Magnesium in PDB 2yjf: Oligomeric Assembly of Actin Bound to Mrtf-A

The structure of Oligomeric Assembly of Actin Bound to Mrtf-A, PDB code: 2yjf was solved by S.Mouilleron, C.A.Langer, S.Guettler, N.Q.Mcdonald, R.Treisman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.53 / 3.50
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	182.910, 182.910, 378.281, 90.00, 90.00, 120.00
R / Rfree (%)	23.8 / 27.2

The binding sites of Magnesium atom in the Oligomeric Assembly of Actin Bound to Mrtf-A (pdb code 2yjf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Oligomeric Assembly of Actin Bound to Mrtf-A, PDB code: 2yjf:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Oligomeric Assembly of Actin Bound to Mrtf-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Oligomeric Assembly of Actin Bound to Mrtf-A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1378 b:0.7 occ:1.00 O3G A:ATP1377 2.4 0.9 1.0 O1G A:ATP1377 2.4 0.9 1.0 PG A:ATP1377 2.9 0.9 1.0 OE1 A:GLN137 3.0 93.5 1.0 O1B A:ATP1377 3.6 0.9 1.0 OD2 A:ASP11 3.6 81.2 1.0 O2G A:ATP1377 3.8 0.9 1.0 OD2 A:ASP154 3.8 87.3 1.0 OD1 A:ASP11 4.0 82.9 1.0 OD1 A:ASP154 4.0 87.4 1.0 CG2 A:VAL339 4.0 91.0 1.0 CD A:GLN137 4.1 93.2 1.0 CG A:ASP11 4.2 81.4 1.0 O2A A:ATP1377 4.3 0.9 1.0 O3B A:ATP1377 4.3 0.9 1.0 CG A:ASP154 4.4 86.9 1.0 CB A:VAL339 4.6 89.0 1.0 PB A:ATP1377 4.6 0.9 1.0 CB A:GLN137 4.7 90.8 1.0 CG A:GLN137 4.8 91.4 1.0 CG1 A:VAL339 4.9 89.1 1.0 NE2 A:GLN137 5.0 94.7 1.0

Magnesium binding site 2 out of 5 in the Oligomeric Assembly of Actin Bound to Mrtf-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Oligomeric Assembly of Actin Bound to Mrtf-A within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1378 b:0.7 occ:1.00 O1G B:ATP1377 2.5 0.2 1.0 O3G B:ATP1377 2.5 0.2 1.0 PG B:ATP1377 3.0 0.2 1.0 OE1 B:GLN137 3.2 0.3 1.0 OD2 B:ASP11 3.5 0.3 1.0 O1B B:ATP1377 3.6 0.2 1.0 O2G B:ATP1377 3.9 0.2 1.0 OD1 B:ASP11 3.9 0.3 1.0 OD2 B:ASP154 3.9 1.0 1.0 CG2 B:VAL339 4.0 0.6 1.0 OD1 B:ASP154 4.1 0.3 1.0 CG B:ASP11 4.1 0.8 1.0 CD B:GLN137 4.2 0.6 1.0 O2A B:ATP1377 4.2 0.2 1.0 O3B B:ATP1377 4.3 0.2 1.0 CG B:ASP154 4.5 0.3 1.0 CB B:VAL339 4.5 0.2 1.0 PB B:ATP1377 4.6 0.2 1.0 CB B:GLN137 4.7 0.4 1.0 CG1 B:VAL339 4.8 0.0 1.0 CG B:GLN137 4.8 0.3 1.0 NZ B:LYS18 5.0 0.2 1.0

