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Sodium in PDB 3i0x: Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog

Enzymatic activity of Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog

All present enzymatic activity of Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog:
4.2.99.18;

Protein crystallography data

The structure of Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog, PDB code: 3i0x was solved by F.Faucher, S.Doublie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.95 / 1.80
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 92.130, 92.130, 190.730, 90.00, 90.00, 120.00
R / Rfree (%) 18.7 / 21

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog (pdb code 3i0x). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog, PDB code: 3i0x:

Sodium binding site 1 out of 1 in 3i0x

Go back to Sodium Binding Sites List in 3i0x
Sodium binding site 1 out of 1 in the Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Clostridium Acetobutylicum 8-Oxoguanine Glycosylase/Lyase in Complex with Dsdna Containing Adenine Opposite to 8-Oxog within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na999

b:23.8
occ:1.00
 O A:LYS214 2.5 20.1 1.0
O A:PHE216 2.5 20.2 1.0
O A:VAL219 2.5 18.9 1.0
OP1 C:DC22 2.5 24.6 1.0
O C:HOH2 2.7 34.1 1.0
O A:HOH382 2.7 35.2 1.0
C A:LYS214 3.5 20.7 1.0
P C:DC22 3.5 25.5 1.0
OP2 C:DC22 3.5 24.2 1.0
C A:VAL219 3.5 18.5 1.0
C A:PHE216 3.6 20.9 1.0
N A:VAL219 3.8 17.5 1.0
CA A:VAL219 4.1 18.5 1.0
CA A:LYS214 4.1 20.1 1.0
CE A:MET217 4.1 32.3 0.5
N A:PHE216 4.2 19.9 1.0
CA A:MET217 4.2 22.6 0.5
N A:GLY218 4.3 20.2 1.0
C A:LYS215 4.3 22.4 1.0
CA A:MET217 4.3 22.0 0.5
N A:MET217 4.3 21.6 0.5
CB A:VAL219 4.3 17.7 1.0
N A:MET217 4.3 21.2 0.5
O3' C:DT21 4.4 22.3 1.0
N A:LYS215 4.5 20.6 1.0
O A:LYS215 4.5 22.6 1.0
CA A:PHE216 4.5 20.7 1.0
C A:MET217 4.6 21.5 0.5
CB A:LYS214 4.6 22.6 1.0
C A:MET217 4.6 21.1 0.5
N A:GLY220 4.7 16.5 1.0
CA A:LYS215 4.7 20.6 1.0
O5' C:DC22 4.7 28.5 1.0
C A:GLY218 4.9 18.6 1.0

Reference:

F.Faucher, S.S.Wallace, S.Doublie. Structural Basis For the Lack of Opposite Base Specificity of Clostridium Acetobutylicum 8-Oxoguanine Dna Glycosylase. Dna Repair V. 8 1283 2009.
ISSN: ISSN 1568-7864
PubMed: 19747886
DOI: 10.1016/J.DNAREP.2009.08.002
Page generated: Mon Oct 7 10:31:55 2024

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