Zinc in PDB 6zx8: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 6zx8 was solved by W.Rypniewski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.81 / 1.98
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21.018, 25.804, 38.414, 104.93, 96.59, 92.11
R / Rfree (%)	17.3 / 25.9

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 6zx8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Racemic Compound of Rna Duplexes., PDB code: 6zx8:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn101 b:33.2 occ:0.60 O K:HOH211 2.0 22.5 1.0 N7 K:G82 2.1 25.8 1.0 O K:HOH219 2.1 27.9 1.0 O K:HOH223 2.1 43.5 1.0 O K:HOH201 2.2 33.2 1.0 O K:HOH206 2.4 29.6 1.0 C8 K:G82 2.9 25.3 1.0 C5 K:G82 3.2 23.1 1.0 O6 K:G82 3.7 25.0 1.0 O K:HOH202 3.7 30.2 1.0 C6 K:G82 3.8 24.3 1.0 OP2 K:G82 3.9 27.4 1.0 O K:HOH210 3.9 36.0 1.0 N9 K:G82 4.1 24.6 1.0 N7 K:G81 4.2 28.7 1.0 C4 K:G82 4.3 24.0 1.0 OP2 K:G81 4.4 35.2 1.0 C8 K:G81 4.5 26.1 1.0 O6 K:G83 4.6 26.4 1.0 N7 K:G83 4.7 26.9 1.0 O5' K:G82 4.7 26.0 1.0 C5 K:G81 4.7 25.6 1.0 P K:G82 5.0 29.5 1.0

Zinc binding site 2 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn102 b:61.9 occ:1.00 O K:HOH207 2.0 45.1 1.0 O K:HOH203 2.0 31.8 1.0 O K:HOH205 2.3 34.5 1.0 O K:HOH217 2.5 39.4 1.0 O K:HOH224 2.6 30.2 1.0 N7 K:G85 3.8 29.4 1.0 O K:HOH213 3.8 39.0 1.0 O M:HOH217 4.0 39.5 1.0 O6 K:G86 4.2 25.9 1.0 N7 K:G86 4.3 24.9 1.0 C8 K:G85 4.5 27.3 1.0 O6 K:G85 4.6 36.4 1.0 C5 K:G85 4.7 26.7 1.0 O2 M:0C79 4.8 26.6 1.0 OP2 K:G85 4.8 34.9 1.0 C1' M:0C79 4.9 29.7 1.0 O2' M:0C79 5.0 34.5 1.0 C6 K:G85 5.0 28.7 1.0 C6 K:G86 5.0 23.9 1.0 C5 K:C84 5.0 27.5 1.0

Zinc binding site 3 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ L:Zn101 b:52.5 occ:1.00 O L:HOH230 2.1 36.4 1.0 O L:HOH207 2.1 31.6 1.0 O L:HOH221 2.3 35.2 1.0 O L:HOH235 2.3 31.8 1.0 O L:HOH227 3.5 40.5 1.0 N7 L:G96 3.6 25.1 1.0 O6 L:G97 4.0 27.8 1.0 C8 L:G96 4.1 26.2 1.0 N7 L:G97 4.2 23.0 1.0 OP2 L:G96 4.5 35.0 1.0 C5 L:G96 4.7 24.0 1.0 C6 L:G97 4.8 24.6 1.0 C5 L:G97 4.9 21.6 1.0

Zinc binding site 4 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ L:Zn102 b:52.0 occ:0.60 O L:HOH223 2.2 41.1 1.0 O L:HOH231 3.2 43.2 1.0 OP1 L:U95 4.4 27.0 1.0 OP2 L:U95 4.5 26.0 1.0 OP1 L:C94 4.5 23.9 1.0 P L:U95 4.9 26.6 1.0

Zinc binding site 5 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn101 b:40.1 occ:0.60 O M:HOH221 2.0 30.4 1.0 N7 M:0G82 2.0 24.0 1.0 O M:HOH224 2.0 43.7 1.0 O M:HOH208 2.1 35.8 1.0 O M:HOH202 2.5 29.0 1.0 C8 M:0G82 2.9 21.7 1.0 C5 M:0G82 3.1 23.3 1.0 O6 M:0G82 3.6 27.6 1.0 C6 M:0G82 3.7 25.8 1.0 OP1 M:0G82 3.9 27.9 1.0 O M:HOH216 4.0 28.3 1.0 O M:HOH225 4.1 38.8 1.0 N9 M:0G82 4.1 22.3 1.0 N7 M:0G81 4.2 26.1 1.0 C4 M:0G82 4.2 22.0 1.0 O N:HOH212 4.2 28.8 1.0 C8 M:0G81 4.4 22.6 1.0 C5 M:0G81 4.6 22.9 1.0 N7 M:0G83 4.6 25.7 1.0 O6 M:0G83 4.7 29.7 1.0 O5' M:0G82 4.7 26.1 1.0 OP1 M:0G81 4.8 35.6 1.0 P M:0G82 5.0 27.4 1.0 N9 M:0G81 5.0 22.8 1.0

Zinc binding site 6 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn102 b:61.9 occ:1.00 O M:HOH229 1.4 29.0 1.0 O M:HOH204 2.1 32.2 1.0 O M:HOH201 2.5 34.2 1.0 N7 M:0G85 2.7 26.5 1.0 C8 M:0G85 3.4 28.2 1.0 OP1 M:0G85 3.8 31.7 1.0 C5 M:0G85 3.9 24.9 1.0 N7 M:0G86 4.2 22.9 1.0 O M:HOH203 4.3 37.4 1.0 C5 M:0C84 4.3 23.7 1.0 O M:HOH227 4.3 32.5 1.0 O6 M:0G85 4.3 24.7 1.0 O6 M:0G86 4.3 23.6 1.0 C4 M:0C84 4.4 24.7 1.0 C6 M:0G85 4.5 23.3 1.0 N4 M:0C84 4.6 20.3 1.0 C6 M:0C84 4.7 23.4 1.0 N9 M:0G85 4.7 24.6 1.0 N3 M:0C84 4.8 22.8 1.0 O5' M:0G85 4.8 30.0 1.0 C4 M:0G85 4.9 21.8 1.0 C5 M:0G86 4.9 23.1 1.0 P M:0G85 5.0 26.7 1.0 C6 M:0G86 5.0 23.8 1.0

Zinc binding site 7 out of 7 in the Racemic Compound of Rna Duplexes.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Racemic Compound of Rna Duplexes. within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:56.1 occ:1.00 O N:HOH226 2.0 38.0 1.0 O N:HOH209 2.2 27.1 1.0 O L:HOH232 2.2 39.0 1.0 O N:HOH210 2.3 33.2 1.0 O N:HOH215 2.4 34.0 1.0 O L:HOH211 2.5 36.9 1.0 N7 N:0G96 3.9 26.6 1.0 O N:HOH220 4.0 42.0 1.0 N7 N:0G97 4.1 24.7 1.0 O6 N:0G97 4.2 23.8 1.0 C8 N:0G96 4.6 27.1 1.0 O2 L:C90 4.6 24.9 1.0 OP1 N:0G96 4.8 39.6 1.0 O4 N:0U95 4.8 25.9 1.0 O6 N:0G96 4.8 27.1 1.0 C5 N:0G96 4.9 24.7 1.0 C4 N:0U95 4.9 25.8 1.0 C5 N:0G97 4.9 21.0 1.0 C6 N:0G97 4.9 22.6 1.0 C5 N:0U95 4.9 25.2 1.0

W.Rypniewski, A.Kiliszek, L.Blaszczyk, M.Bejger. Racemic Compound of Rna Duplexes. To Be Published.