3A25	Transferase	date	Apr 28, 2009
title	Crystal Structure Of P. Horikoshii Tyw2 In Complex With Adom
authors	M.Umitsu, H.Nishimasu, R.Ishitani, O.Nureki
compound		source
Molecule: Uncharacterized Protein Ph0793 Chain: A Synonym: Tyw2 Engineered: Yes		Organism_scientific: Pyrococcus Horikoshii Organism_taxid: 53953 Gene: Ph0793 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
symmetry	Space Group: H 3	R_factor 0.205 R_Free 0.240
crystal cell	length a length b length c angle alpha angle beta angle gamma 131.603 131.603 99.358 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	SAM	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2., Umitsu M, Nishimasu H, Noma A, Suzuki T, Ishitani R, Nureki O, Proc Natl Acad Sci U S A. 2009 Aug 26. PMID:19717466

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk] Biological Unit Coordinates (3a25.pdb1.gz) 47 Kb LPC: Ligand-Protein Contacts for 3A25 CSU: Contacts of Structural Units for 3A25 Structure Factors (224 Kb) Retrieve 3A25 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3A25 from S2C, [Save to disk] Re-refined 3a25 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3A25 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 3A25

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 3A25, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3a25_A] [3a25] SWISS-PROT database: [O58523] Domain organization of [O58523_PYRHO] by SWISSPFAM

Other resources with information on 3A25

Community annotation for 3A25 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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