2Y68	Ligase	date	Jan 20, 2011
title	Structure-Based Design Of A New Series Of D-Glutamic Acid-Ba Inhibitors Of Bacterial Murd Ligase
authors	T.Tomasic, N.Zidar, R.Sink, A.Kovac, D.Patin, D.Blanot, C.Contrera A.Dessen, M.Muller-Premru, A.Zega, S.Gobec, L.Peterlin-Masic, D.
compound		source
Molecule: Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase Chain: A Synonym: Murd Ligase, D-Glutamic Acid-Adding Enzyme, Udp-N- Acetylmuramoyl-L-Alanyl-D-Glutamate Synthetase; Ec: 6.3.2.9 Engineered: Yes		Organism_scientific: Escherichia Coli K-12 Organism_taxid: 83333 Expression_system: Escherichia Coli Dh5[Alpha] Expression_system_taxid: 668369 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pabd16murd
symmetry	Space Group: P 41	R_factor 0.179 R_Free 0.204
crystal cell	length a length b length c angle alpha angle beta angle gamma 65.544 65.544 134.959 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.49 Å
ligand	AZI, CL, DMS, KCX, SO4, T04	enzyme	Ligase E.C.6.3.2.9 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structure-Based Design of a New Series of d-Glutamic Acid Based Inhibitors of Bacterial UDP-N-acetylmuramoyl-l-alanine:d-glutamate Ligase (MurD)., Tomasic T, Zidar N, Sink R, Kovac A, Blanot D, Contreras-Martel C, Dessen A, Muller-Premru M, Zega A, Gobec S, Kikelj D, Peterlin Masic L, J Med Chem. 2011 Jun 3. PMID:21591605

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk] Biological Unit Coordinates (2y68.pdb1.gz) 151 Kb LPC: Ligand-Protein Contacts for 2Y68 CSU: Contacts of Structural Units for 2Y68 Structure Factors (625 Kb) Retrieve 2Y68 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2Y68 from S2C, [Save to disk] Re-refined 2y68 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2Y68 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 2Y68

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 2Y68, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2y68_A] [2y68] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 2Y68

Community annotation for 2Y68 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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