1RKK Antimicrobial Peptide date Nov 21, 2003
title Polyphemusin I Nmr Solution Structure
authors J.P.S.Powers, A.Rozek, R.E.W.Hancock
compound source
Molecule: Polyphemusin I
Chain: A
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: The Peptide Was Chemically Synthesized Using Solid State Synthesis. The Sequence Of The Peptide Is Natur Found In Tachypleus Polyphemus (American Horeshoe Crab).
methodSolution NMR
ligand NH2 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure-activity relationships for the beta-hairpin cationic antimicrobial peptide polyphemusin I., Powers JP, Rozek A, Hancock RE, Biochim Biophys Acta 2004 May 6;1698(2):239-50. PMID:15134657
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (1rkk.pdb1.gz) 6 Kb
  • LPC: Ligand-Protein Contacts for 1RKK
  • CSU: Contacts of Structural Units for 1RKK
  • Original NMR restraints for 1RKK from PDB
  • Retrieve 1RKK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RKK from S2C, [Save to disk]
  • View 1RKK 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 1RKK
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1RKK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rkka_, region A [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1rkk] [1rkk_A]
  • SWISS-PROT database: [P14215]
  • Belongs to the tachyplesin (tachyplesin) family according to TCDB.
  • Domain organization of [PPM1_LIMPO] by SWISSPFAM
  • Other resources with information on 1RKK
  • Community annotation for 1RKK 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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