Magnesium in PDB 6pw3: LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg)

The structure of LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg), PDB code: 6pw3 was solved by R.M.Lahr, A.J.Berman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.24 / 2.34
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	58.582, 87.355, 72.890, 90.00, 93.37, 90.00
R / Rfree (%)	22.1 / 26.7

The binding sites of Magnesium atom in the LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg) (pdb code 6pw3). 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 LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg), PDB code: 6pw3:

Magnesium binding site 1 out of 1 in the LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of LARP1 DM15 Fyre (F844Y, R847E) Mutant Bound to M7GPPPG Dinucleotide (Capg) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:50.8 occ:1.00 HE A:ARG871 2.2 49.0 1.0 HH21 A:ARG871 2.6 53.9 1.0 OE2 A:GLU875 2.8 53.9 1.0 NE A:ARG871 3.0 40.8 1.0 HB2 A:TYR911 3.0 67.0 1.0 HG2 A:GLU875 3.1 51.8 1.0 NH2 A:ARG871 3.3 44.9 1.0 HB3 A:ARG871 3.3 56.2 1.0 HB3 A:TYR911 3.3 67.0 1.0 O A:HOH1105 3.4 40.7 1.0 HG3 A:GLU875 3.5 51.8 1.0 CB A:TYR911 3.5 55.9 1.0 CZ A:ARG871 3.6 41.4 1.0 CG A:GLU875 3.6 43.2 1.0 CD A:GLU875 3.6 44.6 1.0 HG3 A:ARG871 3.7 55.0 1.0 CG A:TYR911 3.9 50.4 1.0 HH22 A:ARG871 4.0 53.9 1.0 HD1 A:TYR911 4.0 62.1 1.0 CB A:ARG871 4.0 46.8 1.0 CG A:ARG871 4.1 45.9 1.0 CD A:ARG871 4.1 46.0 1.0 CD1 A:TYR911 4.2 51.7 1.0 HB2 A:ARG871 4.2 56.2 1.0 HD3 A:ARG871 4.6 55.2 1.0 H A:TYR911 4.6 57.9 1.0 HB3 A:GLN909 4.6 50.2 1.0 CD2 A:TYR911 4.7 50.1 1.0 OE1 A:GLN909 4.8 54.6 1.0 HD2 A:ARG871 4.8 55.2 1.0 OE1 A:GLU875 4.8 45.4 1.0 NH1 A:ARG871 4.9 49.1 1.0 CA A:TYR911 4.9 49.6 1.0 HD2 A:TYR911 5.0 60.1 1.0

K.C.Cassidy, R.M.Lahr, J.C.Kaminsky, S.Mack, B.D.Fonseca, S.R.Das, A.J.Berman, J.D.Durrant. Capturing the Mechanism Underlying Top Mrna Binding to LARP1. Structure 2019.
ISSN: ISSN 0969-2126
PubMed: 31676287
DOI: 10.1016/J.STR.2019.10.006