2R02 Apoptosis date Aug 17, 2007
title Crystal Structure Of Alixaip1 In Complex With The Hiv-1 Ypl Domain
authors C.P.Hill, Q.Zhai, R.D.Fisher
compound source
Molecule: Programmed Cell Death 6-Interacting Protein
Chain: A
Fragment: Alix Bro1-V Domains
Synonym: Pdcd6-Interacting Protein, Alg-2-Interacting Prote Hp95;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdcd6ip, Aip1, Alix, Kiaa1375
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Codon+ Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet151d-Topo

Molecule: P6-Gag
Chain: B
Fragment: Unp Residues 479-489
Engineered: Yes

Synthetic: Yes
Other_details: The Sequence Of This Peptide Naturally Exist Human Immunodeficiency Virus Type 1(Hiv-1).
symmetry Space Group: C 1 2 1
R_factor 0.224 R_Free 0.285
crystal
cell
length a length b length c angle alpha angle beta angle gamma
145.923 99.078 73.226 90.00 107.32 90.00
method X-Ray Diffractionresolution 2.60 Å
Primary referenceStructural and functional studies of ALIX interactions with YPX(n)L late domains of HIV-1 and EIAV., Zhai Q, Fisher RD, Chung HY, Myszka DG, Sundquist WI, Hill CP, Nat Struct Mol Biol. 2008 Jan;15(1):43-9. Epub 2007 Dec 9. PMID:18066081
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk]
  • Biological Unit Coordinates (2r02.pdb1.gz) 238 Kb
  • CSU: Contacts of Structural Units for 2R02
  • Likely Quarternary Molecular Structure file(s) for 2R02
  • Structure Factors (249 Kb)
  • Retrieve 2R02 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2R02 from S2C, [Save to disk]
  • Re-refined 2r02 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2R02 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 2R02
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2R02, from MSDmotif at EBI
  • Fold representative 2r02 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2r02_B] [2r02_A] [2r02]
  • SWISS-PROT database: [Q9WC62] [Q8WUM4]
  • Domain organization of [GAG_HV1S9] [PDC6I_HUMAN] by SWISSPFAM
  • Domain found in 2R02: [BRO1 ] by SMART
  • Other resources with information on 2R02
  • Community annotation for 2R02 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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