3P3B Lyase date Oct 04, 2010
title Crystal Structure Of Galacturonate Dehydratase From Geobacil Complexed With D-Tartrate
authors A.A.Fedorov, E.V.Fedorov, F.Groninger-Poe, J.A.Gerlt, S.K.Burley S.C.Almo, New York Sgx Research Center For Structural Genomi (Nysgxrc)
compound source
Molecule: Mandelate Racemasemuconate Lactonizing Protein
Chain: A, B
Synonym: Galacturonate Dehydratase
Engineered: Yes
Organism_scientific: Geobacillus Sp. Y412mc10
Organism_taxid: 481743
Strain: Y412mc10
Gene: Gymc10_3367
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.216 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
158.859 66.051 75.664 90.00 95.48 90.00
method X-Ray Diffractionresolution 1.65 Å
ligand MG, TAR enzyme
Gene GYMC10
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (129 Kb) [Save to disk]
  • Biological Unit Coordinates (3p3b.pdb1.gz) 123 Kb
  • LPC: Ligand-Protein Contacts for 3P3B
  • CSU: Contacts of Structural Units for 3P3B
  • Structure Factors (698 Kb)
  • Retrieve 3P3B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3P3B from S2C, [Save to disk]
  • Re-refined 3p3b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3P3B 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 3P3B
  • 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 3P3B, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3p3b_A] [3p3b_B] [3p3b]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3P3B: [MR_MLE ] by SMART
  • Other resources with information on 3P3B
  • Community annotation for 3P3B at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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