ISDA

Deposition Date 2016-05-18

Release Date 2016-10-19

Last Version Date 2024-03-06

Entry Detail

PDB ID:

5K1X

Keywords:

LIGASE

Title:

Catalytic domain of polyspecific pyrrolysyl-tRNA synthetase mutant Y306A/N346A/C348A/Y384F in complex with AMPPNP

Biological Source:

Source Organism:

Methanosarcina mazei (Taxon ID: 2209)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.95 Å

R-Value Free:

0.22

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

C 1 2 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Pyrrolysine--tRNA ligase
Gene (Uniprot):pylS
Mutations:Y306A, N346A, C348A, Y384F
Chain IDs:A
Chain Length:274
Number of Molecules:1
Biological Source:Methanosarcina mazei

UniProt ID:Q8PWY1 Pfam ID:PF01409 EC:6.1.1.26

Ligand Molecules

ANP

EDO

PEG

Primary Citation

Genetically encoded fluorophenylalanines enable insights into the recognition of lysine trimethylation by an epigenetic reader.

Lee, Y.J, Schmidt, M.J, Tharp, J.M, Weber, A, Koenig, A.L, Zheng, H, Gao, J, Waters, M.L, Summerer, D, Liu, W.R.Show

Chem.Commun.(Camb.) 52 12606 12609 (2016)

PMID: 27711380 DOI: 10.1039/c6cc05959g

Abstact

Fluorophenylalanines bearing 2-5 fluorine atoms at the phenyl ring have been genetically encoded by amber codon. Replacement of F59, a phenylalanine residue that is directly involved in interactions with trimethylated K9 of histone H3, in the Mpp8 chromodomain recombinantly with fluorophenylalanines significantly impairs the binding to a K9-trimethylated H3 peptide.

Legend

Protein

Chemical

Disease

Primary Citation of related structures