4R5P Crystal structure of HIV-1 reverse transcriptase (RT) with DNA and a nucleoside triphosphate mimic alpha-carboxy nucleoside phosphonate inhibitor date
authors Das, K., Martinez, S.E., Arnold, E.
compound source
symmetry
R_factor
R_Free 0.2506
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.89
ligand 3JY, FRU, GLC, MG, MRG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceAlpha-carboxy nucleoside phosphonates as universal nucleoside triphosphate mimics., Balzarini J, Das K, Bernatchez JA, Martinez SE, Ngure M, Keane S, Ford A, Maguire N, Mullins N, John J, Kim Y, Dehaen W, Vande Voorde J, Liekens S, Naesens L, Gotte M, Maguire AR, Arnold E, Proc Natl Acad Sci U S A. 2015 Mar 2. pii: 201420233. PMID:25733891
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (362 Kb) [Save to disk]
  • Biological Unit Coordinates (4r5p.pdb1.gz) 180 Kb
  • Biological Unit Coordinates (4r5p.pdb2.gz) 181 Kb
  • LPC: Ligand-Protein Contacts for 4R5P
  • CSU: Contacts of Structural Units for 4R5P
  • Structure Factors (566 Kb)
  • Retrieve 4R5P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4R5P from S2C, [Save to disk]
  • Re-refined 4r5p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4R5P 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 4R5P
  • 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
  • 3D motif for 4R5P, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4r5p_F] [4r5p_D] [4r5p_E] [4r5p] [4r5p_B] [4r5p_P] [4r5p_T] [4r5p_A] [4r5p_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4R5P
  • Community annotation for 4R5P at PDBWiki (http://pdbwiki.org)

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