1JYI Sugar Binding Protein date Sep 12, 2001
title Concanavalin A12-Mer Peptide Complex
authors D.Jain, K.J.Kaur, B.Sundaravadivel, D.M.Salunke
compound source
Molecule: Concanavalin-Br
Chain: A, B, C, D
Synonym: Con Br, Concanavalin A
 Organism_scientific: Canavalia Ensiformis
Organism_common: Jack Bean
Organism_taxid: 3823

Molecule: 12-Mer Peptide
Chain: P, Q, R, S
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: The Peptide Was Chemically Synthesized.
symmetry Space Group: C 2 2 21
R_factor 0.192 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.545 118.323 252.591 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand CA, MN enzyme
related structures by homologous chain: 1JUI, 1JYC
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural and functional consequences of peptide-carbohydrate mimicry. Crystal structure of a carbohydrate-mimicking peptide bound to concanavalin A., Jain D, Kaur K, Sundaravadivel B, Salunke DM, J Biol Chem 2000 May 26;275(21):16098-102. PMID:10821862
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (1jyi.pdb1.gz) 148 Kb
  • Biological Unit Coordinates (1jyi.pdb2.gz) 147 Kb
  • LPC: Ligand-Protein Contacts for 1JYI
  • CSU: Contacts of Structural Units for 1JYI
  • Likely Quarternary Molecular Structure file(s) for 1JYI
  • Retrieve 1JYI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JYI from S2C, [Save to disk]
    • View 1JYI 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 1JYI
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1JYI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jyia_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1jyib_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1jyic_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1jyid_, 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: [1jyi_B] [1jyi_S] [1jyi_P] [1jyi_Q] [1jyi_A] [1jyi] [1jyi_D] [1jyi_C] [1jyi_R]
  • SWISS-PROT database: [P02866]
  • Domain organization of [CONA_CANEN] by SWISSPFAM
    • Other resources with information on 1JYI
  • Community annotation for 1JYI 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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