1DLB Viral Protein date Dec 09, 1999
title Helical Interactions In The Hiv-1 Gp41 Core Reveals Structur For The Inhibitory Activity Of Gp41 Peptides
authors W.Shu, J.Liu, H.Ji, L.Rading, S.Jiang, M.Lu
compound source
Molecule: Hiv-1 Envelope Glycoprotein Gp41
Chain: A
Fragment: Residues 1 - 34 And 41 - 68 Connected By A Six-Re Linker (Ser-Gly-Gly-Arg- Gly-Gly);
Engineered: Yes
Mutation: Yes
 Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Other_details: Recombinant Gp41 With Linker (Ser-Gly-Gly- A Gly) Between Two Fragments
symmetry Space Group: H 3
R_factor 0.206 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
52.382 52.382 60.482 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
related structures by homologous chain: 1AIK, 1K34
Primary referenceHelical interactions in the HIV-1 gp41 core reveal structural basis for the inhibitory activity of gp41 peptides., Shu W, Liu J, Ji H, Radigen L, Jiang S, Lu M, Biochemistry 2000 Feb 22;39(7):1634-42. PMID:10677212
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (16 Kb) [Save to disk]
  • Biological Unit Coordinates (1dlb.pdb1.gz) 35 Kb
  • CSU: Contacts of Structural Units for 1DLB
  • Likely Quarternary Molecular Structure file(s) for 1DLB
  • Retrieve 1DLB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DLB from S2C, [Save to disk]
    • View 1DLB 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.
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    • Visual 3D analysis of 1DLB
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1DLB, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dlba_, region A [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: [1dlb] [1dlb_A]
  • SWISS-PROT database: [P04578]
  • Belongs to the human immunodeficiency virus type 1 (hiv-1) fusion peptide (hiv-fp) family according to TCDB.
  • Domain organization of [ENV_HV1H2] by SWISSPFAM
    • Other resources with information on 1DLB
  • Community annotation for 1DLB 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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