Magnesium in PDB 3a6p: Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex

The structure of Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex, PDB code: 3a6p was solved by C.Okada, E.Yamashita, S.J.Lee, S.Shibata, J.Katahira, A.Nakagawa, Y.Yoneda, T.Tsukihara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.84 / 2.92
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	71.157, 304.667, 89.230, 90.00, 110.79, 90.00
R / Rfree (%)	24.7 / 31.2

The binding sites of Magnesium atom in the Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex (pdb code 3a6p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex, PDB code: 3a6p:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex


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 Exportin-5:Rangtp:Pre-Mirna Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1178 b:85.8 occ:1.00 OG1 C:THR24 2.0 94.7 1.0 O1G C:GTP1177 2.2 0.8 1.0 O2B C:GTP1177 2.3 0.4 1.0 OG1 C:THR42 2.4 98.4 1.0 OD1 C:ASP65 3.2 0.3 1.0 CB C:THR42 3.3 99.0 1.0 OD2 C:ASP65 3.3 98.2 1.0 CB C:THR24 3.4 94.1 1.0 PB C:GTP1177 3.4 99.3 1.0 N C:THR24 3.5 92.6 1.0 CG C:ASP65 3.6 95.6 1.0 PG C:GTP1177 3.6 0.7 1.0 O1B C:GTP1177 3.6 96.5 1.0 CG2 C:THR42 3.8 98.3 1.0 CA C:THR24 3.9 93.8 1.0 O3B C:GTP1177 4.0 1.0 1.0 CB C:LYS23 4.0 92.1 1.0 O2G C:GTP1177 4.2 0.9 1.0 CG2 C:THR24 4.3 95.9 1.0 CE C:LYS23 4.3 92.6 1.0 C C:LYS23 4.4 92.2 1.0 O C:THR66 4.5 94.9 1.0 NZ C:LYS23 4.6 93.7 1.0 CA C:THR42 4.6 98.8 1.0 O3G C:GTP1177 4.6 98.9 1.0 CA C:LYS23 4.6 92.1 1.0 CA C:ALA67 4.7 97.3 1.0 O C:ASP65 4.8 91.7 1.0 O3A C:GTP1177 4.8 0.3 1.0 N C:LYS23 4.8 91.4 1.0 C C:THR66 4.9 94.7 1.0 N C:THR42 4.9 0.9 1.0 O1A C:GTP1177 4.9 0.3 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Exportin-5:Rangtp:Pre-Mirna Complex


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 Exportin-5:Rangtp:Pre-Mirna Complex within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg1178 b:74.9 occ:1.00 O2B H:GTP1177 2.0 96.3 1.0 OG1 H:THR42 2.1 0.3 1.0 O3G H:GTP1177 2.3 98.5 1.0 OG1 H:THR24 2.6 80.2 1.0 O3B H:GTP1177 2.7 97.9 1.0 PB H:GTP1177 2.8 95.3 1.0 PG H:GTP1177 3.0 98.7 1.0 CB H:THR42 3.2 1.0 1.0 O3A H:GTP1177 3.3 95.2 1.0 N H:THR42 3.6 0.4 1.0 CB H:THR24 3.6 82.3 1.0 O2A H:GTP1177 3.7 95.2 1.0 PA H:GTP1177 3.8 94.7 1.0 O2G H:GTP1177 3.9 0.6 1.0 CA H:THR42 4.0 0.7 1.0 O1A H:GTP1177 4.1 95.3 1.0 O1B H:GTP1177 4.2 92.2 1.0 O H:VAL40 4.2 0.0 1.0 O1G H:GTP1177 4.3 99.8 1.0 N H:THR24 4.3 80.8 1.0 CG2 H:THR42 4.4 0.3 1.0 CE1 H:TYR39 4.5 0.9 1.0 C H:ALA41 4.6 0.1 1.0 CA H:THR24 4.6 82.3 1.0 CG2 H:THR24 4.7 82.1 1.0 CA H:ALA41 4.8 0.4 1.0 OD2 H:ASP65 4.9 95.7 1.0 CD1 H:TYR39 5.0 0.5 1.0

C.Okada, E.Yamashita, S.J.Lee, S.Shibata, J.Katahira, A.Nakagawa, Y.Yoneda, T.Tsukihara. A High-Resolution Structure of the Pre-Microrna Nuclear Export Machinery Science V. 326 1275 2009.
ISSN: ISSN 0036-8075
PubMed: 19965479
DOI: 10.1126/SCIENCE.1178705