Zinc in PDB 7a9l: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 7a9l was solved by W.Rypniewski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.87 / 1.98
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21.066, 25.968, 38.566, 105.51, 96.33, 92.16
R / Rfree (%)	17.4 / 25

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 7a9l). 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: 7a9l:
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:29.0 occ:0.60 N7 K:0G82 2.1 21.0 1.0 O K:HOH210 2.1 16.8 1.0 O K:HOH204 2.2 22.4 1.0 O K:HOH215 2.3 29.0 1.0 O K:HOH202 2.5 20.7 1.0 C8 K:0G82 3.0 19.8 1.0 C5 K:0G82 3.2 18.7 1.0 O6 K:0G82 3.7 19.3 1.0 C6 K:0G82 3.8 18.8 1.0 OP1 K:0G82 3.8 26.1 1.0 O K:HOH211 3.8 34.8 1.0 O K:HOH222 4.0 29.3 1.0 N9 K:0G82 4.2 20.1 1.0 C4 K:0G82 4.3 18.9 1.0 N7 K:0G81 4.4 23.1 1.0 OP1 K:0G81 4.6 30.1 1.0 N7 K:0G83 4.6 24.1 1.0 O6 K:0G83 4.6 24.4 1.0 C8 K:0G81 4.7 22.6 1.0 O5' K:0G82 4.7 24.0 1.0 C5 K:0G81 4.8 20.4 1.0 P K:0G82 4.9 23.9 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:51.7 occ:1.00 O K:HOH203 2.0 22.5 1.0 O K:HOH201 2.0 30.0 1.0 O K:HOH207 2.0 22.4 1.0 O K:HOH224 2.4 37.6 1.0 O K:HOH217 2.9 28.9 1.0 N7 K:0G85 3.7 28.4 1.0 O M:HOH214 3.7 34.3 1.0 O K:HOH208 3.9 28.1 1.0 O6 K:0G86 4.0 18.3 1.0 N7 K:0G86 4.2 18.3 1.0 O6 K:0G85 4.3 28.8 1.0 C5 K:0G85 4.5 25.4 1.0 C8 K:0G85 4.5 27.9 1.0 O2 M:C79 4.5 19.3 1.0 C6 K:0G85 4.7 27.7 1.0 O K:HOH218 4.8 27.6 1.0 C6 K:0G86 4.8 18.9 1.0 C1' M:C79 4.9 25.3 1.0 OP1 K:0G85 4.9 35.1 1.0 C5 K:0G86 4.9 18.5 1.0 O2' M:C79 5.0 25.6 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:46.5 occ:1.00 O L:HOH207 1.9 43.9 1.0 O L:HOH216 1.9 33.7 1.0 O L:HOH238 2.4 18.0 1.0 O L:HOH232 3.5 33.7 1.0 N7 L:0G96 3.8 22.3 1.0 O6 L:0G97 4.0 23.7 1.0 N7 L:0G97 4.2 21.9 1.0 C8 L:0G96 4.4 23.0 1.0 OP1 L:0G96 4.4 23.0 1.0 C5 L:0G96 4.8 22.7 1.0 C6 L:0G97 4.8 20.4 1.0 C5 L:0G97 4.9 20.1 1.0 C4 L:0U95 5.0 22.7 1.0 O6 L:0G96 5.0 26.1 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:42.8 occ:0.50 O L:HOH222 2.1 33.0 1.0 O L:HOH217 2.1 32.6 1.0 O L:HOH236 4.1 40.6 1.0 OP2 L:0U95 4.2 24.7 1.0 OP1 L:0U95 4.2 23.7 1.0 OP2 L:0C94 4.4 20.1 1.0 P L:0U95 4.7 22.6 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:35.8 occ:0.60 N7 M:G82 2.2 20.1 1.0 O M:HOH211 2.3 28.5 1.0 O M:HOH202 2.4 30.3 1.0 O M:HOH201 2.6 28.5 1.0 C8 M:G82 3.0 17.9 1.0 C5 M:G82 3.3 19.1 1.0 O6 M:G82 3.7 22.3 1.0 C6 M:G82 3.9 20.9 1.0 OP2 M:G82 3.9 20.3 1.0 O M:HOH218 4.0 26.6 1.0 O M:HOH223 4.1 22.8 1.0 O N:HOH207 4.3 5.9 0.5 N9 M:G82 4.3 17.8 1.0 N7 M:G81 4.3 22.9 1.0 C4 M:G82 4.4 19.1 1.0 C8 M:G81 4.6 22.2 1.0 OP2 M:G81 4.6 25.2 1.0 O6 M:G83 4.7 23.9 1.0 C5 M:G81 4.7 22.9 1.0 N7 M:G83 4.8 19.1 1.0 O5' M:G82 4.8 18.8 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:57.9 occ:1.00 O M:HOH228 1.6 36.7 1.0 O M:HOH219 1.9 17.0 1.0 O M:HOH210 2.1 40.0 1.0 O M:HOH209 2.3 37.5 1.0 N7 M:G85 2.7 21.0 1.0 C8 M:G85 3.4 20.8 1.0 C5 M:G85 3.9 21.4 1.0 O M:HOH205 3.9 34.6 1.0 OP2 M:G85 4.0 28.6 1.0 C5 M:C84 4.3 18.7 1.0 N7 M:G86 4.3 17.9 1.0 O6 M:G85 4.4 21.4 1.0 C4 M:C84 4.4 18.7 1.0 O6 M:G86 4.4 17.3 1.0 C6 M:G85 4.5 20.6 1.0 N4 M:C84 4.6 19.2 1.0 N9 M:G85 4.7 20.5 1.0 C6 M:C84 4.7 19.0 1.0 O M:HOH226 4.8 30.1 1.0 C4 M:G85 4.9 18.6 1.0 N3 M:C84 5.0 18.8 1.0 O5' M:G85 5.0 25.5 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:49.3 occ:1.00 O N:HOH231 2.0 32.8 1.0 O L:HOH226 2.2 31.8 1.0 O L:HOH234 2.3 24.7 1.0 O N:HOH214 2.3 30.6 1.0 O N:HOH213 2.4 30.8 1.0 O N:HOH210 2.5 24.6 1.0 O L:HOH233 4.1 39.0 1.0 N7 N:G96 4.1 23.1 1.0 O6 N:G97 4.2 19.6 1.0 N7 N:G97 4.3 21.0 1.0 O2 L:0C90 4.8 19.4 1.0 C8 N:G96 4.8 22.0 1.0 OP2 N:G96 4.8 31.3 1.0 C5 N:U95 4.9 21.2 1.0 O6 N:G96 4.9 23.0 1.0 C4 N:U95 4.9 20.6 1.0 O4 N:U95 5.0 22.6 1.0 C6 N:G97 5.0 20.3 1.0

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