Atomistry » Zinc » PDB 7dok-7dv1 » 7dpk
Atomistry »
  Zinc »
    PDB 7dok-7dv1 »
      7dpk »

Zinc in PDB 7dpk: The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine

Enzymatic activity of The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine

All present enzymatic activity of The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine:
3.5.4.15;

Protein crystallography data

The structure of The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine, PDB code: 7dpk 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) 23.65 / 2.15
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 119.027, 119.027, 38.919, 90, 90, 120
R / Rfree (%) 17.2 / 20.3

Zinc Binding Sites:

The binding sites of Zinc atom in the The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine (pdb code 7dpk). 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 Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine, PDB code: 7dpk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7dpk

Go back to Zinc Binding Sites List in 7dpk
Zinc binding site 1 out of 2 in the The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine


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 Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:12.1
occ:1.00
 ND1 A:HIS80 2.1 10.5 1.0
SG A:CYS110 2.3 12.2 1.0
SG A:CYS113 2.3 8.2 1.0
O2 A:4UO201 2.4 17.4 1.0
C2 A:4UO201 2.5 19.0 1.0
CE1 A:HIS80 3.0 10.7 1.0
N1 A:4UO201 3.1 16.9 1.0
CB A:CYS113 3.1 7.6 1.0
CG A:HIS80 3.1 10.9 1.0
N3 A:4UO201 3.2 18.9 1.0
CB A:CYS110 3.4 9.1 1.0
CB A:HIS80 3.5 10.6 1.0
N A:CYS110 3.8 10.6 1.0
N A:CYS113 3.9 12.0 1.0
C6 A:4UO201 4.0 14.5 1.0
CA A:CYS113 4.1 8.4 1.0
CE A:MET112 4.1 8.4 1.0
NE2 A:HIS80 4.1 9.5 1.0
CA A:CYS110 4.1 13.8 1.0
C4 A:4UO201 4.2 16.8 1.0
CD2 A:HIS80 4.2 10.1 1.0
OE1 A:GLU82 4.3 13.6 1.0
C5 A:4UO201 4.5 13.7 1.0
C A:CYS110 4.7 13.2 1.0
CD A:GLU82 4.7 15.8 1.0
O A:CYS110 4.8 10.0 1.0
O6 A:4UO201 4.8 14.9 1.0
O A:HOH301 4.9 13.5 1.0
CB A:MET112 4.9 10.0 1.0
C A:PRO109 4.9 13.2 1.0
OE2 A:GLU82 5.0 20.3 1.0
C A:MET112 5.0 11.3 1.0

Zinc binding site 2 out of 2 in 7dpk

Go back to Zinc Binding Sites List in 7dpk
Zinc binding site 2 out of 2 in the The Structure of the Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine


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 Exchange Reaction of the Arabidopsis Thaliana Guanosine Deaminase in Complex with 7-Deazaguaosine By Guanosine within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn201

b:13.6
occ:1.00
 ND1 D:HIS80 2.0 13.6 1.0
O D:HOH341 2.2 14.1 1.0
SG D:CYS110 2.3 11.4 1.0
SG D:CYS113 2.3 11.1 1.0
CE1 D:HIS80 3.0 14.7 1.0
CG D:HIS80 3.1 12.8 1.0
CB D:CYS113 3.1 7.7 1.0
CB D:CYS110 3.2 12.8 1.0
CB D:HIS80 3.5 9.0 1.0
O D:HOH386 3.6 21.9 1.0
N D:CYS110 3.7 11.4 1.0
O D:HOH377 3.9 35.8 1.0
N D:CYS113 3.9 12.0 1.0
CA D:CYS110 4.0 12.8 1.0
NE2 D:HIS80 4.1 13.5 1.0
CE D:MET112 4.1 9.2 1.0
CA D:CYS113 4.1 8.2 1.0
OE2 D:GLU82 4.1 21.9 1.0
CD2 D:HIS80 4.2 10.5 1.0
OE1 D:GLU82 4.5 10.8 1.0
O D:HOH359 4.5 30.1 1.0
CD D:GLU82 4.5 15.1 1.0
C D:CYS110 4.7 11.5 1.0
O D:HOH370 4.7 19.0 1.0
O D:HOH380 4.8 21.0 1.0
O D:CYS110 4.9 12.3 1.0
C D:PRO109 4.9 13.9 1.0

Reference:

W.Xie, Q.Jia, H.Zeng. Asymmetric Catalysis of Arabidopsis Thaliana Guanosine Deaminase Revealed By Crystal Structures To Be Published.
Page generated: Tue Oct 29 19:12:24 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy