1V3Y	Hydrolase	date	Nov 07, 2003
title	The Crystal Structure Of Peptide Deformylase From Thermus Th Hb8
authors	M.Kamo, N.Kudo, W.C.Lee, K.Ito, H.Motoshim, M.Tanokura, Riken Stru Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Peptide Deformylase Chain: A, B Synonym: Pdf, Polypeptide Deformylase Ec: 3.5.1.88 Engineered: Yes		Organism_scientific: Thermus Thermophilus Organism_taxid: 274 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Plys S Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11a
symmetry	Space Group: P 43	R_factor 0.171 R_Free 0.208
crystal cell	length a length b length c angle alpha angle beta angle gamma 62.582 62.582 105.271 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.81 Å
ligand	OCS	enzyme	Hydrolase E.C.3.5.1.88 BRENDA
Gene Ontology	Chain Function Process Component A, B

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk] Biological Unit Coordinates (1v3y.pdb1.gz) 31 Kb Biological Unit Coordinates (1v3y.pdb2.gz) 31 Kb LPC: Ligand-Protein Contacts for 1V3Y CSU: Contacts of Structural Units for 1V3Y Likely Quarternary Molecular Structure file(s) for 1V3Y Structure Factors (287 Kb) Retrieve 1V3Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1V3Y from S2C, [Save to disk] Re-refined 1v3y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1V3Y 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 1V3Y

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 1V3Y, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1v3ya_, region A [Jmol] [rasmolscript] [script source]     - Domain d1v3yb_, region B [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1v3y_A] [1v3y] [1v3y_B] SWISS-PROT database: [P43522] Domain organization of [DEF_THETH] by SWISSPFAM

Other resources with information on 1V3Y

Community annotation for 1V3Y at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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