2YXN	Ligase	date	Apr 26, 2007
title	Structual Basis Of Azido-Tyrosine Recognition By Engineered Tyrosyl-Trna Synthetase
authors	K.Oki, T.Kobayashi, K.Sakamoto, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Tyrosyl-Trna Synthetase Chain: A Fragment: Residues 1-322 Synonym: Tyrosine--Trna Ligase, Tyrrs Ec: 6.1.1.1 Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 316407 Strain: K12 Substr. W3110 Gene: Tyrs Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-2
symmetry	Space Group: P 31 2 1	R_factor 0.199 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 83.155 83.155 93.668 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	AZY	enzyme	Ligase E.C.6.1.1.1 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Functional replacement of the endogenous tyrosyl-tRNA synthetase-tRNATyr pair by the archaeal tyrosine pair in Escherichia coli for genetic code expansion., Iraha F, Oki K, Kobayashi T, Ohno S, Yokogawa T, Nishikawa K, Yokoyama S, Sakamoto K, Nucleic Acids Res. 2010 Jun;38(11):3682-91. Epub 2010 Feb 16. PMID:20159998

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk] Biological Unit Coordinates (2yxn.pdb1.gz) 111 Kb LPC: Ligand-Protein Contacts for 2YXN CSU: Contacts of Structural Units for 2YXN Likely Quarternary Molecular Structure file(s) for 2YXN Structure Factors (288 Kb) Retrieve 2YXN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YXN from S2C, [Save to disk] Re-refined 2yxn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2YXN in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2YXN

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2YXN, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yxn] [2yxn_A] SWISS-PROT database: [P0AGJ9] Domain organization of [SYY_ECOLI] by SWISSPFAM

Other resources with information on 2YXN

Community annotation for 2YXN at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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