3VNI Isomerase date Jan 16, 2012
title Crystal Structures Of D-Psicose 3-Epimerase From Clostridium Cellulolyticum H10 And Its Complex With Ketohexose Sugars
authors H.C.Chan, Y.Zhu, Y.Hu, T.P.Ko, C.H.Huang, F.Ren, C.C.Chen, R.T.Guo,
compound source
Molecule: Xylose Isomerase Domain Protein Tim Barrel
Chain: A, B, C, D
Engineered: Yes
Organism_scientific: Clostridium Cellulolyticum
Organism_taxid: 394503
Strain: H10
Gene: Ccel_0941
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21a
symmetry Space Group: P 1 21 1
R_factor 0.175 R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.761 115.441 91.627 90.00 105.45 90.00
method X-Ray Diffractionresolution 1.98 Å
ligand MN enzyme
Gene CCEL
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal structures of D-psicose 3-epimerase from Clostridium cellulolyticum H10 and its complex with ketohexose sugars., Chan HC, Zhu Y, Hu Y, Ko TP, Huang CH, Ren F, Chen CC, Ma Y, Guo RT, Sun Y, Protein Cell. 2012 Feb;3(2):123-31. Epub 2012 Mar 17. PMID:22426981
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (207 Kb) [Save to disk]
  • Biological Unit Coordinates (3vni.pdb1.gz) 202 Kb
  • LPC: Ligand-Protein Contacts for 3VNI
  • CSU: Contacts of Structural Units for 3VNI
  • Structure Factors (1134 Kb)
  • Retrieve 3VNI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VNI from S2C, [Save to disk]
  • Re-refined 3vni structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VNI 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 3VNI
  • 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 3VNI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vni_C] [3vni_D] [3vni_B] [3vni] [3vni_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3VNI
  • Community annotation for 3VNI at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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