4BE2 Transferase Dna date Oct 08, 2012
title Pfv Intasome With Inhibitor Xz-259
authors S.Hare, P.Cherepanov
compound source
Molecule: Pfv Integrase
Chain: A, B
Synonym: Integrase, In, P42in
Ec: 2.7.7.-
Engineered: Yes
Organism_scientific: Human Spumaretrovirus
Organism_taxid: 11963
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 19 Nucleotide Preprocessed Pfv Donor Dna (Non-Tra Strand);
Chain: C
Synonym: Pfv U5 Dna
Engineered: Yes

Synthetic: Yes
Organism_scientific: Human Spumaretrovirus
Organism_taxid: 11963

Molecule: 17 Nucleotide Preprocessed Pfv Donor Dna (Transfe Strand) Apcpa)-3';
Chain: D
Synonym: Pfv U5 Dna
Engineered: Yes

Synthetic: Yes
Organism_scientific: Human Spumaretrovirus
Organism_taxid: 11963
symmetry Space Group: P 41 21 2
R_factor 0.195 R_Free 0.223
length a length b length c angle alpha angle beta angle gamma
159.420 159.420 123.680 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.38 Å
ligand GOL, MG, SO4, XZ2, ZN enzyme Transferase E.C.2.7.7 BRENDA
A, B

Primary referenceActivities, crystal structures and molecular dynamics of dihydro-1H-isoindole derivatives, inhibitors of HIV-1 integrase., Metifiot M, Maddali K, Johnson BC, Hare S, Smith SJ, Zhao XZ, Marchand C, Burke TR, Hughes SH, Cherepanov P, Pommier Y, ACS Chem Biol. 2012 Oct 17. PMID:23075516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk]
  • Biological Unit Coordinates (4be2.pdb1.gz) 222 Kb
  • LPC: Ligand-Protein Contacts for 4BE2
  • CSU: Contacts of Structural Units for 4BE2
  • Structure Factors (2628 Kb)
  • Retrieve 4BE2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4BE2 from S2C, [Save to disk]
  • Re-refined 4be2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4BE2 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 4BE2
  • 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 4BE2, from MSDmotif at EBI
  • Fold representative 4be2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4be2_A] [4be2_C] [4be2_B] [4be2_D] [4be2]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4BE2
  • Community annotation for 4BE2 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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