.3 1.0 CE1 A:HIS80 2.9 24.1 1.0 CG A:HIS80 3.0 24.4 1.0 CB A:CYS113 3.2 21.0 1.0 N1 A:4UO202 3.2 29.2 1.0 N3 A:4UO202 3.3 32.4 1.0 CB A:CYS110 3.4 22.0 1.0 CB A:HIS80 3.5 25.1 1.0 N A:CYS113 3.8 24.9 1.0 N A:CYS110 3.8 25.4 1.0 CE A:MET112 3.9 18.6 1.0 NE2 A:HIS80 4.0 21.0 1.0 CA A:CYS113 4.1 21.0 1.0 C6 A:4UO202 4.1 29.1 1.0 CD2 A:HIS80 4.1 26.8 1.0 CA A:CYS110 4.1 29.7 1.0 C4 A:4UO202 4.2 27.3 1.0 OE1 A:GLU82 4.3 26.6 1.0 C5 A:4UO202 4.5 27.5 1.0 O A:HOH305 4.7 28.4 1.0 C A:CYS110 4.7 26.0 1.0 O A:CYS110 4.7 22.6 1.0 CD A:GLU82 4.8 27.7 1.0 CB A:MET112 4.8 23.0 1.0 C A:PRO109 4.9 28.7 1.0 O6 A:4UO202 4.9 26.4 1.0 C A:MET112 4.9 25.7 1.0 CD1 D:LEU119 5.0 22.2 1.0 CA A:HIS80 5.0 22.4 1.0 O A:HOH328 5.0 28.8 1.0

Zinc binding site 2 out of 2 in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N2-Methylguanosine within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn201 b:23.4 occ:1.00 ND1 D:HIS80 2.1 20.1 1.0 O2 D:4UO202 2.2 25.2 1.0 SG D:CYS110 2.3 24.1 1.0 SG D:CYS113 2.3 23.8 1.0 C2 D:4UO202 2.5 34.6 1.0 CE1 D:HIS80 3.0 24.8 1.0 CB D:CYS113 3.1 21.1 1.0 CG D:HIS80 3.1 24.6 1.0 N1 D:4UO202 3.2 27.0 1.0 N3 D:4UO202 3.2 31.6 1.0 CB D:CYS110 3.3 20.8 1.0 CB D:HIS80 3.5 20.3 1.0 N D:CYS110 3.8 24.5 1.0 N D:CYS113 3.8 20.2 1.0 CE D:MET112 4.0 23.9 1.0 CA D:CYS113 4.1 19.9 1.0 CA D:CYS110 4.1 20.4 1.0 C6 D:4UO202 4.1 24.7 1.0 NE2 D:HIS80 4.1 20.7 1.0 C4 D:4UO202 4.2 27.3 1.0 CD2 D:HIS80 4.2 21.1 1.0 OE1 D:GLU82 4.3 23.9 1.0 C5 D:4UO202 4.5 24.7 1.0 C D:CYS110 4.6 20.9 1.0 O D:HOH303 4.7 30.4 1.0 O D:CYS110 4.7 23.5 1.0 CD D:GLU82 4.9 30.3 1.0 C D:PRO109 4.9 22.1 1.0 CB D:MET112 4.9 22.1 1.0 O6 D:4UO202 4.9 24.0 1.0 O D:HOH345 4.9 31.4 1.0 C D:MET112 4.9 23.6 1.0

W.Xie, Q.Jia, H.Zeng. Asymmetric Catalysis of Arabidopsis Thaliana Guanosine Deaminase Revealed By Crystal Structures To Be Published.