Magnesium binding site 3 out of 5 in the Oligomeric Assembly of Actin Bound to Mrtf-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Oligomeric Assembly of Actin Bound to Mrtf-A within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1378 b:0.7 occ:1.00 O1G C:ATP1377 2.4 0.7 1.0 O3G C:ATP1377 2.6 0.7 1.0 PG C:ATP1377 3.0 0.7 1.0 OE1 C:GLN137 3.2 0.6 1.0 O1B C:ATP1377 3.6 0.7 1.0 OD2 C:ASP11 3.8 98.6 1.0 O2G C:ATP1377 3.9 0.7 1.0 OD2 C:ASP154 3.9 0.6 1.0 OD1 C:ASP154 4.0 0.2 1.0 CG2 C:VAL339 4.0 98.0 1.0 OD1 C:ASP11 4.1 0.2 1.0 CD C:GLN137 4.2 0.8 1.0 O2A C:ATP1377 4.2 0.7 1.0 O3B C:ATP1377 4.4 0.7 1.0 CG C:ASP11 4.4 0.1 1.0 CG C:ASP154 4.4 0.8 1.0 CB C:VAL339 4.5 99.4 1.0 NZ C:LYS18 4.6 0.1 1.0 PB C:ATP1377 4.7 0.7 1.0 CB C:GLN137 4.7 0.3 1.0 CG C:GLN137 4.8 0.5 1.0 CG1 C:VAL339 4.9 0.5 1.0

Magnesium binding site 4 out of 5 in the Oligomeric Assembly of Actin Bound to Mrtf-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Oligomeric Assembly of Actin Bound to Mrtf-A within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1378 b:0.7 occ:1.00 O1G D:ATP1377 2.5 0.6 1.0 O3G D:ATP1377 2.5 0.6 1.0 PG D:ATP1377 2.9 0.6 1.0 OE1 D:GLN137 3.0 0.6 1.0 OD2 D:ASP11 3.6 93.6 1.0 O1B D:ATP1377 3.6 0.6 1.0 O2G D:ATP1377 3.7 0.6 1.0 OD1 D:ASP11 3.9 91.8 1.0 OD2 D:ASP154 3.9 0.0 1.0 CG2 D:VAL339 4.0 79.5 1.0 OD1 D:ASP154 4.0 0.5 1.0 CD D:GLN137 4.1 0.0 1.0 CG D:ASP11 4.2 92.8 1.0 O3B D:ATP1377 4.3 0.6 1.0 O2A D:ATP1377 4.3 0.6 1.0 CG D:ASP154 4.4 0.7 1.0 CB D:VAL339 4.6 80.4 1.0 CB D:GLN137 4.6 0.3 1.0 PB D:ATP1377 4.6 0.6 1.0 CG D:GLN137 4.8 0.4 1.0 CG1 D:VAL339 4.9 79.9 1.0 NE2 D:GLN137 5.0 0.3 1.0

Magnesium binding site 5 out of 5 in the Oligomeric Assembly of Actin Bound to Mrtf-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Oligomeric Assembly of Actin Bound to Mrtf-A within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1378 b:0.8 occ:1.00 O3G E:ATP1377 2.6 0.6 1.0 O1G E:ATP1377 2.6 0.6 1.0 OE1 E:GLN137 3.0 0.9 1.0 PG E:ATP1377 3.1 0.6 1.0 OD2 E:ASP11 3.6 0.1 1.0 O1B E:ATP1377 3.7 0.6 1.0 OD2 E:ASP154 3.8 0.2 1.0 OD1 E:ASP11 3.9 0.1 1.0 O2G E:ATP1377 3.9 0.6 1.0 CG2 E:VAL339 3.9 0.9 1.0 CD E:GLN137 4.0 0.6 1.0 OD1 E:ASP154 4.1 0.5 1.0 CG E:ASP11 4.2 0.4 1.0 CG E:ASP154 4.4 0.1 1.0 O2A E:ATP1377 4.4 0.6 1.0 O3B E:ATP1377 4.4 0.6 1.0 CB E:VAL339 4.5 1.0 1.0 CB E:GLN137 4.5 0.1 1.0 CG E:GLN137 4.7 0.1 1.0 PB E:ATP1377 4.8 0.6 1.0 CG1 E:VAL339 4.8 0.9 1.0 NE2 E:GLN137 4.9 0.9 1.0

S.Mouilleron, C.A.Langer, S.Guettler, N.Q.Mcdonald, R.Treisman. Structure of A Pentavalent G-Actin*Mrtf-A Complex Reveals How G-Actin Controls Nucleocytoplasmic Shuttling of A Transcriptional Coactivator. Sci Signal V. 4 RA40 2011.
ISSN: ESSN 1937-9145
PubMed: 21673315
DOI: 10.1126/SCISIGNAL.2001750