Potassium in PDB 6ab2: Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oclzlys

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

The structure of Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oclzlys, PDB code: 6ab2 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 / 1.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.419, 43.887, 72.386, 90.00, 119.45, 90.00
R / Rfree (%)	17 / 19.8

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

Magnesium	(Mg)	3 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Potassium atom in the Crystal Structure of Methanosarcina Mazei Pylrs(Y306A/Y384F) Complexed with Oclzlys (pdb code 6ab2). 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 Oclzlys, PDB code: 6ab2:
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 Oclzlys


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 Oclzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K507 b:86.8 occ:1.00 O A:HOH619 2.7 45.9 1.0 O A:HOH602 2.8 51.5 1.0 O A:HOH836 3.0 34.0 1.0 O A:ASN203 3.0 24.1 1.0 O A:ASP206 3.2 34.5 1.0 O A:PRO204 3.7 32.7 1.0 CD2 A:LEU202 3.7 30.6 1.0 CG A:LEU202 3.7 20.5 1.0 CA A:PRO204 3.9 26.7 1.0 C A:ASN203 3.9 23.7 1.0 C A:PRO204 4.0 28.4 1.0 CD1 A:LEU202 4.1 21.6 1.0 C A:ASP206 4.2 49.7 1.0 CB A:ASP206 4.3 24.8 1.0 N A:PRO204 4.4 24.8 1.0 N A:ASP206 4.4 27.4 1.0 CA A:ASP206 4.5 29.6 1.0 O A:ILE208 4.7 48.3 1.0 O A:HOH771 4.8 24.5 1.0 N A:LYS205 4.9 30.0 1.0 N A:ASN203 4.9 21.0 1.0

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


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 Oclzlys within 5.0Å range: probe atom residue distance (Å) B Occ A:K508 b:76.0 occ:1.00 O A:ARG442 2.6 21.3 1.0 OE1 A:GLU341 2.7 19.2 1.0 O1 A:EDO510 2.7 39.6 1.0 C A:ARG442 3.6 21.8 1.0 CB A:GLU341 3.6 14.1 1.0 CB A:ARG442 3.6 16.5 1.0 C1 A:EDO510 3.6 21.4 1.0 CD A:GLU341 3.6 19.2 1.0 CG A:GLU341 3.8 14.2 1.0 O A:GLU341 3.8 15.5 1.0 O A:HOH685 3.9 18.2 1.0 CA A:ARG442 4.0 16.9 1.0 N A:ARG442 4.0 17.3 1.0 CB A:ALA441 4.2 20.8 1.0 C A:GLU341 4.5 14.6 1.0 NZ A:LYS438 4.6 66.7 1.0 CA A:GLU341 4.6 15.2 1.0 C A:ALA441 4.7 21.2 1.0 N A:SER443 4.7 25.0 1.0 OE2 A:GLU341 4.8 18.4 1.0 CG A:ARG442 4.8 20.0 1.0 C2 A:EDO510 4.8 43.0 1.0 N A:GLU341 4.9 15.0 1.0 CA A:ALA441 5.0 18.3 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