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Caesium in PDB 3f2x: Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak.

Protein crystallography data

The structure of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak., PDB code: 3f2x 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 / 3.11
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 71.370, 71.370, 140.938, 90.00, 90.00, 120.00
R / Rfree (%) 19.2 / 21.5

Other elements in 3f2x:

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

Magnesium (Mg) 13 atoms

Caesium Binding Sites:

The binding sites of Caesium atom in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak. (pdb code 3f2x). This binding sites where shown within 5.0 Angstroms radius around Caesium atom.
In total 4 binding sites of Caesium where determined in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak., PDB code: 3f2x:
Jump to Caesium binding site number: 1; 2; 3; 4;

Caesium binding site 1 out of 4 in 3f2x

Go back to Caesium Binding Sites List in 3f2x
Caesium binding site 1 out of 4 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak.


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 1 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak. within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Cs401

b:94.4
occ:0.30
O2 X:FMN200 3.3 78.4 1.0
O6 X:G11 3.5 98.5 1.0
O2' X:FMN200 3.5 78.1 1.0
O3' X:FMN200 3.9 77.4 1.0
N1 X:FMN200 3.9 78.2 1.0
C2 X:FMN200 4.0 78.3 1.0
N7 X:G11 4.2 97.6 1.0
O2' X:G10 4.3 0.9 1.0
N7 X:G10 4.4 0.1 1.0
C6 X:G11 4.4 97.7 1.0
C8 X:G10 4.4 0.8 1.0
C2' X:FMN200 4.6 77.5 1.0
C5 X:G11 4.7 97.6 1.0
C5 X:G10 4.7 0.9 1.0
O6 X:G12 4.7 95.4 1.0
N9 X:G10 4.8 0.8 1.0
C3' X:FMN200 4.8 77.1 1.0
C4 X:G10 5.0 0.9 1.0
C1' X:FMN200 5.0 77.7 1.0

Caesium binding site 2 out of 4 in 3f2x

Go back to Caesium Binding Sites List in 3f2x
Caesium binding site 2 out of 4 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak.


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 2 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak. within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Cs402

b:0.7
occ:0.40
O4 X:U111 3.4 84.5 1.0
O6 X:G2 3.4 0.6 1.0
O4 X:U110 3.5 86.6 1.0
O6 X:GTP1 3.5 0.4 1.0
C6 X:GTP1 4.4 0.6 1.0
C4 X:U111 4.5 84.5 1.0
C6 X:G2 4.5 0.4 1.0
C4 X:U110 4.6 86.8 1.0
N7 X:GTP1 4.6 0.9 1.0
N6 X:A3 4.6 0.5 1.0
N4 X:CCC112 4.6 86.6 1.0
N7 X:G2 4.8 0.5 1.0
C5 X:GTP1 4.8 0.8 1.0
N3 X:U111 4.9 84.5 1.0

Caesium binding site 3 out of 4 in 3f2x

Go back to Caesium Binding Sites List in 3f2x
Caesium binding site 3 out of 4 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak.


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 3 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak. within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Cs403

b:0.3
occ:0.40
O4 X:U37 3.6 1.0 1.0
OP2 X:A40 3.8 96.8 1.0
O6 X:G36 3.8 95.2 1.0
N7 X:G36 4.0 95.2 1.0
N7 X:G35 4.1 97.0 1.0
O6 X:G35 4.2 97.8 1.0
O2' X:A40 4.5 96.6 1.0
C2' X:A40 4.5 96.1 1.0
C6 X:G36 4.6 95.1 1.0
C4 X:U37 4.6 0.7 1.0
C5 X:G35 4.7 96.9 1.0
C5 X:G36 4.7 95.2 1.0
C6 X:G35 4.7 97.2 1.0
P X:A40 4.9 96.5 1.0

Caesium binding site 4 out of 4 in 3f2x

Go back to Caesium Binding Sites List in 3f2x
Caesium binding site 4 out of 4 in the Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak.


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 4 of Crystal Structure of the Fmn Riboswitch Bound to Fmn, Cs+ Soak. within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Cs404

b:0.3
occ:0.40
O6 X:G98 3.4 91.5 1.0
O6 X:G97 3.9 86.2 1.0
O2 X:FMN200 3.9 78.4 1.0
N7 X:G97 4.3 86.1 1.0
C6 X:G97 4.5 85.8 1.0
N6 X:A85 4.5 89.5 1.0
C6 X:G98 4.5 91.2 1.0
C2 X:A99 4.6 0.3 1.0
C5 X:G97 4.6 86.1 1.0
C2 X:FMN200 4.8 78.3 1.0
N1 X:A99 4.9 0.2 1.0
N7 X:G98 5.0 91.2 1.0

Reference:

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
Page generated: Sun Dec 13 10:56:03 2020

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