3S53 Hydrolase Hydrolase Inhibitor date May 20, 2011
title Hiv-1 Protease Triple Mutants V32i, I47v, V82i With Antivira Darunavir In Space Group P212121
authors Y.F.Tie, Y.F.Wang, I.T.Weber
compound source
Molecule: Protease
Chain: A, B
Ec: 3.4.23.16
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Gene: Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
28.931 66.090 92.833 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand 017, IOD, PO4 enzyme Hydrolase E.C.3.4.23.16 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCritical differences in HIV-1 and HIV-2 protease specificity for clinical inhibitors., Tie Y, Wang YF, Boross PI, Chiu TY, Ghosh AK, Tozser J, Louis JM, Harrison RW, Weber IT, Protein Sci. 2012 Mar;21(3):339-50. doi: 10.1002/pro.2019. Epub 2012 Jan 24. PMID:22238126
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (3s53.pdb1.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 3S53
  • CSU: Contacts of Structural Units for 3S53
  • Structure Factors (239 Kb)
  • Retrieve 3S53 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3S53 from S2C, [Save to disk]
  • Re-refined 3s53 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3S53 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 3S53
  • 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 3S53, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3s53_B] [3s53] [3s53_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3S53
  • Community annotation for 3S53 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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