Chlorine in PDB 1idw: Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++

The structure of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++, PDB code: 1idw was solved by W.Cruse, P.Saludjian, A.Neuman, T.Prange, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 1.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	53.820, 19.380, 50.300, 90.00, 109.90, 90.00
R / Rfree (%)	17.2 / 20.2

The structure of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ also contains other interesting chemical elements:

Rhodium

(Rh)

2 atoms

The binding sites of Chlorine atom in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ (pdb code 1idw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++, PDB code: 1idw:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl9 b:20.2 occ:1.00 CL A:UCL9 0.0 20.2 1.0 C5 A:UCL9 1.8 23.1 1.0 C4 A:UCL9 2.7 25.6 1.0 C6 A:UCL9 2.7 12.6 1.0 O4 A:UCL9 2.9 21.2 1.0 O1P A:UCL9 3.8 8.2 1.0 O A:HOH102 3.9 35.8 1.0 N3 A:UCL9 4.0 21.4 1.0 N1 A:UCL9 4.0 16.4 1.0 O2P A:UCL9 4.3 11.7 1.0 C2 A:UCL9 4.5 19.6 1.0 P A:UCL9 4.6 16.7 1.0

Chlorine binding site 2 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl9 b:40.0 occ:0.50 CL B:UCL9 0.0 40.0 0.5 O4 B:UCL9 1.0 40.0 0.5 C4 B:UCL9 1.1 40.0 0.5 C5 B:UCL9 1.8 40.0 0.5 C5 B:UCL9 1.8 40.0 0.5 N3 B:UCL9 2.3 40.0 0.5 CL B:UCL9 2.3 40.0 0.5 C4 B:UCL9 2.6 40.0 0.5 O4 B:UCL9 2.8 40.0 0.5 C6 B:UCL9 2.8 40.0 0.5 C6 B:UCL9 3.0 40.0 0.5 C3' B:C8 3.1 59.5 1.0 C2 B:UCL9 3.3 40.0 0.5 C2' B:C8 3.4 63.0 1.0 N1 B:UCL9 3.6 40.0 0.5 N1 B:C8 3.9 36.9 1.0 N3 B:UCL9 3.9 40.0 0.5 C2 B:C8 3.9 36.6 1.0 O3' B:C8 4.0 64.5 1.0 N1 B:UCL9 4.0 40.0 0.5 C6 B:C8 4.1 31.2 1.0 C4' B:C8 4.2 49.7 1.0 N3 B:C8 4.3 40.4 1.0 O2' B:C8 4.3 63.7 1.0 C1' B:C8 4.3 49.6 1.0 O2 B:C8 4.3 50.8 1.0 O2 B:UCL9 4.4 40.0 0.5 C5 B:C8 4.4 28.4 1.0 C5' B:C8 4.5 44.1 1.0 C4 B:C8 4.5 24.8 1.0 C2 B:UCL9 4.5 40.0 0.5 O4' B:C8 4.7 45.3 1.0

Chlorine binding site 3 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl9 b:40.0 occ:0.50 CL B:UCL9 0.0 40.0 0.5 C5 B:UCL9 1.8 40.0 0.5 CL B:UCL9 2.3 40.0 0.5 C4 B:UCL9 2.6 40.0 0.5 O4 B:UCL9 2.8 40.0 0.5 C6 B:UCL9 2.8 40.0 0.5 C5' B:C8 3.3 44.1 1.0 C3' B:C8 3.3 59.5 1.0 C5 B:UCL9 3.4 40.0 0.5 C6 B:UCL9 3.6 40.0 0.5 C4' B:C8 3.8 49.7 1.0 N3 B:UCL9 3.9 40.0 0.5 N1 B:UCL9 4.0 40.0 0.5 O3' B:C8 4.2 64.5 1.0 C6 B:C8 4.3 31.2 1.0 C2' B:C8 4.4 63.0 1.0 C2 B:UCL9 4.5 40.0 0.5 C5 B:C8 4.6 28.4 1.0 O5' B:C8 4.6 35.2 1.0 N1 B:C8 4.6 36.9 1.0 O4' B:C8 4.6 45.3 1.0 C4 B:UCL9 4.7 40.0 0.5 OP2 B:C8 4.7 22.7 1.0 C1' B:C8 4.9 49.6 1.0 N1 B:UCL9 5.0 40.0 0.5

Chlorine binding site 4 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl32 b:16.9 occ:1.00 O4 A:UCL9 4.6 21.2 1.0 N3 A:UCL9 5.0 21.4 1.0

Chlorine binding site 5 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl31 b:14.4 occ:0.75 CL B:CL31 0.0 14.4 0.8 CL B:CL31 1.3 14.2 0.2 N7 B:G6 3.9 13.0 1.0 O B:HOH116 4.3 17.0 1.0 O6 B:G6 4.4 14.4 1.0 O6 B:G7 4.6 19.4 1.0 C5 B:G6 4.8 18.9 1.0 C8 B:G6 4.9 16.8 1.0 C6 B:G6 5.0 17.7 1.0

Chlorine binding site 6 out of 6 in the Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of the Hybrid Rna/Dna R-Gcuucggc-D[Cl]U in Presence of Rh(NH3)6+++ within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl31 b:14.2 occ:0.25 CL B:CL31 0.0 14.2 0.2 CL B:CL31 1.3 14.4 0.8 O B:HOH130 3.9 31.6 1.0 O B:HOH116 4.1 17.0 1.0 O6 B:G6 4.2 14.4 1.0 N7 B:G6 4.5 13.0 1.0 O4 A:U3 4.6 16.3 1.0 O6 B:G7 4.6 19.4 1.0 N4 A:C2 4.7 16.8 1.0

W.Cruse, P.Saludjian, A.Neuman, T.Prange. Destabilizing Effect of A Fluorouracil Extra Base in A Hybrid Rna Duplex Compared with Bromo and Chloro Analogues Acta Crystallogr.,Sect.D V. 57 1609 2001.
ISSN: ISSN 0907-4449
PubMed: 11679725
DOI: 10.1107/S0907444901012318