Magnesium in PDB 7zhk: Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp)

The structure of Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp), PDB code: 7zhk was solved by L.Korf, L.-O.Essen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.29 / 2.40
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	117.689, 141.878, 100.239, 90, 90, 90
R / Rfree (%)	18.8 / 24.7

The binding sites of Magnesium atom in the Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp) (pdb code 7zhk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp), PDB code: 7zhk:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:40.5 occ:1.00 OG1 A:THR15 2.0 37.4 1.0 O A:HOH405 2.1 33.9 1.0 O1B A:GDP302 2.1 32.7 1.0 O A:HOH433 2.1 30.6 1.0 O A:HOH430 2.1 41.0 1.0 O A:HOH415 2.1 38.6 1.0 CB A:THR15 3.1 47.2 1.0 PB A:GDP302 3.3 40.5 1.0 O2B A:GDP302 3.4 45.1 1.0 N A:THR15 3.9 41.3 1.0 O A:HOH422 3.9 33.9 1.0 O1A A:GDP302 4.0 38.1 1.0 CA A:THR15 4.1 36.7 1.0 O A:HOH451 4.1 49.5 1.0 CG2 A:THR15 4.2 38.0 1.0 OD2 A:ASP102 4.2 43.4 1.0 O3B A:GDP302 4.2 43.6 1.0 OD2 A:ASP38 4.4 60.5 1.0 O3A A:GDP302 4.4 52.6 1.0 OD1 A:ASP102 4.4 40.1 1.0 PA A:GDP302 4.5 41.5 1.0 O2A A:GDP302 4.7 38.5 1.0 CG A:ASP102 4.7 47.5 1.0 O A:THR103 4.7 43.5 1.0 CB A:LYS14 4.9 40.5 1.0 CA A:GLY105 4.9 61.7 1.0 O A:HOH425 4.9 56.0 1.0 CE A:LYS14 4.9 42.9 1.0 C A:LYS14 5.0 42.7 1.0

Magnesium binding site 2 out of 3 in the Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg301 b:52.8 occ:1.00 OG1 B:THR15 2.0 46.8 1.0 O B:HOH409 2.0 39.6 1.0 O B:HOH446 2.1 53.2 1.0 O B:HOH432 2.1 62.4 1.0 O B:HOH411 2.1 42.1 1.0 O1B B:GDP302 2.2 45.1 1.0 CB B:THR15 3.2 46.8 1.0 PB B:GDP302 3.3 42.9 1.0 O3B B:GDP302 3.4 47.6 1.0 N B:THR15 3.9 50.4 1.0 O2A B:GDP302 4.0 44.6 1.0 CA B:THR15 4.1 59.1 1.0 OD2 B:ASP102 4.2 57.6 1.0 OD2 B:ASP38 4.2 64.4 1.0 O2B B:GDP302 4.3 56.3 1.0 CG2 B:THR15 4.3 46.9 1.0 OD1 B:ASP102 4.4 41.4 1.0 O3A B:GDP302 4.4 71.8 1.0 PA B:GDP302 4.6 41.6 1.0 CG B:ASP102 4.7 56.9 1.0 O1A B:GDP302 4.7 30.8 1.0 CE B:LYS14 4.8 36.7 1.0 O B:THR103 4.8 49.6 1.0 CB B:LYS14 4.8 37.2 1.0 CA B:GLY105 5.0 55.3 1.0 C B:LYS14 5.0 52.5 1.0

Magnesium binding site 3 out of 3 in the Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Open State (Gdp) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg301 b:61.0 occ:1.00 O3B C:GDP302 2.0 48.0 1.0 OG1 C:THR15 2.0 65.7 1.0 O C:HOH407 2.1 44.0 1.0 O C:HOH427 2.1 59.4 1.0 O C:HOH425 2.1 51.8 1.0 O C:HOH408 2.2 54.7 1.0 CB C:THR15 3.2 57.4 1.0 PB C:GDP302 3.2 47.2 1.0 O1B C:GDP302 3.4 40.1 1.0 N C:THR15 3.9 60.2 1.0 O1A C:GDP302 3.9 46.9 1.0 CA C:THR15 4.1 62.1 1.0 O2B C:GDP302 4.1 50.8 1.0 CG2 C:THR15 4.2 63.0 1.0 O C:HOH409 4.2 59.8 1.0 O3A C:GDP302 4.3 74.8 1.0 O A:HOH434 4.4 60.7 1.0 OD2 C:ASP102 4.4 57.4 1.0 PA C:GDP302 4.5 50.2 1.0 OD2 C:ASP38 4.5 61.7 1.0 OD1 C:ASP102 4.6 48.5 1.0 O2A C:GDP302 4.6 43.3 1.0 CB C:LYS14 4.8 52.6 1.0 CE C:LYS14 4.8 39.3 1.0 O C:HOH410 4.8 74.3 1.0 CA C:GLY105 4.9 77.3 1.0 O C:THR103 4.9 63.5 1.0 CG C:ASP102 4.9 56.4 1.0 O C:HOH424 4.9 77.6 1.0 CG2 C:VAL41 5.0 62.9 1.0 C C:LYS14 5.0 69.1 1.0

L.Korf, X.Ye, M.S.Vogt, W.Steinchen, S.V.Albers, L.-O.Essen. The Gpn-Loop Gtpase From Sulfolobus Acidocaldarius Shows A Scissors-Like Motion Upon Nucleotide Hydrolysis To Be Published.