Magnesium in PDB 7loz: S-Adenosylmethionine Synthetase

All present enzymatic activity of S-Adenosylmethionine Synthetase:
2.5.1.6;

The structure of S-Adenosylmethionine Synthetase, PDB code: 7loz was solved by L.L.Tan, C.J.Jackson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.09 / 2.25
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	122.6, 122.6, 288.835, 90, 90, 120
R / Rfree (%)	19 / 21.1

The binding sites of Magnesium atom in the S-Adenosylmethionine Synthetase (pdb code 7loz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the S-Adenosylmethionine Synthetase, PDB code: 7loz:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the S-Adenosylmethionine Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of S-Adenosylmethionine Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:52.0 occ:1.00 O6 A:POP401 1.9 57.7 1.0 O3 A:PO4402 2.0 57.5 1.0 O3 A:POP401 2.1 57.3 1.0 O A:HOH509 2.2 49.9 1.0 OD2 A:ASP16 2.2 52.1 1.0 O A:HOH535 2.2 46.1 1.0 P2 A:POP401 3.0 53.6 1.0 CG A:ASP16 3.2 51.5 1.0 P1 A:POP401 3.2 51.3 1.0 O A:POP401 3.3 38.9 1.0 P A:PO4402 3.4 70.6 1.0 OD1 A:ASP16 3.6 48.6 1.0 NZ A:LYS245 3.6 43.2 1.0 O5 A:POP401 3.6 57.4 1.0 O B:HOH501 3.9 74.8 1.0 OD2 A:ASP238 3.9 98.8 1.0 O4 A:PO4402 3.9 73.5 1.0 O1 A:POP401 4.1 61.2 1.0 O1 A:PO4402 4.2 63.2 1.0 O4 A:POP401 4.2 53.1 1.0 CE1 A:HIS14 4.3 48.7 1.0 O2 A:POP401 4.3 51.3 1.0 O2 A:PO4402 4.4 78.0 1.0 NH2 A:ARG244 4.5 46.8 1.0 O A:CYS239 4.5 49.2 1.0 CB A:ASP16 4.5 44.8 1.0 CE A:LYS245 4.8 43.1 1.0 NE2 A:HIS14 4.9 50.4 1.0 CB A:ARG244 4.9 48.3 1.0 NE A:ARG244 4.9 45.0 1.0 CZ A:ARG244 5.0 48.3 1.0

Magnesium binding site 2 out of 4 in the S-Adenosylmethionine Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of S-Adenosylmethionine Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg406 b:79.0 occ:1.00 O6 B:POP401 2.3 61.5 1.0 O B:HOH525 2.7 51.5 1.0 O2 B:PO4402 2.9 59.4 0.9 OD2 A:ASP271 2.9 59.1 1.0 OD1 A:ASP271 3.3 65.6 1.0 CG A:ASP271 3.5 59.1 1.0 O2 B:POP401 3.6 70.2 1.0 P2 B:POP401 3.8 57.0 1.0 OE2 B:GLU8 4.1 69.1 1.0 O B:HOH552 4.2 49.9 1.0 P B:PO4402 4.4 61.7 0.9 NZ B:LYS165 4.4 59.4 1.0 O B:POP401 4.5 52.4 1.0 O A:GLN119 4.5 59.0 1.0 CA A:GLY260 4.5 55.0 1.0 NZ B:LYS245 4.5 53.0 1.0 OD2 A:ASP118 4.5 65.5 1.0 O5 B:POP401 4.6 63.5 1.0 P1 B:POP401 4.7 59.5 1.0 O4 B:POP401 4.7 58.8 1.0 OE1 B:GLU8 4.9 65.0 1.0 N A:GLY260 4.9 59.0 1.0 CD B:GLU8 5.0 65.3 1.0 O3 B:PO4402 5.0 50.5 0.9 CB A:ASP271 5.0 59.0 1.0

Magnesium binding site 3 out of 4 in the S-Adenosylmethionine Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of S-Adenosylmethionine Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg403 b:69.3 occ:1.00 O1 A:POP401 2.1 61.2 1.0 O B:HOH512 2.3 56.8 1.0 O A:HOH504 2.4 81.3 1.0 O4 A:PO4402 2.4 73.5 1.0 OD2 B:ASP271 2.8 59.9 1.0 O A:HOH529 2.9 51.3 1.0 O5 A:POP401 3.2 57.4 1.0 OD1 B:ASP271 3.3 57.5 1.0 CG B:ASP271 3.5 55.3 1.0 P1 A:POP401 3.5 51.3 1.0 O B:HOH519 3.9 53.0 1.0 O B:HOH557 3.9 59.0 1.0 P A:PO4402 4.0 70.6 1.0 O A:POP401 4.1 38.9 1.0 P2 A:POP401 4.3 53.6 1.0 O A:HOH544 4.3 49.1 1.0 O3 A:POP401 4.4 57.3 1.0 OD2 B:ASP118 4.4 53.5 1.0 O2 A:POP401 4.5 51.3 1.0 NZ A:LYS245 4.5 43.2 1.0 OE2 A:GLU8 4.5 59.8 1.0 CA B:GLY260 4.6 51.6 1.0 NZ A:LYS165 4.6 50.7 1.0 O1 A:PO4402 4.6 63.2 1.0 O3 A:PO4402 4.6 57.5 1.0 O B:GLN119 4.7 48.4 1.0 O2 A:PO4402 4.8 78.0 1.0 CB B:ASP271 5.0 48.8 1.0

Magnesium binding site 4 out of 4 in the S-Adenosylmethionine Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of S-Adenosylmethionine Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg404 b:59.2 occ:1.00 O4 B:POP401 2.0 58.8 1.0 O3 B:PO4402 2.1 50.5 0.9 O B:HOH527 2.1 56.4 1.0 O1 B:POP401 2.2 63.7 1.0 O B:HOH520 2.3 58.2 1.0 OD2 B:ASP16 2.3 60.9 1.0 P2 B:POP401 3.3 57.0 1.0 P1 B:POP401 3.3 59.5 1.0 CG B:ASP16 3.3 62.2 1.0 O A:HOH525 3.4 91.4 1.0 O B:POP401 3.4 52.4 1.0 OD1 B:ASP16 3.5 63.3 1.0 P B:PO4402 3.6 61.7 0.9 NZ B:LYS245 3.7 53.0 1.0 O2 B:POP401 3.9 70.2 1.0 O6 B:POP401 4.1 61.5 1.0 O2 B:PO4402 4.2 59.4 0.9 O B:HOH518 4.2 70.8 1.0 CE1 B:HIS14 4.2 63.3 1.0 O4 B:PO4402 4.3 55.0 0.9 O5 B:POP401 4.3 63.5 1.0 OD2 B:ASP238 4.4 112.6 1.0 O B:CYS239 4.4 63.9 0.4 O B:CYS239 4.4 64.1 0.6 O1 B:PO4402 4.5 70.3 0.9 NH2 B:ARG244 4.5 61.0 1.0 O3 B:POP401 4.5 70.5 1.0 CB B:ASP16 4.6 51.9 1.0 CE B:LYS245 4.7 54.8 1.0 CB B:ARG244 4.8 48.2 1.0 NE2 B:HIS14 4.9 65.4 1.0 CZ B:ARG244 4.9 57.1 1.0 NE B:ARG244 5.0 57.8 1.0

P.Laurino, C.J.Jackson. S-Adenosylmethionine Synthetase To Be Published.