Magnesium in PDB 5sup: Structure of Mrna Export Factors

All present enzymatic activity of Structure of Mrna Export Factors:
3.6.4.13;

The structure of Structure of Mrna Export Factors, PDB code: 5sup was solved by Y.Ren, P.Schmiege, G.Blobel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.67 / 2.60
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	99.346, 99.346, 247.469, 90.00, 90.00, 120.00
R / Rfree (%)	21.9 / 26.8

The structure of Structure of Mrna Export Factors also contains other interesting chemical elements:

Fluorine

(F)

9 atoms

The binding sites of Magnesium atom in the Structure of Mrna Export Factors (pdb code 5sup). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Mrna Export Factors, PDB code: 5sup:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of Mrna Export Factors


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Mrna Export Factors within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:24.6 occ:1.00 O A:HOH1107 2.1 35.5 1.0 O1B A:ADP1000 2.1 30.5 1.0 F3 A:BEF1001 2.2 38.3 1.0 O A:HOH1102 2.2 32.6 1.0 O A:HOH1111 2.2 30.4 1.0 O A:HOH1104 2.3 27.9 1.0 PB A:ADP1000 3.1 30.9 1.0 O2B A:ADP1000 3.1 38.8 1.0 BE A:BEF1001 3.3 34.6 1.0 OG1 A:THR113 3.8 35.1 1.0 OD1 A:ASP215 3.9 35.6 1.0 OE2 A:GLU216 4.1 42.9 1.0 F2 A:BEF1001 4.1 34.4 1.0 O1A A:ADP1000 4.1 35.0 1.0 O3B A:ADP1000 4.2 37.5 1.0 O3A A:ADP1000 4.2 29.0 1.0 OD2 A:ASP215 4.3 48.0 1.0 O A:HOH1112 4.4 35.8 1.0 CA A:GLY369 4.4 36.3 1.0 CE A:LYS112 4.4 36.2 1.0 PA A:ADP1000 4.4 35.6 1.0 F1 A:BEF1001 4.5 41.8 1.0 O2A A:ADP1000 4.5 36.6 1.0 CG A:ASP215 4.5 40.3 1.0 O A:GLY369 4.6 37.5 1.0 NZ A:LYS112 4.7 32.3 1.0 CB A:LYS112 4.7 31.5 1.0 N A:THR113 4.8 36.5 1.0

Magnesium binding site 2 out of 3 in the Structure of Mrna Export Factors


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Mrna Export Factors within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2002 b:37.6 occ:1.00 F3 B:BEF2001 1.9 42.0 1.0 O B:HOH2106 2.0 28.1 1.0 O B:HOH2103 2.1 25.7 1.0 O B:HOH2101 2.1 33.7 1.0 O2B B:ADP2000 2.1 41.0 1.0 O B:HOH2108 2.2 37.6 1.0 BE B:BEF2001 3.1 40.9 1.0 PB B:ADP2000 3.2 36.5 1.0 O3B B:ADP2000 3.3 46.1 1.0 OG1 B:THR113 3.7 32.5 1.0 OD2 B:ASP215 3.7 41.0 1.0 F2 B:BEF2001 4.0 31.6 1.0 OE2 B:GLU216 4.1 36.6 1.0 CA B:GLY369 4.2 38.5 1.0 O2A B:ADP2000 4.2 40.0 1.0 F1 B:BEF2001 4.2 41.2 1.0 OD1 B:ASP215 4.2 43.2 1.0 O1B B:ADP2000 4.3 37.0 1.0 O3A B:ADP2000 4.3 46.9 1.0 CG B:ASP215 4.4 47.1 1.0 O B:GLY369 4.4 37.2 1.0 O1A B:ADP2000 4.5 38.4 1.0 NZ B:LYS112 4.5 38.2 1.0 PA B:ADP2000 4.5 42.2 1.0 O B:HOH2109 4.7 35.6 1.0 CB B:LYS112 4.7 42.1 1.0 C B:GLY369 4.8 33.4 1.0 N B:THR113 4.8 38.5 1.0 NH2 B:ARG399 4.9 34.7 1.0

Magnesium binding site 3 out of 3 in the Structure of Mrna Export Factors


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Mrna Export Factors within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg3002 b:44.8 occ:1.00 O1B C:ADP3000 2.0 47.8 1.0 F3 C:BEF3001 2.1 53.1 1.0 O C:HOH3104 2.1 37.5 1.0 O C:HOH3105 2.1 44.1 1.0 O C:HOH3102 2.2 44.2 1.0 O C:HOH3101 2.3 42.2 1.0 PB C:ADP3000 3.1 47.0 1.0 O2B C:ADP3000 3.3 52.9 1.0 BE C:BEF3001 3.3 47.4 1.0 OD2 C:ASP215 3.7 57.2 1.0 OG1 C:THR113 3.7 53.6 1.0 OD1 C:ASP215 4.1 59.3 1.0 O3B C:ADP3000 4.1 46.3 1.0 OE2 C:GLU216 4.1 42.2 1.0 F2 C:BEF3001 4.1 51.4 1.0 O1A C:ADP3000 4.2 53.2 1.0 O3A C:ADP3000 4.3 41.1 1.0 CG C:ASP215 4.3 62.1 1.0 CE C:LYS112 4.4 47.4 1.0 F1 C:BEF3001 4.4 47.9 1.0 O2A C:ADP3000 4.5 50.6 1.0 PA C:ADP3000 4.5 53.9 1.0 CA C:GLY369 4.5 38.2 1.0 CB C:LYS112 4.6 42.5 1.0 NZ C:LYS112 4.7 44.5 1.0 N C:THR113 4.7 53.0 1.0 O C:GLY369 4.9 47.4 1.0

Y.Ren, P.Schmiege, G.Blobel. Structural and Biochemical Analyses of the Dead-Box Atpase SUB2 in Association with Tho or YRA1. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 28059701
DOI: 10.7554/ELIFE.20070