2Y1O	Ligase	date	Dec 09, 2010
title	Dual-Target Inhibitor Of Murd And Mure Ligases: Design, Synt Binding Mode Studies
authors	T.Tomasic, R.Sink, A.Kovac, S.Turk, C.Contreras-Martel, A.Dessen, S.Gobec, A.Zega, D.Kikelj, L.Peterlin-Masic
compound		source
Molecule: Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase Chain: A Synonym: D-Glutamic Acid-Adding Enzyme, Udp-N-Acetylmuramoy Alanyl-D-Glutamate Synthetase, Murd Ligase; Ec: 6.3.2.9 Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 668369 Strain: Dh5[Alpha] Expression_system: Escherichia Coli Expression_system_taxid: 668369 Expression_system_strain: Dh5[Alpha] Expression_system_plasmid: Pabd16murd
symmetry	Space Group: P 41	R_factor 0.205 R_Free 0.228
crystal cell	length a length b length c angle alpha angle beta angle gamma 65.844 65.844 135.747 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.49 Å
ligand	DMS, KCX, SO4, T26	enzyme	Ligase E.C.6.3.2.9 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Dual Inhibitor of MurD and MurE Ligases from Escherichia coli and Staphylococcus aureus., Tomasic T, Sink R, Zidar N, Fic A, Contreras-Martel C, Dessen A, Patin D, Blanot D, Muller-Premru M, Gobec S, Zega A, Kikelj D, Masic LP, ACS Med Chem Lett. 2012 Jun 27;3(8):626-30. doi: 10.1021/ml300047h. eCollection, 2012 Aug 9. PMID:24900523

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk] Biological Unit Coordinates (2y1o.pdb1.gz) 147 Kb LPC: Ligand-Protein Contacts for 2Y1O CSU: Contacts of Structural Units for 2Y1O Structure Factors (1145 Kb) Retrieve 2Y1O in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2Y1O from S2C, [Save to disk] Re-refined 2y1o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2Y1O 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 2Y1O

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 2Y1O, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2y1o] [2y1o_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 2Y1O

Community annotation for 2Y1O at PDBWiki (http://pdbwiki.org)

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