2DRE Plant Protein date Jun 08, 2006
title Crystal Structure Of Water-Soluble Chlorophyll Protein From Lepidium Virginicum At 2.00 Angstrom Resolution
authors D.Horigome, H.Satoh, N.Itoh, K.Mitsunaga, I.Oonishi, A.Nakagawa, A.Uchida
compound source
Molecule: Water-Soluble Chlorophyll Protein
Chain: A, B, C, D
Fragment: Residues 1-180
 Organism_scientific: Lepidium Virginicum
Organism_taxid: 59292
Tissue: Leaf
symmetry Space Group: P 21 21 21
R_factor 0.243 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.060 82.730 121.880 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CLA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • endopeptidase inhibitor acti...


    • Primary referenceStructural mechanism and photoprotective function of water-soluble chlorophyll-binding protein., Horigome D, Satoh H, Itoh N, Mitsunaga K, Oonishi I, Nakagawa A, Uchida A, J Biol Chem. 2006 Dec 14;. PMID:17170107
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (2dre.pdb1.gz) 126 Kb
  • LPC: Ligand-Protein Contacts for 2DRE
  • CSU: Contacts of Structural Units for 2DRE
  • Structure Factors (408 Kb)
  • Retrieve 2DRE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DRE from S2C, [Save to disk]
  • Re-refined 2dre structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2DRE 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 2DRE
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2DRE, from MSDmotif at EBI
  • Fold representative 2dre from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dre] [2dre_B] [2dre_D] [2dre_A] [2dre_C]
  • SWISS-PROT database: [O04797]
  • Domain organization of [O04797_LEPVR] by SWISSPFAM
  • Domain found in 2DRE: [STI ] by SMART
    • Other resources with information on 2DRE
  • Community annotation for 2DRE 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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