Zinc in PDB 7a9r: Racemic Compound of Rna Duplexes.

The structure of Racemic Compound of Rna Duplexes., PDB code: 7a9r was solved by W.Rypniewski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.70 / 2.46
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	21.095, 25.955, 38.514, 104.6, 96.8, 91.77
R / Rfree (%)	17.8 / 28.4

The binding sites of Zinc atom in the Racemic Compound of Rna Duplexes. (pdb code 7a9r). 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: 7a9r:
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:37.9 occ:0.60 N7 K:0G82 2.1 31.0 1.0 O K:HOH207 2.1 21.6 1.0 O K:HOH205 2.2 26.0 1.0 O K:HOH218 2.2 38.1 1.0 O K:HOH224 2.3 25.4 1.0 O K:HOH210 2.6 29.3 1.0 C8 K:0G82 2.9 30.7 1.0 C5 K:0G82 3.2 30.7 1.0 O6 K:0G82 3.6 34.2 1.0 C6 K:0G82 3.7 33.4 1.0 O K:HOH216 3.9 34.1 1.0 OP1 K:0G82 3.9 35.7 1.0 O K:HOH208 3.9 19.4 1.0 N7 K:0G81 4.1 34.5 1.0 N9 K:0G82 4.2 31.7 1.0 C4 K:0G82 4.3 31.7 1.0 OP1 K:0G81 4.4 40.1 1.0 C8 K:0G81 4.4 35.1 1.0 C5 K:0G81 4.5 32.7 1.0 O5' K:0G82 4.7 30.1 1.0 N9 K:0G81 4.9 36.1 1.0 N7 K:0G83 4.9 30.4 1.0 C4 K:0G81 4.9 33.2 1.0 O6 K:0G83 4.9 32.3 1.0 P K:0G82 4.9 33.2 1.0 C3' K:0G81 4.9 34.2 1.0 O5' K:0G81 5.0 39.6 1.0 C6 K:0G81 5.0 31.6 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:65.5 occ:0.80 O K:HOH206 1.7 37.3 1.0 O K:HOH201 2.0 20.3 1.0 O K:HOH202 2.6 37.7 1.0 O K:HOH217 3.1 35.8 1.0 O K:HOH209 3.4 38.9 1.0 N7 K:0G85 3.6 36.2 1.0 O M:HOH215 3.6 27.6 1.0 O6 K:0G86 3.8 21.0 1.0 N7 K:0G86 4.0 25.7 1.0 C8 K:0G85 4.4 36.8 1.0 O6 K:0G85 4.4 30.2 1.0 C5 K:0G85 4.5 33.2 1.0 O2 M:C79 4.6 27.5 1.0 C6 K:0G86 4.6 21.9 1.0 C5 K:0G86 4.7 23.1 1.0 C6 K:0G85 4.8 32.9 1.0 C1' M:C79 4.8 35.0 1.0 O2' M:C79 4.9 42.0 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:53.9 occ:1.00 O L:HOH219 2.0 27.1 1.0 O L:HOH201 2.2 83.3 1.0 O L:HOH204 2.3 34.1 1.0 O L:HOH208 2.4 33.1 1.0 O L:HOH206 2.5 31.4 1.0 O L:HOH221 2.9 35.8 1.0 O L:HOH207 3.4 53.0 1.0 N7 L:0G96 4.0 38.3 1.0 O6 L:0G97 4.1 21.6 1.0 O K:HOH225 4.2 58.6 1.0 N7 L:0G97 4.3 25.1 1.0 O L:HOH203 4.3 36.2 1.0 OP1 L:0G96 4.4 36.5 1.0 C8 L:0G96 4.5 41.1 1.0 O4 L:0U95 4.9 30.2 1.0 C6 L:0G97 4.9 22.1 1.0 C5 L:0U95 4.9 31.0 1.0 C4 L:0U95 4.9 29.9 1.0 C5 L:0G97 5.0 23.2 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:65.4 occ:0.60 O L:HOH222 4.1 30.8 1.0 OP1 L:0U95 4.3 28.8 1.0 OP2 L:0U95 4.4 31.1 1.0 OP2 L:0C94 4.6 23.5 1.0 P L:0U95 4.9 32.8 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:36.7 occ:0.60 N7 M:G82 2.1 21.7 1.0 O M:HOH213 2.1 28.1 1.0 O M:HOH202 2.2 16.1 1.0 O M:HOH205 2.2 38.3 1.0 O M:HOH222 2.5 45.3 1.0 O M:HOH210 2.5 36.1 1.0 C8 M:G82 3.0 20.9 1.0 C5 M:G82 3.2 21.6 1.0 O6 M:G82 3.6 24.9 1.0 O M:HOH214 3.6 34.8 1.0 C6 M:G82 3.7 23.7 1.0 OP2 M:G82 4.0 27.7 1.0 N9 M:G82 4.2 22.0 1.0 C4 M:G82 4.3 23.5 1.0 N7 M:G81 4.3 24.8 1.0 O6 M:G83 4.5 29.3 1.0 C8 M:G81 4.6 25.0 1.0 N7 M:G83 4.7 27.4 1.0 O5' M:G82 4.7 27.2 1.0 C5 M:G81 4.7 23.8 1.0 OP2 M:G81 4.8 31.2 1.0 O M:HOH218 4.8 32.0 1.0 P M:G82 5.0 30.0 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:57.6 occ:0.80 O M:HOH223 1.4 46.8 1.0 O M:HOH203 1.5 29.7 1.0 O M:HOH201 2.2 28.2 1.0 O M:HOH212 2.4 12.6 1.0 N7 M:G85 2.7 27.0 1.0 C8 M:G85 3.4 28.8 1.0 O M:HOH208 3.7 34.1 1.0 OP2 M:G85 3.7 36.6 1.0 C5 M:G85 3.8 25.1 1.0 N7 M:G86 4.0 23.3 1.0 O6 M:G86 4.0 22.0 1.0 O6 M:G85 4.2 24.5 1.0 C6 M:G85 4.4 23.8 1.0 N9 M:G85 4.6 29.2 1.0 C5 M:C84 4.6 30.0 1.0 C4 M:C84 4.7 29.3 1.0 C5 M:G86 4.7 21.3 1.0 C6 M:G86 4.7 20.3 1.0 C4 M:G85 4.8 25.0 1.0 C6 M:C84 4.9 29.9 1.0 O5' M:G85 4.9 36.1 1.0 N3 M:C84 5.0 28.7 1.0 N4 M:C84 5.0 28.9 1.0 P M:G85 5.0 33.7 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:63.7 occ:1.00 O L:HOH220 2.1 31.7 1.0 O L:HOH215 2.1 20.4 1.0 O N:HOH206 2.3 28.8 1.0 O N:HOH202 2.3 35.4 1.0 O N:HOH211 2.7 52.8 1.0 O N:HOH209 2.9 47.5 1.0 O N:HOH208 3.7 45.8 1.0 N7 N:G96 3.9 25.5 1.0 O6 N:G97 4.1 25.5 1.0 N7 N:G97 4.2 24.0 1.0 OP2 N:G96 4.4 47.9 1.0 C4 N:U95 4.5 31.5 1.0 O4 N:U95 4.5 30.9 1.0 C8 N:G96 4.5 26.4 1.0 C5 N:U95 4.5 35.1 1.0 C6 N:G97 4.8 22.6 1.0 C5 N:G96 4.9 23.9 1.0 O2 L:0C90 4.9 23.1 1.0 C5 N:G97 4.9 23.5 1.0 O6 N:G96 5.0 24.2 1.0

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