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Magnesium in PDB 3p4a: 2'Fluoro Modified Rna Octamer FA2U2

Protein crystallography data

The structure of 2'Fluoro Modified Rna Octamer FA2U2, PDB code: 3p4a was solved by M.Manoharan, A.Akinc, R.K.Pandey, J.Qin, P.Hadwiger, M.John, K.Mills, K.Charisse, M.A.Maier, L.Nechev, E.M.Greene, P.S.Pallan, E.Rozners, K.G.Rajeev, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.20
Space group P 3
Cell size a, b, c (Å), α, β, γ (°) 43.245, 43.245, 60.791, 90.00, 90.00, 120.00
R / Rfree (%) 17 / 23.4

Other elements in 3p4a:

The structure of 2'Fluoro Modified Rna Octamer FA2U2 also contains other interesting chemical elements:

Fluorine (F) 52 atoms
Strontium (Sr) 9 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 2'Fluoro Modified Rna Octamer FA2U2 (pdb code 3p4a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the 2'Fluoro Modified Rna Octamer FA2U2, PDB code: 3p4a:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3p4a

Go back to Magnesium Binding Sites List in 3p4a
Magnesium binding site 1 out of 2 in the 2'Fluoro Modified Rna Octamer FA2U2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 2'Fluoro Modified Rna Octamer FA2U2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg711

b:20.0
occ:0.33
O C:HOH976 2.0 12.8 0.5
O C:HOH979 2.1 12.1 0.6
O C:HOH978 2.2 14.7 0.5
O C:HOH977 2.3 17.5 0.5
O B:HOH980 4.2 12.6 1.0
O C:HOH732 4.3 13.1 1.0
O C:HOH724 4.3 15.0 1.0
O C:HOH714 4.3 14.0 1.0

Magnesium binding site 2 out of 2 in 3p4a

Go back to Magnesium Binding Sites List in 3p4a
Magnesium binding site 2 out of 2 in the 2'Fluoro Modified Rna Octamer FA2U2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 2'Fluoro Modified Rna Octamer FA2U2 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg712

b:21.7
occ:0.33
O F:HOH1001 2.0 0.9 0.1
O F:HOH755 2.1 8.6 0.3
O F:HOH777 2.1 12.8 0.6
O F:HOH894 2.2 10.8 0.4
O F:HOH1000 3.5 19.9 0.5
O E:HOH719 4.2 11.7 1.0
O F:HOH722 4.3 15.8 1.0

Reference:

P.S.Pallan, E.M.Greene, P.A.Jicman, R.K.Pandey, M.Manoharan, E.Rozners, M.Egli. Unexpected Origins of the Enhanced Pairing Affinity of 2'-Fluoro-Modified Rna. Nucleic Acids Res. V. 39 3482 2011.
ISSN: ISSN 0305-1048
PubMed: 21183463
DOI: 10.1093/NAR/GKQ1270
Page generated: Mon Dec 14 08:38:41 2020

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