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Magnesium in PDB 3ucu: The C-Di-Gmp-I Riboswitch Bound to Pgpg

Protein crystallography data

The structure of The C-Di-Gmp-I Riboswitch Bound to Pgpg, PDB code: 3ucu was solved by K.D.Smith, S.A.Strobel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) N/A / 2.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 49.088, 45.350, 77.243, 90.00, 96.24, 90.00
R / Rfree (%) 21.5 / 26.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The C-Di-Gmp-I Riboswitch Bound to Pgpg (pdb code 3ucu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the The C-Di-Gmp-I Riboswitch Bound to Pgpg, PDB code: 3ucu:

Magnesium binding site 1 out of 1 in 3ucu

Go back to Magnesium Binding Sites List in 3ucu
Magnesium binding site 1 out of 1 in the The C-Di-Gmp-I Riboswitch Bound to Pgpg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The C-Di-Gmp-I Riboswitch Bound to Pgpg within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg1

b:66.7
occ:1.00
O A:HOH3 2.2 67.3 1.0
O R:HOH676 2.2 67.9 1.0
O R:HOH673 2.2 67.6 1.0
O R:HOH674 2.2 67.5 1.0
O R:HOH675 2.2 67.3 1.0
O5' R:A48 3.0 51.0 1.0
OP2 R:A48 3.2 52.5 1.0
P R:A48 3.6 51.5 1.0
O3' R:A47 3.6 48.9 1.0
O6 A:G2 4.0 51.8 1.0
N1 R:A91 4.2 35.1 1.0
O6 R:G14 4.2 50.9 1.0
C5' R:A48 4.2 49.0 1.0
N6 R:A91 4.3 33.4 1.0
N7 R:G14 4.5 52.4 1.0
O2' R:A47 4.6 49.5 1.0
O4' R:A48 4.7 47.5 1.0
C6 R:A91 4.7 34.5 1.0
C6 R:G14 4.9 50.5 1.0
N4 R:C92 4.9 46.2 1.0
C4' R:A48 4.9 47.6 1.0
C3' R:A47 5.0 47.7 1.0

Reference:

K.D.Smith, S.V.Lipchock, S.A.Strobel. Structural and Biochemical Characterization of Linear Dinucleotide Analogues Bound to the C-Di-Gmp-I Aptamer. Biochemistry V. 51 425 2012.
ISSN: ISSN 0006-2960
PubMed: 22148472
DOI: 10.1021/BI2016662
Page generated: Mon Dec 14 08:56:25 2020

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