4IVR Crystal structure of thymidine kinase from herpes simplex virus type 1 in complex with IN52/10 date
authors Pernot, L., Novakovic, I., Westermaier, Y., Perozzo, R., Raic-Malic, S., Scapozza, L.
compound source
symmetry
R_factor
R_Free 0.2566
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.40
ligand N50, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA new N-methyl thymine derivative comprising a dihydroxyisobutenyl unit as ligand for thymidine kinase of herpes simplex virus type 1 (HSV-1 TK)., Kristafor S, Novakovic I, Gazivoda Kraljevic T, Kraljevic Pavelic S, Lucin P, Westermaier Y, Pernot L, Scapozza L, Ametamey SM, Raic-Malic S, Bioorg Med Chem Lett. 2011 Oct 15;21(20):6161-5. doi: 10.1016/j.bmcl.2011.07.115., Epub 2011 Aug 6. PMID:21911293
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (4ivr.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 4IVR
  • CSU: Contacts of Structural Units for 4IVR
  • Structure Factors (208 Kb)
  • Retrieve 4IVR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4IVR from S2C, [Save to disk]
  • Re-refined 4ivr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4IVR 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 4IVR
  • 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 4IVR, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ivr_A] [4ivr] [4ivr_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4IVR
  • Community annotation for 4IVR at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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