1YBQ	Hydrolase	date	Dec 21, 2004
title	Crystal Structure Of Escherichia Coli Isoaspartyl Dipeptidas D285n Complexed With Beta-Aspartylhistidine
authors	R.Marti-Arbona, V.Fresquet, J.B.Thoden, M.L.Davis, H.M.Holden, F.
compound		source
Molecule: Isoaspartyl Dipeptidase Chain: A Ec: 3.4.19.- Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Iada Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Star Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15
Molecule: Isoaspartyl Dipeptidase Chain: B Ec: 3.4.19.- Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Iada Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Star Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15
symmetry	Space Group: P 4 21 2	R_factor 0.181 R_Free 0.243
crystal cell	length a length b length c angle alpha angle beta angle gamma 119.300 119.300 138.300 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	BDH, KCX, ZN	enzyme	Hydrolase E.C.3.4.19 BRENDA
related structures	by homologous chain: 1ONW, 1PO9
Gene Ontology	Chain Function Process Component A, B
Primary reference	Mechanism of the reaction catalyzed by isoaspartyl dipeptidase from Escherichia coli., Marti-Arbona R, Fresquet V, Thoden JB, Davis ML, Holden HM, Raushel FM, Biochemistry 2005 May 17;44(19):7115-24. PMID:15882050

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (126 Kb) [Save to disk] Biological Unit Coordinates (1ybq.pdb1.gz) 472 Kb LPC: Ligand-Protein Contacts for 1YBQ CSU: Contacts of Structural Units for 1YBQ Likely Quarternary Molecular Structure file(s) for 1YBQ Structure Factors (613 Kb) Retrieve 1YBQ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YBQ from S2C, [Save to disk] Re-refined 1ybq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YBQ 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 1YBQ

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 1YBQ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ybq_A] [1ybq_B] [1ybq] SWISS-PROT database: [P39377] Domain organization of [IADA_ECOLI] by SWISSPFAM

Other resources with information on 1YBQ

Community annotation for 1YBQ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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