1SV5 Transferase date Mar 27, 2004
title Crystal Structure Of K103n Mutant Hiv-1 Reverse Transcriptas Complex With Janssen-R165335
authors K.Das, E.Arnold
compound source
Molecule: Reverse Transcriptase
Chain: A
Fragment: P66 Subunit
Synonym: Hiv-1 Rt
Ec: 2.7.7.49
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Strain: Bh10 Isolate
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Reverse Transcriptase
Chain: B
Fragment: P51 Subunit
Synonym: Hiv-1 Rt
Ec: 2.7.7.49
Engineered: Yes
Mutation: Yes

Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Strain: Bh10 Isolate
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.255 R_Free 0.326
crystal
cell
length a length b length c angle alpha angle beta angle gamma
222.510 67.740 103.290 90.00 107.47 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand 65B enzyme Transferase E.C.2.7.7.49 BRENDA
related structures by homologous chain: 1S6P, 3HVT
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceRoles of conformational and positional adaptability in structure-based design of TMC125-R165335 (etravirine) and related non-nucleoside reverse transcriptase inhibitors that are highly potent and effective against wild-type and drug-resistant HIV-1 variants., Das K, Clark AD Jr, Lewi PJ, Heeres J, De Jonge MR, Koymans LM, Vinkers HM, Daeyaert F, Ludovici DW, Kukla MJ, De Corte B, Kavash RW, Ho CY, Ye H, Lichtenstein MA, Andries K, Pauwels R, De Bethune MP, Boyer PL, Clark P, Hughes SH, Janssen PA, Arnold E, J Med Chem 2004 May 6;47(10):2550-60. PMID:15115397
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (164 Kb) [Save to disk]
  • Biological Unit Coordinates (1sv5.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 1SV5
  • CSU: Contacts of Structural Units for 1SV5
  • Likely Quarternary Molecular Structure file(s) for 1SV5
  • Structure Factors (269 Kb)
  • Retrieve 1SV5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SV5 from S2C, [Save to disk]
  • Re-refined 1sv5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1SV5 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 1SV5
  • 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 1SV5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sv5a2, region A:1-429 [Jmol] [rasmolscript] [script source]
        - Domain d1sv5a1, region A:430-552 [Jmol] [rasmolscript] [script source]
        - Domain d1sv5b_, region B [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: [1sv5_B] [1sv5_A] [1sv5]
  • SWISS-PROT database: [P03366]
  • Domain organization of [POL_HV1B1] by SWISSPFAM
  • Other resources with information on 1SV5
  • Community annotation for 1SV5 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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