Magnesium in PDB 3f2t: Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.

The structure of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak., PDB code: 3f2t was solved by A.A.Serganov, L.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 3.00
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	71.493, 71.493, 138.718, 90.00, 90.00, 120.00
R / Rfree (%)	20.8 / 25.2

The structure of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. also contains other interesting chemical elements:

Potassium	(K)	1 atom
Iridium	(Ir)	12 atoms

The binding sites of Magnesium atom in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. (pdb code 3f2t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak., PDB code: 3f2t:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg303 b:89.8 occ:1.00 N7 X:G93 2.3 0.2 1.0 C8 X:G93 3.1 0.7 1.0 C5 X:G93 3.4 0.4 1.0 OP1 X:G93 3.7 0.1 1.0 O6 X:G93 3.8 0.9 1.0 C6 X:G93 4.0 0.9 1.0 O4 X:U94 4.0 0.9 1.0 N9 X:G93 4.4 0.9 1.0 C4 X:G93 4.5 0.8 1.0 O5' X:G93 4.5 0.4 1.0 N7 X:G84 4.6 0.4 1.0 P X:G93 4.7 0.5 1.0 C4 X:U94 4.9 0.2 1.0

Magnesium binding site 2 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg304 b:80.3 occ:1.00 O2P X:FMN200 2.4 66.8 1.0 N7 X:G33 2.5 0.4 1.0 O1P X:FMN200 2.8 66.8 1.0 P X:FMN200 3.2 66.1 1.0 C8 X:G33 3.2 0.0 1.0 O2' X:G41 3.6 0.5 1.0 C5 X:G33 3.7 0.1 1.0 O5' X:FMN200 4.1 67.4 1.0 O6 X:G33 4.2 0.7 1.0 O6 X:G62 4.3 1.0 1.0 N1 X:G10 4.3 0.8 1.0 C6 X:G33 4.4 0.2 1.0 O3P X:FMN200 4.4 69.7 1.0 O4' X:G41 4.4 0.6 1.0 C4' X:G41 4.4 0.4 1.0 N9 X:G33 4.5 0.3 1.0 OP2 X:G33 4.5 0.5 1.0 N1 X:G62 4.5 0.8 1.0 C1' X:G41 4.5 0.8 1.0 N2 X:G10 4.6 0.1 1.0 C2' X:G41 4.6 0.2 1.0 C4 X:G33 4.8 0.0 1.0 C6 X:G62 4.9 0.1 1.0 O6 X:G10 4.9 1.0 1.0 C2 X:G10 4.9 0.8 1.0

Magnesium binding site 3 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg305 b:76.6 occ:1.00 O4 X:U89 2.0 0.9 1.0 OP2 X:A92 2.2 0.7 1.0 C4 X:U89 3.2 0.2 1.0 P X:A92 3.6 0.7 1.0 C5 X:U89 3.9 0.6 1.0 O6 X:G88 3.9 0.5 1.0 N7 X:G88 4.1 0.2 1.0 O3' X:G91 4.2 0.0 1.0 N3 X:U89 4.3 0.3 1.0 OP1 X:A92 4.4 0.8 1.0 C4' X:G91 4.4 0.7 1.0 C3' X:G91 4.4 0.5 1.0 C5' X:G91 4.5 0.9 1.0 C6 X:G88 4.6 0.2 1.0 O5' X:A92 4.6 0.4 1.0 C5 X:G88 4.7 0.3 1.0 C8 X:A92 4.7 0.5 1.0

Magnesium binding site 4 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg307 b:91.5 occ:1.00 OP1 X:G16 4.1 0.9 1.0 OP1 X:G15 4.7 0.4 1.0 C5' X:G15 4.9 1.0 1.0

Magnesium binding site 5 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg311 b:80.1 occ:1.00 N7 X:G32 3.5 0.4 1.0 O6 X:G32 3.7 0.8 1.0 O6 X:G41 4.2 0.5 1.0 C5 X:G32 4.3 0.1 1.0 C6 X:G32 4.4 0.6 1.0 N7 X:G41 4.6 0.4 1.0 C8 X:G32 4.6 0.2 1.0 C6 X:G41 4.9 0.3 1.0 C5 X:C31 4.9 0.7 1.0

Magnesium binding site 6 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg313 b:0.3 occ:1.00 O2' X:A29 4.2 0.5 1.0 O3' X:A29 4.3 0.9 1.0 N3 X:A14 4.4 0.5 1.0 OP1 X:C30 4.7 0.8 1.0 C2 X:A14 4.7 0.2 1.0

Magnesium binding site 7 out of 7 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Iridium Hexamine Soak. within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg315 b:0.4 occ:1.00 OP2 X:U6 3.4 0.5 1.0 P X:U6 4.4 0.5 1.0 OP1 X:U6 4.5 0.7 1.0

A.Serganov, L.Huang, D.J.Patel. Coenzyme Recognition and Gene Regulation By A Flavin Mononucleotide Riboswitch. Nature V. 458 233 2009.
ISSN: ISSN 0028-0836
PubMed: 19169240
DOI: 10.1038/NATURE07642