4AFY	Hydrolase	date	Jan 23, 2012
title	Crystal Structure Of The Fimx Eal Domain In Complex With Rea Product Pgpg
authors	J.Robert-Paganin, S.Nonin-Lecomte, S.Rety
compound		source
Molecule: Fimx Chain: A, B Fragment: Eal Domain, Residues 439-691 Ec: 3.1.4.52 Engineered: Yes		Organism_scientific: Pseudomonas Aeruginosa Pao1 Organism_taxid: 208964 Gene: Pa4959 Expression_system: Escherichia Coli Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_variant: Rosetta 2 Expression_system_vector_type: Plasmid Expression_system_vector: Pet15b
Molecule: 5'-R(Gpgp)-3' Chain: C, D Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 43 21 2	R_factor 0.209 R_Free 0.239
crystal cell	length a length b length c angle alpha angle beta angle gamma 104.330 104.330 154.240 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.01 Å
ligand	MG, NA	enzyme	Hydrolase E.C.3.1.4.52 BRENDA
Primary reference	Crystal Structure of an EAL Domain in Complex with Reaction Product 5'-pGpG., Robert-Paganin J, Nonin-Lecomte S, Rety S, PLoS One. 2012;7(12):e52424. doi: 10.1371/journal.pone.0052424. Epub 2012 Dec 20. PMID:23285035

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk] Biological Unit Coordinates (4afy.pdb1.gz) 86 Kb LPC: Ligand-Protein Contacts for 4AFY CSU: Contacts of Structural Units for 4AFY Structure Factors (762 Kb) Retrieve 4AFY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4AFY from S2C, [Save to disk] Re-refined 4afy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4AFY 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 4AFY

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 4AFY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4afy_B] [4afy_C] [4afy_D] [4afy] [4afy_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 4AFY: [EAL ] by SMART

Other resources with information on 4AFY

Community annotation for 4AFY at PDBWiki (http://pdbwiki.org)

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