2Q8Y	Lyase Transferase	date	Jun 12, 2007
title	Structural Insight Into The Enzymatic Mechanism Of The Phoph Lyase
authors	Y.Q.Zhu, D.C.Wang, F.Shao
compound		source
Molecule: 27.5 Kda Virulence Protein Chain: A Ec: 4.2.-.- Engineered: Yes Mutation: Yes		Organism_scientific: Salmonella Enteritidis Organism_taxid: 592 Gene: Mkad, Spvc, Vsdd Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-2
Molecule: Mitogen-Activated Protein Kinase 7 Chain: B Synonym: Extracellular Signal-Regulated Kinase 5, Erk-5, Er Kinase; Ec: 2.7.11.24 Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 21 21 21	R_factor 0.181 R_Free 0.217
crystal cell	length a length b length c angle alpha angle beta angle gamma 37.367 71.842 96.060 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	PTR, TPO	enzyme	Lyase E.C.4.2 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structural insights into the enzymatic mechanism of the pathogenic MAPK phosphothreonine lyase., Zhu Y, Li H, Long C, Hu L, Xu H, Liu L, Chen S, Wang DC, Shao F, Mol Cell. 2007 Dec 14;28(5):899-913. Epub 2007 Nov 29. PMID:18060821

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk] Biological Unit Coordinates (2q8y.pdb1.gz) 40 Kb LPC: Ligand-Protein Contacts for 2Q8Y CSU: Contacts of Structural Units for 2Q8Y Likely Quarternary Molecular Structure file(s) for 2Q8Y Structure Factors (923 Kb) Retrieve 2Q8Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2Q8Y from S2C, [Save to disk] Re-refined 2q8y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2Q8Y 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 2Q8Y

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 2Q8Y, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2q8y] [2q8y_B] [2q8y_A] SWISS-PROT database: [P0A2N1] Domain organization of [VRP3_SALEN] by SWISSPFAM

Other resources with information on 2Q8Y

Community annotation for 2Q8Y at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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