2ZW9	Transferase	date	Dec 01, 2008
title	Crystal Structure Of Trna Wybutosine Synthesizing Enzyme Tyw
authors	Y.Suzuki, A.Noma, T.Suzuki, R.Ishitani, O.Nureki
compound		source
Molecule: Leucine Carboxyl Methyltransferase 2 Chain: A, B Synonym: Trna Wybutosine-Synthesizing Protein 4 Ec: 2.1.1.- Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932 Gene: Ppm2, Tyw4, Yol141w Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Codonplus Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21
symmetry	Space Group: P 21 21 21	R_factor 0.193 R_Free 0.245
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.442 88.628 256.115 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	SAM	enzyme	Transferase E.C.2.1.1 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4., Suzuki Y, Noma A, Suzuki T, Ishitani R, Nureki O, Nucleic Acids Res. 2009 May;37(9):2910-25. Epub 2009 Mar 14. PMID:19287006

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (221 Kb) [Save to disk] Biological Unit Coordinates (2zw9.pdb1.gz) 110 Kb Biological Unit Coordinates (2zw9.pdb2.gz) 110 Kb LPC: Ligand-Protein Contacts for 2ZW9 CSU: Contacts of Structural Units for 2ZW9 Likely Quarternary Molecular Structure file(s) for 2ZW9 Structure Factors (409 Kb) Retrieve 2ZW9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZW9 from S2C, [Save to disk] Re-refined 2zw9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ZW9 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 2ZW9

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 2ZW9, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zw9_A] [2zw9_B] [2zw9] SWISS-PROT database: [Q08282] Domain organization of [LCMT2_YEAST] by SWISSPFAM Domain found in 2ZW9: [Kelch ] by SMART

Other resources with information on 2ZW9

Community annotation for 2ZW9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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