Manganese in PDB 7jrr: Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures

The structure of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures, PDB code: 7jrr was solved by D.Liu, Y.Shao, J.A.Piccirilli, Y.Weizmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.16 / 2.16
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	40.219, 40.219, 202.43, 90, 90, 90
R / Rfree (%)	22.6 / 26

The structure of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Manganese atom in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures (pdb code 7jrr). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 6 binding sites of Manganese where determined in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures, PDB code: 7jrr:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6;

Manganese binding site 1 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn102 b:58.1 occ:1.00 OP1 A:G40 2.1 57.1 1.0 OP2 A:G40 2.9 69.1 1.0 P A:G40 2.9 55.6 1.0 O3' A:G39 4.0 56.7 1.0 N7 A:G40 4.1 47.7 1.0 C8 A:G40 4.1 45.9 1.0 O5' A:G40 4.1 61.2 1.0 C2' A:G39 4.2 58.8 1.0 C3' A:G39 4.3 59.9 1.0 O2' A:G39 4.6 57.2 1.0

Manganese binding site 2 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn103 b:67.6 occ:1.00 O A:HOH209 2.3 49.3 1.0 N7 A:GTP1 2.5 48.5 1.0 O2B A:GTP1 3.1 73.6 1.0 C8 A:GTP1 3.2 50.7 1.0 O3A A:GTP1 3.7 90.5 1.0 C5 A:GTP1 3.7 50.1 1.0 PB A:GTP1 3.9 98.6 1.0 O6 A:GTP1 4.0 45.9 1.0 O6 A:G51 4.1 49.8 1.0 C6 A:GTP1 4.3 49.3 1.0 O2G A:GTP1 4.4 76.8 1.0 N9 A:GTP1 4.5 47.4 1.0 N7 A:G51 4.7 53.7 1.0 O1B A:GTP1 4.7 89.8 1.0 C4 A:GTP1 4.7 43.2 1.0 C6 A:G51 4.8 50.8 1.0

Manganese binding site 3 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn104 b:42.6 occ:1.00 O A:HOH220 2.0 31.7 1.0 OP2 A:G7 2.0 29.0 1.0 P A:G7 3.4 37.2 1.0 OP1 A:G7 3.9 35.1 1.0 O5' A:G7 4.2 30.9 1.0 O3' A:G6 4.4 38.9 1.0 OP1 A:G6 4.5 36.5 1.0 O5' A:G6 4.6 33.1 1.0 C3' A:G6 4.7 33.3 1.0 OP2 A:G6 4.7 45.1 1.0 C8 A:G7 4.8 38.4 1.0 P A:G6 4.8 32.5 1.0

Manganese binding site 4 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn105 b:104.1 occ:1.00 O6 A:G44 3.4 86.3 1.0 N7 A:G44 3.5 89.8 1.0 N7 A:G43 3.9 85.5 1.0 C6 A:G44 4.1 88.2 1.0 C5 A:G44 4.1 92.1 1.0 O4 A:U45 4.3 94.2 1.0 O6 A:G43 4.4 85.0 1.0 C8 A:G44 4.6 92.2 1.0 C5 A:G43 4.7 87.8 1.0 C8 A:G43 4.8 84.4 1.0 O4 A:U42 4.9 77.0 1.0 C6 A:G43 4.9 85.2 1.0

Manganese binding site 5 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn106 b:85.0 occ:1.00 O3G A:GTP1 2.8 82.4 1.0 OP2 A:G2 3.0 62.0 1.0 O2G A:GTP1 3.0 76.8 1.0 PG A:GTP1 3.1 96.9 1.0 O1G A:GTP1 3.1 90.7 1.0 N7 A:G2 3.5 48.2 1.0 C8 A:G2 3.7 54.3 1.0 P A:G2 3.8 70.5 1.0 O5' A:G2 3.8 57.5 1.0 O A:HOH239 3.9 50.9 1.0 N7 A:A3 4.2 52.6 1.0 OP2 A:A3 4.3 56.2 1.0 O3' A:GTP1 4.4 68.6 1.0 C5 A:G2 4.4 51.2 1.0 C3' A:GTP1 4.5 63.8 1.0 N9 A:G2 4.6 51.5 1.0 O3B A:GTP1 4.7 90.4 1.0 C3' A:G2 4.9 58.1 1.0 C8 A:A3 5.0 48.3 1.0

Manganese binding site 6 out of 6 in the Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn107 b:103.2 occ:1.00 O A:HOH218 2.3 54.2 1.0 O6 A:G7 4.4 40.4 1.0 OP2 A:G5 4.6 51.4 1.0 N7 A:G6 4.6 38.1 1.0 OP2 A:G6 4.9 45.1 1.0

D.Liu, Y.Shao, J.A.Piccirilli, Y.Weizmann. Crystal Structures of Artificially Designed Homomeric Rna Nanoarchitectures To Be Published.