2DYU	Hydrolase	date	Sep 18, 2006
title	Helicobacter Pylori Formamidase Amif Contains A Fine-Tuned C Glutamate-Lysine Catalytic Triad
authors	W.C.Wang, C.L.Hung
compound		source
Molecule: Formamidase Chain: A, B Synonym: Formamide Amidohydrolase Ec: 3.5.1.49 Engineered: Yes		Organism_scientific: Helicobacter Pylori Organism_taxid: 85962 Strain: 26695 Gene: Amif Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm109 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pqe30
symmetry	Space Group: H 3	R_factor 0.174 R_Free 0.215
crystal cell	length a length b length c angle alpha angle beta angle gamma 147.215 147.215 72.273 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.75 Å
ligand		enzyme	Hydrolase E.C.3.5.1.49 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structure of Helicobacter pylori formamidase AmiF reveals a cysteine-glutamate-lysine catalytic triad., Hung CL, Liu JH, Chiu WC, Huang SW, Hwang JK, Wang WC, J Biol Chem. 2007 Apr 20;282(16):12220-9. Epub 2007 Feb 16. PMID:17307742

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (118 Kb) [Save to disk] Biological Unit Coordinates (2dyu.pdb1.gz) 338 Kb CSU: Contacts of Structural Units for 2DYU Likely Quarternary Molecular Structure file(s) for 2DYU Structure Factors (374 Kb) Retrieve 2DYU in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DYU from S2C, [Save to disk] Re-refined 2dyu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DYU 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 2DYU

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 2DYU, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dyu_B] [2dyu] [2dyu_A] SWISS-PROT database: [O25836] Domain organization of [AMIF_HELPY] by SWISSPFAM

Other resources with information on 2DYU

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

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