Chlorine in PDB 2v79: Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis

The structure of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis, PDB code: 2v79 was solved by S.Schneider, W.Zhang, P.Soultanas, M.Paoli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.00
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	78.666, 78.666, 124.558, 90.00, 90.00, 120.00
R / Rfree (%)	18.1 / 21

The structure of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis also contains other interesting chemical elements:

Sodium

(Na)

3 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Chlorine atom in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis (pdb code 2v79). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 11 binding sites of Chlorine where determined in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis, PDB code: 2v79:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1118 b:38.9 occ:1.00 OG1 A:THR16 3.1 22.8 1.0 NZ A:LYS42 3.5 25.6 1.0 CB A:THR16 3.7 21.9 1.0 O B:HOH2023 3.8 38.2 1.0 O A:THR16 3.9 22.9 1.0 CD A:PRO18 3.9 26.5 1.0 CE A:LYS42 4.0 25.9 1.0 C A:THR16 4.1 22.5 1.0 CG A:PRO18 4.3 28.3 1.0 N A:PRO18 4.4 24.9 1.0 CG2 B:THR14 4.4 25.7 1.0 N A:ILE17 4.4 23.4 1.0 CA A:THR16 4.6 21.7 1.0 CA A:ILE17 4.6 25.4 1.0 C A:ILE17 4.7 24.6 1.0 CG2 A:THR16 4.9 22.4 1.0

Chlorine binding site 2 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1119 b:36.2 occ:0.80 NE1 A:TRP103 3.2 28.2 1.0 O A:HOH2064 3.4 38.5 1.0 CZ2 A:TRP103 3.9 30.7 1.0 CE2 A:TRP103 3.9 28.7 1.0 CD1 A:LEU99 4.0 30.8 1.0 CB A:LEU99 4.1 26.7 1.0 CG A:LYS42 4.3 25.1 1.0 CE A:LYS42 4.3 25.9 1.0 CD1 A:TRP103 4.4 27.9 1.0 CG A:LEU99 4.5 28.1 1.0 CD A:LYS42 4.6 24.6 1.0 O A:HOH2065 4.9 34.2 1.0 CD1 A:LEU45 5.0 30.5 1.0

Chlorine binding site 3 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1120 b:37.1 occ:1.00 O A:HOH2013 2.9 47.3 1.0 OG1 A:THR14 3.1 25.8 1.0 CB A:THR14 3.8 24.4 1.0 N A:THR14 4.2 23.0 1.0 O A:HOH2025 4.4 41.6 1.0 C A:GLY13 4.4 23.8 1.0 CA A:GLY13 4.4 24.9 1.0 O A:HOH2012 4.5 37.6 1.0 CA A:THR14 4.6 23.1 1.0 NE2 A:GLN10 4.8 39.5 1.0 CG2 A:THR14 4.9 23.5 1.0 O A:HOH2014 5.0 46.1 1.0 O A:HOH2027 5.0 28.1 0.5

Chlorine binding site 4 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1121 b:43.8 occ:0.70 O A:HOH2048 2.9 34.6 1.0 O A:HOH2096 3.0 30.7 1.0 O A:HOH2046 3.4 54.0 1.0 O A:LEU28 3.7 34.3 1.0 O A:HOH2097 3.8 44.3 1.0 CZ A:PHE80 3.9 29.2 1.0 CE2 A:PHE80 4.0 28.9 1.0 CA A:GLY29 4.1 32.0 1.0 CD A:LYS78 4.2 25.0 1.0 CE A:LYS105 4.3 48.4 1.0 O A:GLY29 4.6 30.6 1.0 C A:LEU28 4.6 33.5 1.0 NZ A:LYS105 4.6 54.1 1.0 CG A:LYS78 4.8 26.6 1.0 C A:GLY29 4.8 30.1 1.0 N A:GLY29 4.8 32.4 1.0 O A:HOH2044 4.8 37.8 1.0 CB A:LYS78 4.9 27.1 1.0 NZ A:LYS78 5.0 26.5 1.0

Chlorine binding site 5 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1119 b:79.8 occ:1.00 O B:HOH2008 2.7 29.7 1.0 O B:HOH2023 3.0 38.2 1.0 OE1 B:GLN10 3.4 31.2 0.5 O B:HOH2011 3.9 52.6 1.0 OG1 B:THR14 4.0 26.1 1.0 NE2 B:GLN10 4.1 42.0 0.5 OE1 B:GLN10 4.1 37.6 0.5 CD B:GLN10 4.1 30.9 0.5 CD B:GLN10 4.2 37.2 0.5 O B:GLY13 4.3 23.6 1.0 NE2 B:GLN10 4.4 29.1 0.5 O A:HOH2029 4.4 36.9 1.0 O B:MET9 4.5 30.6 1.0 CA B:GLN10 4.5 28.6 0.5 CA B:GLN10 4.6 29.0 0.5 CG B:MET9 4.6 40.0 1.0 CB A:PRO18 4.8 26.5 1.0 C B:GLY13 4.9 23.8 1.0 CA A:PRO18 4.9 25.4 1.0

