4E8G Crystal structure of an enolase (mandelate racemase subgroup) from paracococus denitrificans pd1222 (target nysgrc-012907) with bound mg date
authors Vetting, M.W., Toro, R., Bhosle, R., Wasserman, S.R., Morisco, L.L., Sojitra, S., Chamala, S., Kar, A., Lafleur, J., Villigas, G., Evans, B., Hammonds, J., Gizzi, A., Zencheck, W.D., Hillerich, B., Love, J., Seidel, R.D., Bonanno, J.B., Gerlt, J.A., Almo, S.C., NYSGRC, New.York.Structural.Genomics.Research.Consortium.
compound source
symmetry
R_factor
R_Free 0.2020
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand MG, MSE, UNL enzyme
Gene PDEN
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referencePrediction and biochemical demonstration of a catabolic pathway for the osmoprotectant proline betaine., Kumar R, Zhao S, Vetting MW, Wood BM, Sakai A, Cho K, Solbiati J, Almo SC, Sweedler JV, Jacobson MP, Gerlt JA, Cronan JE, MBio. 2014 Feb 11;5(1):e00933-13. doi: 10.1128/mBio.00933-13. PMID:24520058
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (236 Kb) [Save to disk]
  • Biological Unit Coordinates (4e8g.pdb1.gz) 905 Kb
  • LPC: Ligand-Protein Contacts for 4E8G
  • CSU: Contacts of Structural Units for 4E8G
  • Structure Factors (2887 Kb)
  • Retrieve 4E8G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4E8G from S2C, [Save to disk]
  • Re-refined 4e8g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4E8G 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 4E8G
  • 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 4E8G, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4e8g_A] [4e8g] [4e8g_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4E8G: [MR_MLE ] by SMART
    • Other resources with information on 4E8G
  • Community annotation for 4E8G at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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