Chlorine in PDB 2yg9: Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans

The structure of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans, PDB code: 2yg9 was solved by E.Moe, D.R.Hall, I.Leiros, V.Talstad, J.Timmins, S.Mcsweeney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.68 / 1.95
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	108.311, 51.372, 90.039, 90.00, 99.71, 90.00
R / Rfree (%)	17 / 23.1

The structure of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans also contains other interesting chemical elements:

Nickel

(Ni)

2 atoms

The binding sites of Chlorine atom in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans (pdb code 2yg9). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans, PDB code: 2yg9:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1226 b:16.4 occ:1.00 O A:HOH2078 2.9 23.4 1.0 NZ A:LYS115 3.1 7.7 1.0 O A:HOH2199 3.1 23.1 1.0 O A:HOH2198 3.2 26.8 1.0 N A:SER112 3.4 8.2 1.0 CD A:LYS115 3.5 8.1 1.0 O A:GLY110 3.6 11.8 1.0 CE A:LYS115 3.7 9.3 1.0 CB A:SER112 4.0 8.0 1.0 CD2 A:LEU74 4.1 12.2 1.0 CA A:LEU111 4.1 8.8 1.0 OG A:SER112 4.1 5.5 1.0 C A:LEU111 4.1 8.2 1.0 CA A:SER112 4.3 8.3 1.0 C A:GLY110 4.5 10.5 1.0 O A:HOH2107 4.6 18.6 1.0 O A:HOH2079 4.7 16.9 1.0 CD1 A:LEU74 4.8 11.7 1.0 O A:HOH2133 4.8 29.4 1.0 CG A:LEU74 4.8 11.6 1.0 N A:LEU111 4.8 9.8 1.0 O A:ALA70 4.8 10.5 1.0 CG A:LYS115 4.8 7.5 1.0 CD1 A:ILE82 4.9 12.5 1.0 CD2 A:LEU111 5.0 5.8 1.0

Chlorine binding site 2 out of 4 in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1227 b:13.7 occ:1.00 OG1 A:THR158 2.9 10.1 1.0 N A:GLY155 3.1 8.7 1.0 CA A:GLY155 3.3 7.8 1.0 N A:THR158 3.4 6.7 1.0 CB A:THR158 3.6 7.4 1.0 C A:GLY155 3.7 8.4 1.0 CB A:TRP157 3.9 8.4 1.0 O A:GLY155 3.9 7.9 1.0 N A:TRP157 4.0 8.1 1.0 CA A:THR158 4.1 7.0 1.0 CE3 A:TRP157 4.2 10.3 1.0 CA A:TRP157 4.3 7.8 1.0 C A:TRP157 4.3 6.3 1.0 C A:ILE154 4.4 9.4 1.0 N A:ARG156 4.4 7.9 1.0 CA A:ILE154 4.8 8.8 1.0 O A:GLY153 4.8 10.4 1.0 CG A:TRP157 4.8 9.1 1.0 C A:ARG156 4.9 8.1 1.0 CD2 A:TRP157 4.9 9.7 1.0

Chlorine binding site 3 out of 4 in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1226 b:18.3 occ:1.00 O B:HOH2179 3.1 22.5 1.0 NZ B:LYS115 3.3 6.9 1.0 N B:SER112 3.4 8.1 1.0 O B:GLY110 3.6 10.8 1.0 CD B:LYS115 3.6 6.9 1.0 CE B:LYS115 3.6 7.5 1.0 CA B:LEU111 4.0 9.1 1.0 CB B:SER112 4.0 7.8 1.0 CD2 B:LEU74 4.1 17.1 1.0 C B:LEU111 4.1 9.3 1.0 CA B:SER112 4.3 7.6 1.0 OG B:SER112 4.3 2.8 1.0 C B:GLY110 4.6 11.2 1.0 CD1 B:LEU74 4.7 15.0 1.0 CG B:LEU74 4.7 15.4 1.0 N B:LEU111 4.8 10.5 1.0 O B:ALA70 4.8 11.6 1.0 CD1 B:ILE82 4.8 12.1 1.0 O B:HOH2118 4.9 34.4 1.0 CG B:LYS115 4.9 6.7 1.0

Chlorine binding site 4 out of 4 in the Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1227 b:15.6 occ:1.00 OG1 B:THR158 3.1 10.7 1.0 N B:THR158 3.2 6.4 1.0 N B:GLY155 3.3 8.2 1.0 CA B:GLY155 3.4 7.7 1.0 C B:GLY155 3.6 7.2 1.0 CB B:THR158 3.7 6.8 1.0 CB B:TRP157 3.8 7.1 1.0 O B:GLY155 3.9 5.9 1.0 N B:TRP157 3.9 6.2 1.0 CA B:THR158 4.0 6.2 1.0 N B:ARG156 4.1 6.9 1.0 CA B:TRP157 4.2 6.6 1.0 C B:TRP157 4.2 5.8 1.0 CE3 B:TRP157 4.2 8.7 1.0 C B:ILE154 4.5 8.5 1.0 C B:ARG156 4.7 6.2 1.0 CG B:TRP157 4.8 7.9 1.0 CD2 B:TRP157 4.9 8.2 1.0 CA B:ILE154 4.9 8.2 1.0 O B:GLY153 5.0 9.0 1.0

E.Moe, D.R.Hall, I.Leiros, V.T.Monsen, J.Timmins, S.Mcsweeney. Structure-Function Studies of An Unusual 3-Methyladenine Dna Glycosylase II (Alka) From Deinococcus Radiodurans. Acta Crystallogr. D Biol. V. 68 703 2012CRYSTALLOGR..
ISSN: ESSN 1399-0047
PubMed: 22683793
DOI: 10.1107/S090744491200947X