Potassium in PDB 6aao: Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Tco*Lys

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

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Tco*Lys, PDB code: 6aao 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)	35.13 / 1.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.588, 43.971, 72.739, 90.00, 118.72, 90.00
R / Rfree (%)	15.2 / 19.6

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Tco*Lys 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 Tco*Lys (pdb code 6aao). 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 Tco*Lys, PDB code: 6aao:
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 Tco*Lys


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 Tco*Lys within 5.0Å range: probe atom residue distance (Å) B Occ A:K506 b:54.1 occ:1.00 O A:HOH606 2.6 40.9 1.0 O A:HOH608 2.9 43.1 1.0 O A:HOH842 2.9 45.6 1.0 O A:ASN203 3.1 22.7 1.0 O A:ASP206 3.2 31.3 1.0 O A:PRO204 3.6 28.0 1.0 CA A:PRO204 3.9 24.9 1.0 CG A:LEU202 3.9 23.3 1.0 CD2 A:LEU202 3.9 25.6 1.0 C A:PRO204 3.9 27.6 1.0 C A:ASN203 4.0 22.9 1.0 C A:ASP206 4.1 28.6 1.0 CD1 A:LEU202 4.2 23.9 1.0 N A:ASP206 4.3 27.0 1.0 CB A:ASP206 4.3 24.8 1.0 N A:PRO204 4.4 23.5 1.0 CA A:ASP206 4.5 26.8 1.0 N A:LYS205 4.8 27.8 1.0 O A:HOH779 4.8 26.1 1.0

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


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 Tco*Lys within 5.0Å range: probe atom residue distance (Å) B Occ A:K507 b:63.7 occ:1.00 OE1 A:GLU341 2.7 21.7 1.0 O A:ARG442 2.8 25.1 1.0 O A:HOH808 3.4 37.7 1.0 O A:HOH804 3.6 32.2 1.0 CD A:GLU341 3.7 19.8 1.0 CB A:GLU341 3.7 16.4 1.0 C A:ARG442 3.8 24.3 1.0 O A:HOH883 3.8 47.6 1.0 CB A:ARG442 3.9 20.1 1.0 CG A:GLU341 4.0 17.8 1.0 O A:GLU341 4.2 17.7 1.0 CA A:ARG442 4.2 20.3 1.0 N A:ARG442 4.4 19.6 1.0 NZ A:LYS438 4.4 46.9 1.0 O A:HOH692 4.4 19.7 1.0 CB A:ALA441 4.6 22.6 1.0 OG A:SER443 4.7 29.6 0.5 CA A:GLU341 4.8 16.6 1.0 N A:SER443 4.8 26.1 0.6 OE2 A:GLU341 4.8 20.2 1.0 N A:SER443 4.8 25.9 0.5 C A:GLU341 4.9 15.9 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