1N5Y HIV-1 Reverse Transcriptase Crosslinked to Post-Translocation AZTMP-Terminated DNA (Complex P) date
authors Sarafianos, S.G., Clark, A.D., Das, K., Tuske, S., Birktoft, J.J., Ilankumaran, P., Ramesha, A.R., Sayer, J.M., Jerina, D.M., Boyer, P.L., Hughes, S.H., Arnold, E.
compound source
R_Free 0.285
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.10
ligand ATM, MG, MRG enzyme



Primary referenceStructures of HIV-1 reverse transcriptase with pre- and post-translocation AZTMP-terminated DNA., Sarafianos SG, Clark AD Jr, Das K, Tuske S, Birktoft JJ, Ilankumaran P, Ramesha AR, Sayer JM, Jerina DM, Boyer PL, Hughes SH, Arnold E, EMBO J 2002 Dec 2;21(23):6614-24. PMID:12456667
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (254 Kb) [Save to disk]
  • Biological Unit Coordinates (1n5y.pdb1.gz) 242 Kb
  • LPC: Ligand-Protein Contacts for 1N5Y
  • CSU: Contacts of Structural Units for 1N5Y
  • Likely Quarternary Molecular Structure file(s) for 1N5Y
  • Structure Factors (397 Kb)
  • Retrieve 1N5Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1N5Y from S2C, [Save to disk]
  • Re-refined 1n5y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1N5Y 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 1N5Y
  • 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 1N5Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1n5ya2, region A:1-429 [Jmol] [rasmolscript] [script source]
        - Domain d1n5ya1, region A:430-558 [Jmol] [rasmolscript] [script source]
        - Domain d1n5yb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1n5yh1, region H:1-123 [Jmol] [rasmolscript] [script source]
        - Domain d1n5yh2, region H:124-225 [Jmol] [rasmolscript] [script source]
        - Domain d1n5yl1, region L:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1n5yl2, region L:108-211 [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: [1n5y_P] [1n5y_A] [1n5y_B] [1n5y_H] [1n5y_L] [1n5y_T] [1n5y]
  • SWISS-PROT database: [P01837] [P03366]
  • Domain organization of [IGKC_MOUSE] [POL_HV1B1] by SWISSPFAM
  • Domains found in 1N5Y: [IG_like] [IGv ] by SMART
  • Other resources with information on 1N5Y
  • Community annotation for 1N5Y 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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