Zinc in PDB 6zq9: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 6zq9 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 / 1.50
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21, 25.93, 38.53, 105.09, 96.63, 91.95
R / Rfree (%)	19.2 / 25.4

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 6zq9). 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: 6zq9:
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:31.2 occ:0.80 O K:HOH212 2.1 26.6 1.0 N7 K:G82 2.1 16.6 1.0 O K:HOH222 2.2 19.0 1.0 O K:HOH201 2.2 27.5 1.0 O K:HOH237 2.3 27.0 1.0 O K:HOH204 2.3 20.2 1.0 C8 K:G82 3.0 17.4 1.0 C5 K:G82 3.2 16.9 1.0 O6 K:G82 3.7 18.6 1.0 C6 K:G82 3.8 18.0 1.0 O K:HOH218 3.9 26.3 1.0 OP2 K:G82 3.9 19.0 1.0 O K:HOH207 4.0 32.0 1.0 N9 K:G82 4.2 17.1 1.0 C4 K:G82 4.3 16.9 1.0 N7 K:G81 4.5 21.4 1.0 OP2 K:G81 4.5 24.2 1.0 O6 K:G83 4.5 20.1 1.0 O L:HOH202 4.6 24.0 1.0 N7 K:G83 4.7 20.7 1.0 C8 K:G81 4.7 20.3 1.0 O5' K:G82 4.8 20.4 1.0 C5 K:G81 4.9 18.9 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:34.5 occ:0.80 O K:HOH213 2.0 30.4 1.0 O M:HOH236 2.0 29.7 1.0 O K:HOH202 2.1 37.9 1.0 O K:HOH239 2.2 28.3 1.0 O K:HOH220 2.2 21.3 1.0 O K:HOH206 3.3 34.0 1.0 O M:HOH208 3.5 40.5 1.0 N7 K:G85 3.8 24.8 1.0 O6 K:G86 3.9 19.4 1.0 O6 K:G85 4.0 26.2 1.0 O K:HOH215 4.1 31.7 1.0 N7 K:G86 4.3 17.4 1.0 O2 M:0C79 4.4 20.1 1.0 C5 K:G85 4.5 22.8 1.0 C6 K:G85 4.5 23.4 1.0 C6 K:G86 4.8 16.7 1.0 C8 K:G85 4.8 22.7 1.0 C1' M:0C79 4.8 22.0 1.0 O K:HOH229 4.9 31.0 1.0 C5 K:G86 4.9 15.5 1.0 O2' M:0C79 4.9 26.4 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:32.3 occ:0.80 O L:HOH226 2.0 26.7 1.0 O L:HOH210 2.0 32.4 1.0 O L:HOH240 2.1 26.4 1.0 O L:HOH209 2.2 22.2 1.0 O L:HOH225 2.3 31.6 1.0 N7 L:G96 3.8 19.2 1.0 O K:HOH235 3.9 42.9 1.0 O L:HOH218 3.9 27.1 1.0 O6 L:G97 4.1 19.4 1.0 O L:HOH206 4.2 31.8 1.0 N7 L:G97 4.3 17.0 1.0 OP2 L:G96 4.4 21.6 1.0 C8 L:G96 4.4 18.8 1.0 C5 L:G96 4.9 18.8 1.0 C6 L:G97 4.9 18.4 1.0 C5 L:G97 5.0 16.9 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:42.5 occ:0.80 O L:HOH220 2.2 37.9 1.0 O L:HOH238 3.6 41.0 1.0 OP1 L:U95 4.0 20.1 1.0 OP2 L:U95 4.3 19.4 1.0 OP1 L:C94 4.4 16.9 1.0 P L:U95 4.7 18.2 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:27.6 occ:0.60 O M:HOH224 2.1 20.9 1.0 O M:HOH228 2.1 22.8 1.0 N7 M:0G82 2.1 14.5 1.0 O M:HOH218 2.2 20.8 1.0 O M:HOH239 2.2 32.1 1.0 O M:HOH217 2.2 28.0 1.0 C8 M:0G82 3.0 15.1 1.0 C5 M:0G82 3.2 15.9 1.0 O6 M:0G82 3.6 20.3 1.0 C6 M:0G82 3.8 17.3 1.0 OP1 M:0G82 3.9 18.6 1.0 O M:HOH226 3.9 24.6 1.0 O M:HOH231 4.0 35.0 1.0 O N:HOH218 4.1 29.1 1.0 N9 M:0G82 4.2 15.0 1.0 C4 M:0G82 4.3 16.2 1.0 N7 M:0G81 4.4 19.1 1.0 C8 M:0G81 4.6 19.3 1.0 O6 M:0G83 4.6 19.6 1.0 OP1 M:0G81 4.7 23.2 1.0 N7 M:0G83 4.7 16.6 1.0 C5 M:0G81 4.7 19.0 1.0 O5' M:0G82 4.8 18.1 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:33.0 occ:0.80 O M:HOH237 1.5 18.5 1.0 O M:HOH222 1.9 32.0 1.0 O M:HOH209 1.9 23.6 1.0 O M:HOH206 2.2 28.1 1.0 O M:HOH202 2.3 30.5 1.0 N7 M:0G85 2.5 21.5 1.0 C8 M:0G85 3.3 19.9 1.0 C5 M:0G85 3.6 19.9 1.0 O6 M:0G85 3.9 25.3 1.0 OP1 M:0G85 3.9 23.2 1.0 O M:HOH203 4.1 34.1 1.0 C6 M:0G85 4.1 21.7 1.0 N7 M:0G86 4.2 17.3 1.0 C5 M:0C84 4.3 17.4 1.0 C4 M:0C84 4.4 17.1 1.0 O6 M:0G86 4.4 16.6 1.0 O M:HOH234 4.4 34.3 1.0 N4 M:0C84 4.5 16.9 1.0 N9 M:0G85 4.5 19.3 1.0 C4 M:0G85 4.7 18.6 1.0 C6 M:0C84 4.8 17.2 1.0 N3 M:0C84 4.8 16.3 1.0 O5' M:0G85 4.9 19.7 1.0 C5 M:0G86 4.9 16.9 1.0 C6 M:0G86 5.0 17.9 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:37.7 occ:0.80 O N:HOH226 1.9 34.6 1.0 O N:HOH206 2.0 22.4 1.0 O N:HOH212 2.1 32.0 1.0 O L:HOH233 2.1 32.4 1.0 O N:HOH232 2.3 35.1 1.0 N7 N:0G96 4.0 21.5 1.0 N7 N:0G97 4.3 16.4 1.0 O6 N:0G97 4.3 20.3 1.0 O K:HOH233 4.4 41.5 1.0 O L:HOH234 4.6 35.8 1.0 C8 N:0G96 4.7 20.9 1.0 OP1 N:0G96 4.7 26.6 1.0 C5 N:0U95 4.7 21.4 1.0 C4 N:0U95 4.8 20.6 1.0 O2 L:C90 4.9 21.6 1.0 O4 N:0U95 4.9 21.8 1.0 O L:HOH235 5.0 43.4 1.0 O6 N:0G96 5.0 22.7 1.0

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