Potassium in PDB 6ab1: Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys

All present enzymatic activity of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys:
6.1.1.26;

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys, PDB code: 6ab1 was solved by T.Yanagisawa, M.Kuratani, S.Yokoyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.07 / 1.38
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.435, 44.314, 72.713, 90.00, 118.47, 90.00
R / Rfree (%)	17.5 / 19.6

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys also contains other interesting chemical elements:

Magnesium

(Mg)

3 atoms

The binding sites of Potassium atom in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys (pdb code 6ab1). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys, PDB code: 6ab1:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K506 b:68.2 occ:1.00 O A:ASP206 2.6 30.9 1.0 O A:HOH709 2.6 28.0 1.0 O A:HOH892 2.6 61.2 1.0 O A:PRO204 2.7 31.9 1.0 O A:HOH880 2.7 71.3 1.0 C A:PRO204 3.7 27.0 1.0 C A:ASP206 3.8 43.3 1.0 O A:HOH837 3.9 31.7 1.0 O A:HOH672 4.3 50.2 1.0 CA A:PRO204 4.3 25.2 1.0 O A:HOH831 4.4 54.7 1.0 N A:ASP206 4.5 25.3 1.0 O A:ASN203 4.5 24.6 1.0 O A:HOH893 4.6 40.7 1.0 CA A:GLU207 4.6 57.0 1.0 C A:LYS205 4.7 35.7 1.0 N A:GLU207 4.7 41.4 1.0 CA A:ASP206 4.8 40.0 1.0 N A:LYS205 4.8 25.1 1.0 CB A:GLU207 5.0 43.0 1.0

Potassium binding site 2 out of 2 in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oazzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K507 b:71.0 occ:1.00 O A:HOH712 2.5 30.5 1.0 O A:HOH929 2.7 40.1 1.0 O A:HOH825 2.8 31.2 1.0 N A:GLU341 3.2 16.1 1.0 N A:GLU340 3.3 17.9 1.0 O A:HOH645 3.7 32.9 1.0 CB A:GLU340 3.8 21.6 1.0 CA A:GLU340 3.8 17.4 1.0 CB A:GLU341 3.9 15.8 1.0 C A:GLU340 3.9 16.3 1.0 O A:HOH848 4.0 49.8 1.0 CA A:GLU341 4.1 16.0 1.0 O A:HOH955 4.1 50.6 1.0 O A:GLU341 4.1 16.4 1.0 C A:LEU339 4.2 16.9 1.0 CB A:LEU339 4.2 17.6 1.0 O A:HOH780 4.3 27.5 1.0 CA A:LEU339 4.4 16.5 1.0 O A:HOH943 4.5 42.7 1.0 C A:GLU341 4.6 14.9 1.0 O A:HOH674 4.6 43.9 1.0 CD2 A:LEU339 4.6 20.3 1.0 CG A:GLU340 4.7 24.1 1.0

T.Yanagisawa, M.Kuratani, E.Seki, N.Hino, K.Sakamoto, S.Yokoyama. Structural Basis For Genetic-Code Expansion with Bulky Lysine Derivatives By An Engineered Pyrrolysyl-Trna Synthetase. Cell Chem Biol V. 26 936 2019.
ISSN: ESSN 2451-9456
PubMed: 31031143
DOI: 10.1016/J.CHEMBIOL.2019.03.008