Magnesium in PDB 7sxm: Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis

All present enzymatic activity of Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis:
2.8.4.1;

The structure of Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis, PDB code: 7sxm was solved by P.Y.-T.Chen, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.63 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	81.956, 115.741, 123.4, 90, 92.53, 90
R / Rfree (%)	17.8 / 21.8

The structure of Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis also contains other interesting chemical elements:

Nickel	(Ni)	2 atoms
Sodium	(Na)	1 atom
Xenon	(Xe)	8 atoms

The binding sites of Magnesium atom in the Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis (pdb code 7sxm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis, PDB code: 7sxm:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:37.5 occ:1.00 O A:HOH932 2.1 38.7 1.0 O A:HOH783 2.1 41.6 1.0 O A:HOH901 2.2 41.1 1.0 O A:HOH723 2.2 35.5 1.0 O A:HOH731 2.2 36.8 1.0 O A:ACT603 2.3 37.8 1.0 C A:ACT603 3.4 37.5 1.0 NZ A:LYS531 3.6 38.5 1.0 CH3 A:ACT603 3.9 33.3 1.0 OE2 A:GLU528 4.2 35.6 1.0 O A:HOH860 4.3 41.9 1.0 OE1 A:GLU528 4.4 35.8 1.0 OXT A:ACT603 4.5 35.0 1.0 O A:VAL519 4.6 33.1 1.0 CD A:GLU528 4.7 36.8 1.0 CE A:LYS531 4.8 33.5 1.0

Magnesium binding site 2 out of 2 in the Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Xenon-Derivatized Methyl-Coenzyme M Reductase From Methanothermobacter Marburgensis within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg604 b:34.1 occ:1.00 O D:HOH728 2.0 39.9 1.0 OXT D:ACT605 2.1 32.7 1.0 O D:HOH720 2.1 34.3 1.0 O D:HOH746 2.2 28.7 1.0 O D:HOH905 2.2 36.6 1.0 O D:HOH733 2.2 44.7 1.0 C D:ACT605 3.3 33.5 1.0 NZ D:LYS531 3.9 35.7 1.0 CH3 D:ACT605 4.1 32.6 1.0 OE2 D:GLU528 4.3 31.1 1.0 O D:ACT605 4.3 35.7 1.0 OE1 D:GLU528 4.4 36.0 1.0 O D:HOH906 4.4 44.6 1.0 O D:VAL519 4.5 33.0 1.0 CD D:GLU528 4.7 32.8 1.0 CB D:ASP521 4.9 30.2 1.0

C.J.Ohmer, M.Dasgupta, A.Patwardhan, I.Bogacz, C.Kaminsky, M.D.Doyle, P.Y.Chen, S.M.Keable, H.Makita, P.S.Simon, R.Massad, T.Fransson, R.Chatterjee, A.Bhowmick, D.W.Paley, N.W.Moriarty, A.S.Brewster, L.B.Gee, R.Alonso-Mori, F.Moss, F.D.Fuller, A.Batyuk, N.K.Sauter, U.Bergmann, C.L.Drennan, V.K.Yachandra, J.Yano, J.F.Kern, S.W.Ragsdale. Xfel Serial Crystallography Reveals the Room Temperature Structure of Methyl-Coenzyme M Reductase. J.Inorg.Biochem. V. 230 11768 2022.
ISSN: ISSN 0162-0134
PubMed: 35202981
DOI: 10.1016/J.JINORGBIO.2022.111768