3V48 Hydrolase date Dec 14, 2011
title Crystal Structure Of The Putative Alphabeta Hydrolase Rutd E.Coli
authors A.A.Knapik, J.J.Petkowski, Z.Otwinowski, M.T.Cymborowski, D.R.Co M.Chruszcz, P.J.Porebski, E.Niedzialkowska, S.C.Almo, W.Minor, N Structural Genomics Research Consortium (Nysgrc)
compound source
Molecule: Putative Aminoacrylate Hydrolase Rutd
Chain: A, B
Synonym: Aminohydrolase
Ec: 3.5.1.-
Engineered: Yes
Organism_scientific: Escherichia Coli Se11
Organism_taxid: 409438
Strain: Xl-1 Blue
Gene: Ecse_1071, Rutd
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21de3ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b, Modified For Tev Cleavag
symmetry Space Group: P 43 21 2
R_factor 0.169 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.597 79.597 161.753 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand GOL, MSE, SCN enzyme Hydrolase E.C.3.5.1 BRENDA
Gene ECSE
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA multi-faceted analysis of RutD reveals a novel family of alpha/beta hydrolases., Knapik AA, Petkowski JJ, Otwinowski Z, Cymborowski MT, Cooper DR, Majorek KA, Chruszcz M, Krajewska WM, Minor W, Proteins. 2012 May 29. doi: 10.1002/prot.24122. PMID:22641504
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (182 Kb) [Save to disk]
  • Biological Unit Coordinates (3v48.pdb1.gz) 171 Kb
  • LPC: Ligand-Protein Contacts for 3V48
  • CSU: Contacts of Structural Units for 3V48
  • Structure Factors (684 Kb)
  • Retrieve 3V48 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V48 from S2C, [Save to disk]
  • Re-refined 3v48 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V48 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 3V48
  • 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 3V48, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v48_A] [3v48_B] [3v48]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3V48
  • Community annotation for 3V48 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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