Manganese in PDB 1y3o: Hiv-1 Dis Rna Subtype F- Mn Soaked

The structure of Hiv-1 Dis Rna Subtype F- Mn Soaked, PDB code: 1y3o was solved by E.Ennifar, P.Dumas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.70
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	27.341, 117.358, 94.672, 90.00, 90.00, 90.00
R / Rfree (%)	22 / 28

The structure of Hiv-1 Dis Rna Subtype F- Mn Soaked also contains other interesting chemical elements:

Bromine	(Br)	2 atoms
Sodium	(Na)	3 atoms

The binding sites of Manganese atom in the Hiv-1 Dis Rna Subtype F- Mn Soaked (pdb code 1y3o). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Hiv-1 Dis Rna Subtype F- Mn Soaked, PDB code: 1y3o:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn100 b:71.8 occ:0.84 N7 A:G10 2.6 56.8 1.0 C8 A:G10 3.5 56.9 1.0 C5 A:G10 3.7 55.2 1.0 O6 A:G10 3.8 48.8 1.0 C6 A:G10 4.1 52.4 1.0 N1 B:A16 4.3 46.9 1.0 OP1 A:G10 4.5 55.8 1.0 N9 A:G10 4.7 57.6 1.0 C4 A:G10 4.8 56.7 1.0 C2 B:A16 4.8 47.3 1.0

Manganese binding site 2 out of 4 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn101 b:56.0 occ:0.58 N7 B:G10 2.4 61.0 1.0 C8 B:G10 3.4 60.7 1.0 C5 B:G10 3.5 59.3 1.0 O6 B:G10 3.6 56.3 1.0 C6 B:G10 3.9 57.7 1.0 OP1 B:G10 4.4 59.7 1.0 N1 A:A16 4.5 53.1 1.0 N9 B:G10 4.6 60.3 1.0 C4 B:G10 4.7 60.0 1.0

Manganese binding site 3 out of 4 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn102 b:60.8 occ:0.65 O6 A:G7 4.0 52.4 1.0 O4 A:U6 4.4 52.4 1.0 N7 A:G7 4.4 52.9 1.0 C6 A:G7 4.9 51.9 1.0 C4 A:U6 4.9 54.0 1.0 C5 A:U6 5.0 54.5 1.0

Manganese binding site 4 out of 4 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn103 b:40.6 occ:0.45 O6 B:G12 3.8 51.8 1.0 O6 A:G12 3.9 44.2 1.0 O4 A:U11 4.4 48.5 1.0 N4 A:C13 4.6 43.2 1.0 N4 B:C13 4.6 53.7 1.0 O4 B:U11 4.8 59.6 1.0 C6 B:G12 5.0 52.5 1.0 C6 A:G12 5.0 46.7 1.0

E.Ennifar, P.Dumas. Polymorphism of Bulged-Out Residues in Hiv-1 Rna Dis Kissing Complex and Structure Comparison with Solution Studies. J.Mol.Biol. V. 356 771 2006.
ISSN: ISSN 0022-2836
PubMed: 16403527
DOI: 10.1016/J.JMB.2005.12.022