3S4Y Transferase date May 20, 2011
title Crystal Structure Of Human Thiamin Pyrophosphokinase 1
authors L.Shen, W.Tempel, Y.Tong, Y.Li, J.R.Walker, C.H.Arrowsmith, A.M.Ed C.Bountra, J.Weigelt, H.Park, Structural Genomics Consortium (
compound source
Molecule: Thiamin Pyrophosphokinase 1
Chain: A, B
Synonym: Htpk1, Placental Protein 20, Pp20, Thiamine Pyrophosphokinase 1;
Ec: 2.7.6.2
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tpk1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-V2r-Prare2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: C 1 2 1
R_factor 0.172 R_Free 0.203
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.700 97.390 63.650 90.00 113.08 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CA, SO4, TPP, UNX enzyme Transferase E.C.2.7.6.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (3s4y.pdb1.gz) 320 Kb
  • LPC: Ligand-Protein Contacts for 3S4Y
  • CSU: Contacts of Structural Units for 3S4Y
  • Structure Factors (6356 Kb)
  • Retrieve 3S4Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3S4Y from S2C, [Save to disk]
  • Re-refined 3s4y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3S4Y 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 3S4Y
  • 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 3S4Y, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3s4y] [3s4y_A] [3s4y_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3S4Y: [TPK_B1_binding ] by SMART
    • Other resources with information on 3S4Y
  • Community annotation for 3S4Y 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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