Zinc in PDB 7a9o: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 7a9o was solved by W.Rypniewski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.20 / 1.60
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21.189, 26.592, 38.969, 105.79, 97.08, 91.17
R / Rfree (%)	19.1 / 22.8

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 7a9o). 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: 7a9o:
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:18.4 occ:0.60 O K:HOH218 2.0 19.9 1.0 O K:HOH220 2.0 21.5 1.0 O K:HOH202 2.1 20.5 1.0 N7 K:G82 2.1 14.8 1.0 O K:HOH203 2.2 19.5 1.0 O K:HOH229 2.2 24.5 1.0 C8 K:G82 3.0 13.1 1.0 C5 K:G82 3.1 13.7 1.0 O6 K:G82 3.5 15.2 1.0 C6 K:G82 3.7 14.9 1.0 OP2 K:G82 4.0 15.3 1.0 O K:HOH210 4.0 23.9 1.0 N9 K:G82 4.2 14.1 1.0 C4 K:G82 4.3 13.9 1.0 O K:HOH215 4.3 34.1 1.0 N7 K:G81 4.4 17.6 1.0 O6 K:G83 4.6 17.9 1.0 OP2 K:G81 4.6 21.3 1.0 N7 K:G83 4.6 16.7 1.0 C8 K:G81 4.7 15.5 1.0 C5 K:G81 4.8 16.1 1.0 O5' K:G82 4.8 16.9 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:36.3 occ:0.80 O K:HOH222 1.5 20.9 1.0 O K:HOH201 2.2 32.3 1.0 O K:HOH207 2.2 26.9 1.0 O L:HOH239 2.5 38.6 1.0 O K:HOH217 3.1 29.3 1.0 O M:HOH205 3.6 31.3 1.0 N7 K:G85 3.7 23.3 1.0 O K:HOH213 4.0 37.1 1.0 O6 K:G85 4.0 23.5 1.0 O6 K:G86 4.1 15.7 1.0 N7 K:G86 4.4 15.4 1.0 C5 K:G85 4.4 21.1 1.0 C6 K:G85 4.6 20.8 1.0 O K:HOH212 4.6 30.8 1.0 C8 K:G85 4.6 21.1 1.0 O2 M:0C79 4.8 17.0 1.0 N4 K:C84 4.9 19.8 1.0 C6 K:G86 4.9 15.3 1.0 C5 K:C84 4.9 19.1 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:35.4 occ:0.80 O L:HOH228 1.5 19.4 1.0 O L:HOH231 1.7 28.6 1.0 O L:HOH238 2.0 27.5 1.0 O L:HOH209 2.1 23.7 1.0 O L:HOH221 2.1 26.6 1.0 O L:HOH242 2.1 26.7 1.0 N7 L:G96 4.0 17.9 1.0 O6 L:G97 4.1 13.3 1.0 O L:HOH218 4.2 24.7 1.0 N7 L:G97 4.3 13.0 1.0 C8 L:G96 4.7 18.7 1.0 OP2 L:G96 4.8 18.1 1.0 C6 L:G97 4.9 13.6 1.0 C5 L:G96 4.9 18.3 1.0 O6 L:G96 5.0 17.4 1.0 C5 L:G97 5.0 12.3 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:27.2 occ:0.50 O L:HOH232 2.0 37.4 1.0 O L:HOH225 2.1 27.2 1.0 O L:HOH237 3.5 45.8 1.0 OP1 L:U95 4.2 17.6 1.0 OP2 L:U95 4.3 16.9 1.0 OP1 L:C94 4.4 17.1 1.0 P L:U95 4.7 15.8 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:16.5 occ:0.50 O M:HOH238 2.0 29.6 1.0 O M:HOH215 2.0 19.1 1.0 O M:HOH227 2.1 21.9 1.0 O M:HOH219 2.1 20.8 1.0 N7 M:0G82 2.2 11.3 1.0 O M:HOH220 2.2 27.9 1.0 C8 M:0G82 3.1 11.8 1.0 C5 M:0G82 3.3 12.4 1.0 O6 M:0G82 3.6 15.1 1.0 C6 M:0G82 3.8 14.5 1.0 OP1 M:0G82 3.9 16.8 1.0 O M:HOH223 4.0 23.4 1.0 O M:HOH217 4.0 17.0 0.5 O N:HOH209 4.3 23.7 1.0 N9 M:0G82 4.3 11.8 1.0 C4 M:0G82 4.4 12.5 1.0 N7 M:0G81 4.5 18.4 1.0 O6 M:0G83 4.6 15.7 1.0 OP1 M:0G81 4.6 19.9 1.0 C8 M:0G81 4.7 16.5 1.0 N7 M:0G83 4.8 13.6 1.0 C5 M:0G81 4.8 16.8 1.0 O5' M:0G82 4.9 16.1 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:34.0 occ:0.80 O M:HOH237 1.6 20.5 1.0 O M:HOH225 1.9 20.7 1.0 O M:HOH221 2.3 23.9 1.0 O M:HOH203 2.4 24.8 1.0 N7 M:0G85 2.4 15.9 1.0 C8 M:0G85 3.3 16.1 1.0 C5 M:0G85 3.5 15.8 1.0 O6 M:0G85 3.8 18.5 1.0 C6 M:0G85 4.0 17.2 1.0 OP1 M:0G85 4.1 19.5 1.0 O M:HOH202 4.3 28.9 1.0 N7 M:0G86 4.3 14.1 1.0 C5 M:0C84 4.3 15.4 1.0 C4 M:0C84 4.4 15.2 1.0 O6 M:0G86 4.5 15.1 1.0 N9 M:0G85 4.5 16.2 1.0 N4 M:0C84 4.5 16.4 1.0 O M:HOH236 4.6 33.3 1.0 C4 M:0G85 4.6 15.3 1.0 C6 M:0C84 4.8 15.8 1.0 N3 M:0C84 4.8 14.7 1.0 O5' M:0G85 5.0 18.0 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:29.5 occ:0.80 O N:HOH231 1.7 26.4 1.0 O L:HOH236 2.0 27.4 1.0 O N:HOH236 2.1 24.3 1.0 O N:HOH210 2.1 27.5 1.0 O N:HOH203 2.2 35.0 1.0 O N:HOH221 2.3 42.4 1.0 O N:HOH215 3.9 45.6 1.0 N7 N:0G96 4.1 17.6 1.0 O6 N:0G97 4.3 16.5 1.0 N7 N:0G97 4.3 13.9 1.0 OP1 N:0G96 4.4 28.1 1.0 C8 N:0G96 4.7 18.4 1.0 O2 L:C90 4.9 20.0 1.0 C5 N:0U95 4.9 18.8 1.0 C4 N:0U95 5.0 18.0 1.0

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