1RY3 Antibiotic date Dec 19, 2003
title Nmr Solution Structure Of The Precursor For Carnobacteriocin Antimicrobial Peptide From Carnobacterium Piscicola
authors T.Sprules, K.E.Kawulka, A.C.Gibbs, D.S.Wishart, J.C.Vederas
compound source
Molecule: Bacteriocin Carnobacteriocin B2
Chain: A
Synonym: Carnocin Cp52
Engineered: Yes
 Organism_scientific: Carnobacterium Maltaromaticum
Organism_taxid: 2751
Strain: Lv17b
Gene: Cbnb2, Cancp52
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal-C
methodSolution NMR
related structures by homologous chain: 1CW5
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNMR solution structure of the precursor for carnobacteriocin B2, an antimicrobial peptide from Carnobacterium piscicola., Sprules T, Kawulka KE, Gibbs AC, Wishart DS, Vederas JC, Eur J Biochem 2004 May;271(9):1748-56. PMID:15096213
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (317 Kb) [Save to disk]
  • Biological Unit Coordinates (1ry3.pdb1.gz) 16 Kb
  • CSU: Contacts of Structural Units for 1RY3
  • Original NMR restraints for 1RY3 from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1RY3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RY3 from S2C, [Save to disk]
    • View 1RY3 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 1RY3
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1RY3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ry3a_, region A [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ry3_A] [1ry3]
  • SWISS-PROT database: [P38580]
  • Belongs to the pediocin (pediocin) family according to TCDB.
  • Domain organization of [CBB2_CARML] by SWISSPFAM
    • Other resources with information on 1RY3
  • Community annotation for 1RY3 at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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