Zinc in PDB 7dlc: The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N1-Methylguanosine

All present enzymatic activity of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N1-Methylguanosine:
3.5.4.15;

The structure of The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N1-Methylguanosine, PDB code: 7dlc 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)	24.03 / 2.45
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	120.102, 120.102, 40.087, 90, 90, 120
R / Rfree (%)	17 / 21.7

The binding sites of Zinc atom in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N1-Methylguanosine (pdb code 7dlc). 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 N1-Methylguanosine, PDB code: 7dlc:
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 N1-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 N1-Methylguanosine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:22.6 occ:1.00 O A:HOH326 1.6 22.4 1.0 ND1 A:HIS80 2.1 21.6 1.0 SG A:CYS113 2.3 17.9 1.0 SG A:CYS110 2.4 18.0 1.0 CE1 A:HIS80 3.0 20.1 1.0 CG A:HIS80 3.1 18.5 1.0 CB A:CYS113 3.2 15.2 1.0 CB A:HIS80 3.5 18.6 1.0 CB A:CYS110 3.5 12.4 1.0 N A:CYS113 3.8 17.4 1.0 C08 A:H93202 3.8 38.5 1.0 N A:CYS110 4.0 12.9 1.0 CE A:MET112 4.0 11.3 1.0 N09 A:H93202 4.1 32.5 1.0 CA A:CYS113 4.1 12.4 1.0 N02 A:H93202 4.1 28.9 1.0 NE2 A:HIS80 4.1 15.4 1.0 OE2 A:GLU82 4.1 21.2 1.0 CD2 A:HIS80 4.2 16.8 1.0 N07 A:H93202 4.2 34.5 1.0 CA A:CYS110 4.3 13.2 1.0 C01 A:H93202 4.5 33.2 1.0 C03 A:H93202 4.6 29.3 1.0 C A:CYS110 4.7 20.0 1.0 O A:CYS110 4.8 20.5 1.0 C06 A:H93202 4.8 37.9 1.0 CD A:GLU82 4.8 25.1 1.0 CB A:MET112 4.8 16.5 1.0 C A:MET112 4.9 20.1 1.0 CD1 D:LEU119 4.9 17.4 1.0 C05 A:H93202 5.0 27.9 1.0 CA A:HIS80 5.0 15.2 1.0

Zinc binding site 2 out of 2 in the The Structure of the Arabidopsis Thaliana Guanosine Deaminase in Reaction with N1-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 N1-Methylguanosine within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn201 b:22.1 occ:1.00 O D:HOH309 1.9 27.9 1.0 ND1 D:HIS80 2.1 17.5 1.0 SG D:CYS113 2.3 20.0 1.0 SG D:CYS110 2.4 19.2 1.0 CE1 D:HIS80 3.0 16.2 1.0 CG D:HIS80 3.1 19.4 1.0 CB D:CYS113 3.2 18.1 1.0 CB D:CYS110 3.5 17.8 1.0 CB D:HIS80 3.5 19.8 1.0 C08 D:H93202 3.7 38.5 1.0 N02 D:H93202 3.8 31.3 1.0 N D:CYS110 3.9 18.7 1.0 N D:CYS113 4.0 20.0 1.0 N09 D:H93202 4.0 34.8 1.0 N07 D:H93202 4.1 36.1 1.0 NE2 D:HIS80 4.1 20.1 1.0 CA D:CYS113 4.2 14.8 1.0 CD2 D:HIS80 4.2 15.8 1.0 CA D:CYS110 4.2 18.8 1.0 CE D:MET112 4.2 16.7 1.0 C01 D:H93202 4.2 29.2 1.0 C03 D:H93202 4.3 32.7 1.0 OE1 D:GLU82 4.4 26.9 1.0 C06 D:H93202 4.6 37.9 1.0 C05 D:H93202 4.7 29.1 1.0 C D:CYS110 4.7 22.6 1.0 O D:CYS110 4.7 18.2 1.0 OE2 D:GLU82 4.8 20.0 1.0 CD D:GLU82 4.8 23.5 1.0 O04 D:H93202 4.9 32.8 1.0 CB D:MET112 4.9 15.0 1.0

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