3F4Y Viral Protein date Nov 03, 2008
title Hiv Gp41 Six-Helix Bundle Containing A Mutant Chr Alpha- Peptide Sequence
authors W.S.Horne, S.H.Gellman
compound source
Molecule: Envelope Glycoprotein Gp160
Chain: A, B, C
Fragment: Hiv Gp41 Nhr Domain
Synonym: Env Polyprotein, Surface Protein, Su, Glycoprotein 120, Gp120, Transmembrane Protein, Tm, Glycoprotein 41, Gp41;
Engineered: Yes
 Synthetic: Yes
Other_details: The Peptide Is Chemically Synthesized. It Occurs Naturally In Hiv.;

Molecule: Mutant Peptide Derived From Hiv Gp41 Chr Domain
Chain: D, E, F
Fragment: Hiv Gp41 Chr Domain Mutant
Engineered: Yes
Mutation: Yes
Synthetic: Yes
Other_details: The Peptide Is Chemically Synthesized. It Is A Sequence Mutant To A Sequence That Occurs Naturally In Hiv.
symmetry Space Group: P 21 21 2
R_factor 0.209 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.611 179.038 33.075 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand ACE, NH2 enzyme
Primary referenceStructural and biological mimicry of protein surface recognition by {alpha}/{beta}-peptide foldamers., Horne WS, Johnson LM, Ketas TJ, Klasse PJ, Lu M, Moore JP, Gellman SH, Proc Natl Acad Sci U S A. 2009 Aug 17. PMID:19706443
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (3f4y.pdb1.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 3F4Y
  • CSU: Contacts of Structural Units for 3F4Y
  • Structure Factors (232 Kb)
  • Retrieve 3F4Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3F4Y from S2C, [Save to disk]
  • Re-refined 3f4y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3F4Y 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 3F4Y
  • 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 3F4Y, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3f4y_B] [3f4y_F] [3f4y_E] [3f4y_C] [3f4y_A] [3f4y] [3f4y_D]
  • SWISS-PROT database: [P04580]
  • Domain organization of [ENV_HV1Z6] by SWISSPFAM
    • Other resources with information on 3F4Y
  • Community annotation for 3F4Y 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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