Magnesium in PDB 1tui: Intact Elongation Factor Tu in Complex with Gdp

The structure of Intact Elongation Factor Tu in Complex with Gdp, PDB code: 1tui was solved by G.Polekhina, S.Thirup, M.Kjeldgaard, P.Nissen, C.Lippmann, J.Nyborg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.70
Space group	P 63 2 2
Cell size a, b, c (Å), α, β, γ (°)	175.900, 175.900, 223.800, 90.00, 90.00, 120.00
R / Rfree (%)	23.5 / 30.6

The binding sites of Magnesium atom in the Intact Elongation Factor Tu in Complex with Gdp (pdb code 1tui). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Intact Elongation Factor Tu in Complex with Gdp, PDB code: 1tui:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Intact Elongation Factor Tu in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Intact Elongation Factor Tu in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg408 b:24.3 occ:1.00 OG1 A:THR25 2.1 54.5 1.0 O2B A:GDP407 2.3 27.5 1.0 O A:HOH419 2.3 18.6 1.0 O A:CYS82 3.1 38.5 1.0 OD2 A:ASP81 3.4 20.6 1.0 CB A:THR25 3.4 39.0 1.0 PB A:GDP407 3.5 44.5 1.0 OD1 A:ASP81 3.8 26.2 1.0 CG A:ASP81 3.9 18.5 1.0 O1B A:GDP407 4.0 6.8 1.0 N A:THR25 4.0 30.1 1.0 C A:CYS82 4.0 34.2 1.0 CA A:PRO83 4.1 30.1 1.0 CA A:THR25 4.2 35.4 1.0 O3B A:GDP407 4.3 19.6 1.0 CB A:LYS24 4.4 8.3 1.0 N A:PRO83 4.4 31.7 1.0 NZ A:LYS24 4.5 15.6 1.0 CG2 A:THR25 4.5 19.6 1.0 O3A A:GDP407 4.6 12.4 1.0 CE A:LYS24 4.6 21.1 1.0 O A:PRO83 4.6 48.5 1.0 C A:LYS24 4.7 36.8 1.0 C A:PRO83 4.8 44.6 1.0 OH A:TYR88 5.0 29.9 1.0

Magnesium binding site 2 out of 3 in the Intact Elongation Factor Tu in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Intact Elongation Factor Tu in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg408 b:22.5 occ:1.00 OG1 B:THR25 2.1 49.4 1.0 O B:HOH419 2.3 9.3 1.0 O2B B:GDP407 2.5 20.6 1.0 CB B:THR25 3.3 16.0 1.0 PB B:GDP407 3.5 36.8 1.0 O3B B:GDP407 3.5 48.8 1.0 O B:CYS82 3.7 32.3 1.0 OD2 B:ASP81 3.9 28.6 1.0 N B:THR25 3.9 20.3 1.0 CA B:THR25 4.1 20.1 1.0 OD1 B:ASP81 4.2 37.0 1.0 O1B B:GDP407 4.2 10.2 1.0 CA B:PRO83 4.2 25.3 1.0 CG2 B:THR25 4.3 10.9 1.0 CG B:ASP81 4.4 21.9 1.0 C B:CYS82 4.4 38.1 1.0 NZ B:LYS24 4.4 26.4 1.0 O3A B:GDP407 4.6 15.0 1.0 O B:PRO83 4.6 50.0 1.0 CB B:LYS24 4.6 22.9 1.0 N B:PRO83 4.7 28.3 1.0 C B:LYS24 4.7 33.2 1.0 O1A B:GDP407 4.7 9.3 1.0 C B:PRO83 4.9 45.2 1.0 CE B:LYS24 4.9 41.8 1.0 OD1 B:ASP51 4.9 42.8 1.0

Magnesium binding site 3 out of 3 in the Intact Elongation Factor Tu in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Intact Elongation Factor Tu in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg408 b:26.3 occ:1.00 OG1 C:THR25 2.1 52.0 1.0 O2B C:GDP407 2.3 19.6 1.0 O C:HOH419 2.3 10.2 1.0 CB C:THR25 3.4 27.8 1.0 O C:CYS82 3.5 29.1 1.0 PB C:GDP407 3.7 42.4 1.0 OD2 C:ASP81 3.8 31.7 1.0 CA C:PRO83 3.9 25.2 1.0 O3B C:GDP407 4.2 28.9 1.0 C C:CYS82 4.2 29.8 1.0 CG2 C:THR25 4.3 9.4 1.0 O C:PRO83 4.3 43.3 1.0 N C:THR25 4.4 26.6 1.0 CA C:THR25 4.4 28.1 1.0 N C:PRO83 4.4 25.2 1.0 CG C:ASP81 4.5 25.6 1.0 OD1 C:ASP81 4.5 35.6 1.0 O1B C:GDP407 4.5 7.5 1.0 OD1 C:ASP51 4.5 41.2 1.0 C C:PRO83 4.6 39.5 1.0 O3A C:GDP407 4.7 10.0 1.0 O1A C:GDP407 4.8 10.3 1.0 CB C:PRO83 4.9 20.1 1.0

G.Polekhina, S.Thirup, M.Kjeldgaard, P.Nissen, C.Lippmann, J.Nyborg. Helix Unwinding in the Effector Region of Elongation Factor Ef-Tu-Gdp. Structure V. 4 1141 1996.
ISSN: ISSN 0969-2126
PubMed: 8939739
DOI: 10.1016/S0969-2126(96)00122-0