Zinc in PDB 6zx5: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 6zx5 was solved by W.Rypniewski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.89 / 1.52
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21, 26.22, 38.64, 105.66, 96.65, 91.86
R / Rfree (%)	21.2 / 28.1

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 6zx5). 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: 6zx5:
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:24.6 occ:0.60 O K:HOH222 2.0 20.3 1.0 N7 K:G82 2.1 18.5 1.0 O K:HOH238 2.1 23.7 1.0 O K:HOH215 2.2 30.8 1.0 O K:HOH203 2.2 25.4 1.0 O K:HOH204 2.3 22.5 1.0 C8 K:G82 2.9 18.2 1.0 C5 K:G82 3.2 17.1 1.0 O L:HOH243 3.7 53.8 1.0 O6 K:G82 3.7 19.8 1.0 OP2 K:G82 3.8 18.8 1.0 C6 K:G82 3.9 18.9 1.0 O K:HOH226 3.9 22.2 1.0 O K:HOH229 3.9 43.2 1.0 N9 K:G82 4.1 17.4 1.0 C4 K:G82 4.3 17.1 1.0 N7 K:G81 4.5 19.9 1.0 OP2 K:G81 4.5 23.6 1.0 O6 K:G83 4.6 19.1 1.0 N7 K:G83 4.6 21.3 1.0 C8 K:G81 4.7 18.4 1.0 O5' K:G82 4.7 19.8 1.0 C5 K:G81 4.9 18.6 1.0 P K:G82 5.0 20.5 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:45.5 occ:1.00 O K:HOH219 1.7 25.0 1.0 O K:HOH202 2.2 35.2 1.0 O K:HOH244 2.2 23.7 1.0 O K:HOH207 2.3 25.6 1.0 O K:HOH201 3.2 28.6 1.0 O M:HOH212 3.6 35.5 1.0 N7 K:G85 3.7 27.8 1.0 O K:HOH210 4.0 30.8 1.0 O6 K:G86 4.1 19.4 1.0 O6 K:G85 4.1 28.4 1.0 N7 K:G86 4.3 18.9 1.0 C5 K:G85 4.4 25.8 1.0 C6 K:G85 4.6 26.7 1.0 C8 K:G85 4.6 25.8 1.0 O2 M:0C79 4.6 20.0 1.0 OP2 K:G85 4.8 35.3 1.0 C6 K:G86 4.9 18.8 1.0 O2' M:0C79 4.9 27.7 1.0 N4 K:C84 4.9 26.2 1.0 C5 K:G86 5.0 19.2 1.0 C1' M:0C79 5.0 24.5 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:39.2 occ:1.00 O L:HOH233 1.9 27.7 1.0 O L:HOH226 2.0 24.3 1.0 O L:HOH221 2.1 31.4 1.0 O L:HOH217 2.1 25.8 1.0 O L:HOH245 2.2 23.0 1.0 N7 L:G96 3.9 16.4 1.0 O6 L:G97 4.0 16.5 1.0 O L:HOH230 4.1 25.1 1.0 O L:HOH209 4.2 37.1 1.0 O K:HOH237 4.2 45.5 1.0 N7 L:G97 4.3 16.3 1.0 C8 L:G96 4.5 17.8 1.0 OP2 L:G96 4.7 23.1 1.0 C6 L:G97 4.9 14.4 1.0 C5 L:G96 4.9 18.5 1.0 C5 L:G97 5.0 14.6 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:43.2 occ:0.60 O L:HOH216 2.1 29.0 1.0 O L:HOH225 2.3 18.9 1.0 O L:HOH241 3.4 41.0 1.0 OP1 L:U95 4.2 20.2 1.0 OP2 L:U95 4.3 19.3 1.0 OP1 L:C94 4.5 18.9 1.0 P L:U95 4.7 18.3 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:25.9 occ:0.60 O M:HOH228 2.0 21.7 1.0 O M:HOH229 2.0 30.0 1.0 N7 M:0G82 2.1 16.4 1.0 O M:HOH244 2.1 31.5 1.0 O M:HOH218 2.1 27.2 1.0 O M:HOH221 2.3 25.8 1.0 C8 M:0G82 2.9 15.9 1.0 C5 M:0G82 3.2 17.6 1.0 O6 M:0G82 3.6 21.0 1.0 C6 M:0G82 3.8 19.2 1.0 O N:HOH235 3.8 31.2 1.0 O M:HOH237 3.8 29.6 1.0 OP1 M:0G82 3.9 17.3 1.0 O M:HOH246 3.9 45.9 1.0 O M:HOH220 4.0 26.3 1.0 N9 M:0G82 4.2 15.8 1.0 C4 M:0G82 4.3 17.1 1.0 O M:HOH239 4.3 37.4 1.0 N7 M:0G81 4.4 20.3 1.0 O6 M:0G83 4.5 18.9 1.0 C8 M:0G81 4.7 19.6 1.0 N7 M:0G83 4.7 15.7 1.0 C5 M:0G81 4.7 19.8 1.0 OP1 M:0G81 4.8 22.1 1.0 O5' M:0G82 4.8 17.2 1.0 O M:HOH209 4.9 42.8 1.0 P M:0G82 5.0 18.5 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:45.1 occ:1.00 O M:HOH245 1.8 27.1 1.0 O M:HOH216 2.1 47.6 1.0 O M:HOH224 2.1 18.8 1.0 O M:HOH204 2.2 29.9 1.0 O M:HOH203 2.5 45.6 1.0 N7 M:0G85 2.7 21.5 1.0 O M:HOH241 3.3 62.6 1.0 C8 M:0G85 3.5 20.9 1.0 C5 M:0G85 3.7 20.0 1.0 O6 M:0G85 3.9 21.3 1.0 OP1 M:0G85 4.0 24.2 1.0 C6 M:0G85 4.1 20.6 1.0 N7 M:0G86 4.2 16.3 1.0 O M:HOH202 4.3 37.0 1.0 O6 M:0G86 4.3 18.1 1.0 C5 M:0C84 4.4 17.2 1.0 C4 M:0C84 4.5 16.9 1.0 N4 M:0C84 4.7 15.5 1.0 N9 M:0G85 4.7 20.2 1.0 C6 M:0C84 4.8 17.6 1.0 C4 M:0G85 4.8 19.0 1.0 C5 M:0G86 5.0 16.2 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:47.1 occ:1.00 O L:HOH236 2.1 28.4 1.0 O N:HOH250 2.1 37.0 1.0 O N:HOH211 2.1 27.7 1.0 O N:HOH228 2.2 36.2 1.0 O L:HOH238 2.4 32.3 1.0 O N:HOH224 2.5 44.5 1.0 O N:HOH209 3.7 49.1 1.0 N7 N:0G96 4.2 22.1 1.0 O L:HOH237 4.3 42.2 1.0 O6 N:0G97 4.3 18.6 1.0 N7 N:0G97 4.3 18.6 1.0 O2 L:C90 4.8 22.2 1.0 OP1 N:0G96 4.9 27.5 1.0 C8 N:0G96 4.9 21.5 1.0 C5 N:0U95 4.9 21.1 1.0 C4 N:0U95 4.9 20.5 1.0 O4 N:0U95 4.9 21.5 1.0 O2' L:C90 5.0 26.5 1.0

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