Chlorine binding site 6 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1120 b:40.7 occ:1.00 O B:HOH2028 3.1 44.9 1.0 N B:ASN55 3.2 30.3 1.0 CD B:PRO54 3.5 29.8 1.0 CB B:ASN55 3.6 34.5 1.0 N B:PRO54 3.8 28.1 1.0 CB B:THR53 3.9 30.4 1.0 CB B:PRO54 3.9 29.7 1.0 CA B:ASN55 3.9 31.7 1.0 CG B:PRO54 4.0 31.5 1.0 C B:PRO54 4.1 28.3 1.0 CG1 B:VAL65 4.1 42.6 1.0 O B:HOH2089 4.2 52.7 1.0 CA B:PRO54 4.2 27.8 1.0 OG1 B:THR53 4.4 30.9 1.0 C B:THR53 4.4 27.0 1.0 CA B:THR53 4.6 28.3 1.0 CG2 B:THR53 4.8 32.5 1.0 CG B:ASN55 4.9 39.0 1.0

Chlorine binding site 7 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1121 b:24.6 occ:0.80 O B:HOH2043 3.2 42.1 1.0 N B:ILE83 3.2 26.4 1.0 O B:HOH2100 3.3 37.9 1.0 CB B:PHE82 3.6 30.8 1.0 CA B:PHE82 3.8 27.9 1.0 CG2 B:ILE76 3.9 32.5 1.0 C B:PHE82 4.0 26.8 1.0 O B:ILE83 4.1 26.2 1.0 CA B:ILE83 4.1 25.8 1.0 CB B:ILE83 4.3 27.0 1.0 CD2 B:PHE82 4.4 35.3 1.0 C B:ILE83 4.5 27.0 1.0 CG B:PHE82 4.5 32.5 1.0 CG1 B:ILE76 4.5 28.8 1.0 CG1 B:ILE83 4.6 26.1 1.0 CD1 B:ILE76 4.8 32.6 1.0 CD1 B:ILE83 4.8 29.6 1.0 CB B:ILE76 4.8 29.1 1.0 O B:HOH2099 5.0 35.2 1.0

Chlorine binding site 8 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1122 b:38.5 occ:0.80 NE1 B:TRP103 3.2 30.0 1.0 CE2 B:TRP103 3.9 30.1 1.0 CZ2 B:TRP103 3.9 32.5 1.0 CD1 B:LEU99 4.0 31.9 1.0 CB B:LEU99 4.0 26.8 1.0 CD1 B:TRP103 4.3 29.3 1.0 O B:HOH2060 4.5 55.7 1.0 CG B:LEU99 4.5 28.7 1.0 CG B:LYS42 4.6 25.9 1.0 CE B:LYS42 4.7 26.3 1.0 CD1 B:LEU45 4.8 28.6 1.0 N B:LEU99 4.8 25.9 1.0 CA B:LEU99 4.9 26.1 1.0

Chlorine binding site 9 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1123 b:28.9 occ:0.90 O B:HOH2113 3.2 28.3 1.0 N B:GLU95 3.2 31.6 1.0 CA B:PHE94 3.8 30.2 1.0 CB B:PHE94 3.9 32.7 1.0 CG B:GLU95 3.9 30.8 1.0 CB B:GLU95 3.9 28.9 1.0 C B:PHE94 4.0 27.7 1.0 CA B:GLU95 4.1 29.4 1.0 O B:GLU95 4.5 27.0 1.0 C B:GLU95 4.9 28.2 1.0 O B:LYS93 5.0 36.7 1.0

Chlorine binding site 10 out of 11 in the Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Crystal Structure of the N-Terminal Domain of Dnad From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1124 b:45.9 occ:0.80 NE B:ARG71 3.2 46.1 0.6 NH2 B:ARG71 3.3 53.6 0.6 CB B:THR33 3.7 32.5 1.0 CG2 B:THR33 3.7 33.4 1.0 ND2 B:ASN31 3.7 37.3 1.0 CZ B:ARG71 3.7 48.3 0.6 OD1 B:ASN31 4.0 33.5 1.0 CD B:ARG71 4.2 36.3 0.4 CG B:ASN31 4.3 35.3 1.0 OG1 B:THR33 4.3 34.2 1.0 CD B:ARG71 4.4 39.6 0.6 OE2 B:GLU34 4.5 38.4 1.0 CG B:GLU34 4.6 31.2 1.0 CG B:ARG71 4.7 36.9 0.6 CG B:ARG71 4.7 34.9 0.4 CG2 B:ILE63 4.7 32.6 1.0 O B:HOH2049 4.8 34.2 1.0 N B:GLU34 4.9 27.6 1.0 CD B:GLU34 4.9 34.5 1.0 CA B:THR33 4.9 29.5 1.0

S.Schneider, W.Zhang, P.Soultanas, M.Paoli. Structure of the N-Terminal Oligomerization Domain of Dnad Reveals A Unique Tetramerization Motif and Provides Insights Into Scaffold Formation. J.Mol.Biol. V. 376 1237 2008.
ISSN: ISSN 0022-2836
PubMed: 18206906
DOI: 10.1016/J.JMB.2007.12.045