1V6I Sugar Binding Protein date Dec 01, 2003
title Peanut Lectin-Lactose Complex In Acidic Ph
authors S.Kundhavai Natchiar, A.Arockia Jeyaprakash, T.N.C.Ramya, C.J.T K.Suguna, A.Surolia, M.Vijayan
compound source
Molecule: Galactose-Binding Lectin
Chain: A, B, C, D
Synonym: Agglutinin, Pna
 Organism_scientific: Arachis Hypogaea
Organism_common: Peanut
Organism_taxid: 3818
Tissue: Seed
symmetry Space Group: P 21 21 2
R_factor 0.184 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
128.609 125.749 76.049 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand CA, GAL, GLC, MN enzyme
related structures by homologous chain: 2PEL
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural plasticity of peanut lectin: an X-ray analysis involving variation in pH, ligand binding and crystal structure., Kundhavai Natchiar S, Arockia Jeyaprakash A, Ramya TN, Thomas CJ, Suguna K, Surolia A, Vijayan M, Acta Crystallogr D Biol Crystallogr 2004 Feb;60(Pt 2):211-9. Epub 2004 Jan, 23. PMID:14747696
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (1v6i.pdb1.gz) 148 Kb
  • LPC: Ligand-Protein Contacts for 1V6I
  • CSU: Contacts of Structural Units for 1V6I
  • Likely Quarternary Molecular Structure file(s) for 1V6I
  • Structure Factors (545 Kb)
  • Retrieve 1V6I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V6I from S2C, [Save to disk]
  • Re-refined 1v6i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1V6I 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 1V6I
  • 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 1V6I, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v6ia_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1v6ib_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1v6ic_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1v6id_, region D [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v6i] [1v6i_D] [1v6i_C] [1v6i_B] [1v6i_A]
  • SWISS-PROT database: [P02872]
  • Domain organization of [LECG_ARAHY] by SWISSPFAM
    • Other resources with information on 1V6I
  • Community annotation for 1V6I 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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