1DGL Lectin date Feb 10, 1998
title Lectin From Dioclea Grandiflora Complexed To Trimannoside
authors D.A.Rozwarski, B.M.Swami, C.F.Brewer, J.C.Sacchettini
compound source
Molecule: Lectin
Chain: A, B
Other_details: Trimannoside Complex
 Organism_scientific: Dioclea Grandiflora
Organism_common: Mucana
Organism_taxid: 3837
symmetry Space Group: P 31 2 1
R_factor 0.189 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.110 92.110 202.820 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand CA, MAN, MMA, MN enzyme
related structures by homologous chain: 1HQW, 1VLN
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of the lectin from Dioclea grandiflora complexed with core trimannoside of asparagine-linked carbohydrates., Rozwarski DA, Swami BM, Brewer CF, Sacchettini JC, J Biol Chem 1998 Dec 4;273(49):32818-25. PMID:9830028
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (1dgl.pdb1.gz) 154 Kb
  • LPC: Ligand-Protein Contacts for 1DGL
  • CSU: Contacts of Structural Units for 1DGL
  • Likely Quarternary Molecular Structure file(s) for 1DGL
  • Structure Factors (191 Kb)
  • Retrieve 1DGL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DGL from S2C, [Save to disk]
  • Re-refined 1dgl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DGL 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 1DGL
  • 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 1DGL, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dgla_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dglb_, region B [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: [1dgl_B] [1dgl] [1dgl_A]
  • SWISS-PROT database: [P08902]
  • Domain organization of [LECA_DIOGR] by SWISSPFAM
    • Other resources with information on 1DGL
  • Community annotation for 1DGL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science