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

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

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Mtmdzlys, PDB code: 6aad 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)	35.02 / 1.44
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	100.917, 43.782, 72.475, 90.00, 119.05, 90.00
R / Rfree (%)	17.1 / 19.5

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

Fluorine	(F)	3 atoms
Magnesium	(Mg)	3 atoms

The binding sites of Potassium atom in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Mtmdzlys (pdb code 6aad). 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 Mtmdzlys, PDB code: 6aad:
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 Mtmdzlys


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 Mtmdzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K506 b:47.9 occ:1.00 O A:HOH611 2.6 41.8 1.0 O A:HOH713 2.9 39.1 1.0 O A:ASN203 2.9 22.6 1.0 O A:HOH840 3.0 41.0 1.0 O A:ASP206 3.1 32.6 1.0 CD2 A:LEU202 3.5 36.2 1.0 CG A:LEU202 3.6 25.2 1.0 O A:PRO204 3.7 29.2 1.0 C A:ASN203 3.8 22.2 1.0 CA A:PRO204 3.9 22.1 1.0 C A:PRO204 3.9 22.7 1.0 C A:ASP206 4.1 27.5 1.0 CD1 A:LEU202 4.1 24.4 1.0 CB A:ASP206 4.3 24.1 1.0 N A:PRO204 4.3 22.0 1.0 N A:ASP206 4.3 25.6 1.0 CA A:ASP206 4.5 26.5 1.0 O A:HOH789 4.6 25.8 1.0 N A:ASN203 4.8 20.8 1.0 N A:LYS205 4.9 25.9 1.0 CB A:LEU202 4.9 21.8 1.0 CA A:ASN203 5.0 21.6 1.0

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


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 Mtmdzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K507 b:45.0 occ:1.00 OE1 A:GLU341 2.7 20.7 1.0 O A:ARG442 2.7 21.4 1.0 O A:HOH689 2.7 28.4 1.0 O A:HOH806 3.4 28.2 1.0 O A:HOH786 3.4 29.7 1.0 C A:ARG442 3.7 20.4 1.0 CD A:GLU341 3.7 19.6 1.0 CB A:GLU341 3.8 15.2 1.0 CB A:ARG442 3.8 16.3 1.0 O A:HOH865 4.0 39.4 1.0 CG A:GLU341 4.1 15.6 1.0 CA A:ARG442 4.2 17.7 1.0 O A:GLU341 4.4 15.5 1.0 N A:ARG442 4.4 16.9 1.0 O A:HOH692 4.6 16.5 1.0 CB A:ALA441 4.7 21.7 1.0 N A:SER443 4.7 24.0 1.0 OE2 A:GLU341 4.8 18.8 1.0 CA A:GLU341 4.9 14.0 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