3E4H Plant Protein date Aug 11, 2008
title Crystal Structure Of The Cyclotide Varv F
authors S.H.Hu
compound source
Molecule: Varv Peptide F,Varv Peptide F
Chain: A
 Organism_scientific: Viola Arvensis
Organism_common: European Field Pansy
Organism_taxid: 97415
symmetry Space Group: I 41 3 2
R_factor 0.224 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.081 84.081 84.081 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
note 3E4H is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCombined X-ray and NMR Analysis of the Stability of the Cyclotide Cystine Knot Fold That Underpins Its Insecticidal Activity and Potential Use as a Drug Scaffold., Wang CK, Hu SH, Martin JL, Sjogren T, Hajdu J, Bohlin L, Claeson P, Goransson U, Rosengren KJ, Tang J, Tan NH, Craik DJ, J Biol Chem. 2009 Apr 17;284(16):10672-83. Epub 2009 Feb 10. PMID:19211551
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (10 Kb) [Save to disk]
  • Biological Unit Coordinates (3e4h.pdb1.gz) 5 Kb
  • Biological Unit Coordinates (3e4h.pdb2.gz) 16 Kb
  • CSU: Contacts of Structural Units for 3E4H
  • Likely Quarternary Molecular Structure file(s) for 3E4H
  • Structure Factors (41 Kb)
  • Retrieve 3E4H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3E4H from S2C, [Save to disk]
  • Re-refined 3e4h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3E4H 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 3E4H
  • 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 3E4H, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3e4h_A] [3e4h]
  • SWISS-PROT database: [P58451]
  • Domain organization of [VARF_VIOAR] by SWISSPFAM
    • Other resources with information on 3E4H
  • Community annotation for 3E4H at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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