1AVV Myristylation date Sep 21, 1997
title Hiv-1 Nef Protein, Unliganded Core Domain
authors S.Arold, P.Franken, C.Dumas
compound source
Molecule: Negative Factor
Chain: A
Fragment: Core Domain
Synonym: Nef, F-Protein
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Variant: Isolate Lai
Cell_line: Bl21
Gene: Hiv-1 Nef
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_plasmid: Pgex-2t
Expression_system_gene: Hiv-1 Nef
symmetry Space Group: P 2 3
R_factor 0.220 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.160 85.160 85.160 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
related structures by homologous chain: 1AVZ, 2NEF
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe crystal structure of HIV-1 Nef protein bound to the Fyn kinase SH3 domain suggests a role for this complex in altered T cell receptor signaling., Arold S, Franken P, Strub MP, Hoh F, Benichou S, Benarous R, Dumas C, Structure 1997 Oct 15;5(10):1361-72. PMID:9351809
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (20 Kb) [Save to disk]
  • Biological Unit Coordinates (1avv.pdb1.gz) 32 Kb
  • CSU: Contacts of Structural Units for 1AVV
  • Likely Quarternary Molecular Structure file(s) for 1AVV
  • Retrieve 1AVV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1AVV from S2C, [Save to disk]
  • View 1AVV 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 1AVV
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1AVV, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1avv__, region [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: [1avv_A] [1avv]
  • SWISS-PROT database: [P03406]
  • Domain organization of [NEF_HV1BR] by SWISSPFAM
  • Other resources with information on 1AVV
  • Community annotation for 1AVV at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science