1KI6 Phosphotransferase date May 18, 1998
title Crystal Structure Of Thymidine Kinase From Herpes Simplex Vi Complexed With A 5-Iodouracil Anhydrohexitol Nucleoside
authors J.N.Champness, M.S.Bennett, F.Wien, P.Herdewijn, T.Ostrowski, W.C M.R.Sanderson
compound source
Molecule: Thymidine Kinase
Chain: A
Synonym: Tk
Ec: 2.7.1.21
Engineered: Yes
Organism_scientific: Herpes Simplex Virus (Type 1 Strain
Organism_taxid: 10299
Strain: 17
Gene: Tk
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sy211
Expression_system_plasmid: Pt7\:Hsvtk
Expression_system_gene: Tk

Molecule: Thymidine Kinase
Chain: B
Synonym: Tk
Ec: 2.7.1.21
Engineered: Yes

Organism_scientific: Herpes Simplex Virus (Type 1 Strain
Organism_taxid: 10299
Strain: 17
Gene: Tk
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sy211
Expression_system_plasmid: Pt7\:Hsvtk
Expression_system_gene: Tk
symmetry Space Group: C 2 2 21
R_factor 0.223 R_Free 0.317
crystal
cell
length a length b length c angle alpha angle beta angle gamma
113.600 116.400 108.400 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.37 Å
ligand AHU, SO4 enzyme Transferase E.C.2.7.1.21 BRENDA
related structures by homologous chain: 1E2L, 1KI3
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceExploring the active site of herpes simplex virus type-1 thymidine kinase by X-ray crystallography of complexes with aciclovir and other ligands., Champness JN, Bennett MS, Wien F, Visse R, Summers WC, Herdewijn P, de Clerq E, Ostrowski T, Jarvest RL, Sanderson MR, Proteins 1998 Aug 15;32(3):350-61. PMID:9715911
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (1ki6.pdb1.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 1KI6
  • CSU: Contacts of Structural Units for 1KI6
  • Likely Quarternary Molecular Structure file(s) for 1KI6
  • Structure Factors (249 Kb)
  • Retrieve 1KI6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KI6 from S2C, [Save to disk]
  • Re-refined 1ki6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KI6 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 1KI6
  • 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 1KI6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ki6a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1ki6b_, 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: [1ki6] [1ki6_A] [1ki6_B]
  • SWISS-PROT database: [P03176]
  • Domain organization of [KITH_HHV11] by SWISSPFAM
  • Other resources with information on 1KI6
  • Community annotation for 1KI6 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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