4S35 Transferase date Jan 26, 2015
title Amppcp And Tmp Bound Crystal Structure Of Thymidylate Kinase From Aquifex Aeolicus Vf5
authors A.Biswas, J.Jeyakanthan, K.Sekar, S.Kuramitsu, S.Yokoyama
compound source
Molecule: Thymidylate Kinase
Chain: A, B
Synonym: Dtmp Kinase
Ec: 2.7.4.9
Engineered: Yes
Organism_scientific: Aquifex Aeolicus
Organism_taxid: 224324
Strain: Vf5
Gene: Aq_969, Tmk
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21-Codonplus (De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a
symmetry Space Group: P 1 21 1
R_factor 0.146 R_Free 0.174
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.479 62.615 73.577 90.00 97.97 90.00
method X-Ray Diffractionresolution 1.55 Å
ligand ACP, CL, EDO, MG, TMP enzyme Transferase E.C.2.7.4.9 BRENDA
Gene AQ
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • thymidylate kinase activity
  • uridylate kinase activity


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (4s35.pdb1.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 4S35
  • CSU: Contacts of Structural Units for 4S35
  • Structure Factors (932 Kb)
  • Retrieve 4S35 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4S35 from S2C, [Save to disk]
  • Re-refined 4s35 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4S35 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 4S35
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4s35_A] [4s35] [4s35_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4S35
  • Community annotation for 4S35 at PDBWiki (http://pdbwiki.org)

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