Magnesium in PDB 5m0j: Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element

The structure of Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element, PDB code: 5m0j was solved by F.T.Edelmann, R.Janowski, D.Niessing, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.01 / 2.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	219.030, 58.980, 144.680, 90.00, 126.91, 90.00
R / Rfree (%)	19.4 / 24.6

The binding sites of Magnesium atom in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element (pdb code 5m0j). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element, PDB code: 5m0j:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element


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 the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg401 b:62.6 occ:1.00 OE1 D:GLU124 3.7 21.4 1.0 OE2 C:GLU51 3.9 30.9 1.0 CE1 D:TYR116 4.0 35.1 1.0 OH C:TYR116 4.1 24.3 1.0 CD C:GLU51 4.1 26.8 1.0 CG C:GLU51 4.1 26.1 1.0 N C:GLU51 4.2 24.3 1.0 CB D:GLU124 4.2 22.3 1.0 OG1 C:THR54 4.3 24.8 1.0 CG D:GLU124 4.3 22.7 1.0 CA C:GLU51 4.3 25.4 1.0 C C:PHE50 4.3 23.9 1.0 CB D:SER120 4.4 24.0 1.0 OH D:TYR116 4.4 37.3 1.0 O C:PHE50 4.4 26.7 1.0 CD D:GLU124 4.4 22.0 1.0 CB C:PHE50 4.4 22.9 1.0 O D:SER120 4.5 22.6 1.0 C D:SER120 4.5 22.9 1.0 CZ D:TYR116 4.6 34.9 1.0 MG C:MG401 4.6 54.7 1.0 OE2 D:GLU51 4.7 36.7 1.0 N D:LEU121 4.7 23.4 1.0 OE1 C:GLU51 4.8 25.2 1.0 CB C:GLU51 4.8 26.4 1.0 CG D:GLU51 4.8 29.4 1.0 CA D:LEU121 4.9 23.3 1.0 CD1 D:TYR116 4.9 30.9 1.0 OG D:SER120 5.0 26.8 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element


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 the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg401 b:54.7 occ:1.00 CE1 C:TYR116 3.7 26.4 1.0 OE1 C:GLU124 4.0 22.2 1.0 OH C:TYR116 4.0 24.3 1.0 OE2 D:GLU51 4.1 36.7 1.0 CB C:GLU124 4.1 23.4 1.0 CG C:GLU124 4.2 22.3 1.0 CZ C:TYR116 4.2 25.3 1.0 OH D:TYR116 4.3 37.3 1.0 OE2 C:GLU51 4.4 30.9 1.0 CG C:GLU51 4.4 26.1 1.0 CD D:GLU51 4.5 30.6 1.0 CB C:SER120 4.5 25.4 1.0 CG D:GLU51 4.5 29.4 1.0 CD C:GLU124 4.5 22.0 1.0 OG1 D:THR54 4.5 23.1 1.0 O C:SER120 4.5 24.9 1.0 C C:SER120 4.6 24.6 1.0 CA C:LEU121 4.6 26.2 1.0 MG D:MG401 4.6 62.6 1.0 N C:LEU121 4.7 24.6 1.0 CD1 C:TYR116 4.7 25.7 1.0 N D:GLU51 4.7 26.3 1.0 CA D:GLU51 4.8 26.9 1.0 C D:PHE50 4.8 26.4 1.0 CB D:PHE50 4.9 26.8 1.0 O D:PHE50 4.9 25.9 1.0 CD C:GLU51 5.0 26.8 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:50.2 occ:1.00 CE1 B:TYR116 3.8 33.3 1.0 OE2 A:GLU51 4.0 22.9 1.0 OE1 B:GLU124 4.0 28.5 1.0 OH B:TYR116 4.0 36.3 1.0 OH A:TYR116 4.0 29.1 1.0 CG A:GLU51 4.2 21.9 1.0 CD A:GLU51 4.2 21.4 1.0 CB B:GLU124 4.3 25.3 1.0 CG B:GLU124 4.3 26.1 1.0 CZ B:TYR116 4.3 33.1 1.0 MG A:MG401 4.3 70.1 1.0 OG1 A:THR54 4.4 26.6 1.0 N A:GLU51 4.4 23.7 1.0 OE2 B:GLU51 4.5 30.2 1.0 CB B:SER120 4.5 27.9 1.0 CG B:GLU51 4.5 30.0 1.0 CA A:GLU51 4.5 23.6 1.0 CD B:GLU124 4.6 27.7 1.0 O B:SER120 4.6 23.4 1.0 C A:PHE50 4.6 23.8 1.0 C B:SER120 4.7 25.0 1.0 CD1 B:TYR116 4.7 30.2 1.0 O A:PHE50 4.8 22.7 1.0 CA B:LEU121 4.8 23.8 1.0 N B:LEU121 4.8 24.4 1.0 CB A:PHE50 4.9 22.3 1.0 CB A:GLU51 5.0 23.1 1.0 OE1 A:GLU51 5.0 18.8 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the Cytoplasmic Complex with SHE2P, SHE3P, and the ASH1 Mrna E3-Localization Element within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:70.1 occ:1.00 CE1 A:TYR116 3.8 31.0 1.0 OE1 A:GLU124 3.9 24.7 1.0 OH B:TYR116 4.0 36.3 1.0 OE2 B:GLU51 4.0 30.2 1.0 CG B:GLU51 4.1 30.0 1.0 OH A:TYR116 4.2 29.1 1.0 CD B:GLU51 4.2 29.9 1.0 CB A:GLU124 4.3 26.1 1.0 MG B:MG401 4.3 50.2 1.0 OG1 B:THR54 4.3 24.0 1.0 CG A:GLU124 4.3 26.3 1.0 N B:GLU51 4.3 26.3 1.0 CA B:GLU51 4.4 26.5 1.0 CB A:SER120 4.4 29.9 1.0 CZ A:TYR116 4.4 30.5 1.0 C B:PHE50 4.5 28.1 1.0 CD A:GLU124 4.5 24.9 1.0 OE2 A:GLU51 4.5 22.9 1.0 O B:PHE50 4.6 28.4 1.0 O A:SER120 4.6 25.5 1.0 CG A:GLU51 4.7 21.9 1.0 C A:SER120 4.7 26.2 1.0 CB B:PHE50 4.7 28.4 1.0 CD1 A:TYR116 4.7 29.1 1.0 N A:LEU121 4.8 24.6 1.0 CA A:LEU121 4.9 24.0 1.0 CB B:GLU51 4.9 28.3 1.0 OE1 B:GLU51 4.9 27.2 1.0

F.T.Edelmann, A.Schlundt, R.G.Heym, A.Jenner, A.Niedner-Boblenz, M.I.Syed, J.C.Paillart, R.Stehle, R.Janowski, M.Sattler, R.P.Jansen, D.Niessing. Molecular Architecture and Dynamics of ASH1 Mrna Recognition By Its Mrna-Transport Complex. Nat. Struct. Mol. Biol. V. 24 152 2017.
ISSN: ESSN 1545-9985
PubMed: 28092367
DOI: 10.1038/NSMB.3351