2B4J Viral Protein, Recombination date Sep 24, 2005
title Structural Basis For The Recognition Between Hiv-1 Integrase Ledgfp75
authors P.Cherepanov, A.L.Ambrosio, S.Rahman, T.Ellenberger, A.Engelman
compound source
Molecule: Integrase (In)
Chain: A, B
Fragment: Hiv-1 Integrase
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Gene: Pol
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Pc4 And Sfrs1 Interacting Protein
Chain: C, D
Fragment: Ledgf
Synonym: Lens Epithelium-Derived Growth Factor, Transcripti Coactivator P75p52, Dense Fine Speckles 70 Kda Protein, Df Associated Antigen Kw-7;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Psip1, Ledgf
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcpgst75-81
symmetry Space Group: C 1 2 1
R_factor 0.181 R_Free 0.226
length a length b length c angle alpha angle beta angle gamma
122.421 60.593 71.126 90.00 109.06 90.00
method X-Ray Diffractionresolution 2.02 Å
ligand GOL, PO4 enzyme
A, B

Primary referenceStructural basis for the recognition between HIV-1 integrase and transcriptional coactivator p75., Cherepanov P, Ambrosio AL, Rahman S, Ellenberger T, Engelman A, Proc Natl Acad Sci U S A. 2005 Nov 29;102(48):17308-13. Epub 2005 Oct 31. PMID:16260736
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (2b4j.pdb1.gz) 74 Kb
  • Biological Unit Coordinates (2b4j.pdb2.gz) 146 Kb
  • LPC: Ligand-Protein Contacts for 2B4J
  • CSU: Contacts of Structural Units for 2B4J
  • Likely Quarternary Molecular Structure file(s) for 2B4J
  • Structure Factors (243 Kb)
  • Retrieve 2B4J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2B4J from S2C, [Save to disk]
  • Re-refined 2b4j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2B4J 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 2B4J
  • 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 2B4J, from MSDmotif at EBI
  • Fold representative 2b4j from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2b4j_C] [2b4j_A] [2b4j] [2b4j_D] [2b4j_B]
  • SWISS-PROT database: [P12497] [O75475]
  • Domain organization of [POL_HV1N5] [PSIP1_HUMAN] by SWISSPFAM
  • Other resources with information on 2B4J
  • Community annotation for 2B4J 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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