2WK6 Transferase date Jun 05, 2009
title Structural Features Of Native Human Thymidine Phosphorylase And In Complex With 5-Iodouracil
authors E.Mitsiki, A.C.Papageorgiou, S.Iyer, N.Thiyagarajan, S.H.Prior, D.Sleep, C.Finnis, K.R.Acharya
compound source
Molecule: Thymidine Phosphorylase
Chain: A, B
Synonym: Tdrpase, Platelet-Derived Endothelial Cell Growth Factor, Gliostatin, Tp, Pd-Ecgf;
Ec: 2.4.2.4
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21-Codonplus(De3)-Ripl
Expression_system_plasmid: Pysblic
symmetry Space Group: P 21 21 21
R_factor 0.227 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.911 67.266 212.274 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand IUR enzyme Transferase E.C.2.4.2.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructures of native human thymidine phosphorylase and in complex with 5-iodouracil., Mitsiki E, Papageorgiou AC, Iyer S, Thiyagarajan N, Prior SH, Sleep D, Finnis C, Acharya KR, Biochem Biophys Res Commun. 2009 Jun 23. PMID:19555658
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (2wk6.pdb1.gz) 133 Kb
  • LPC: Ligand-Protein Contacts for 2WK6
  • CSU: Contacts of Structural Units for 2WK6
  • Likely Quarternary Molecular Structure file(s) for 2WK6
  • Structure Factors (275 Kb)
  • Retrieve 2WK6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WK6 from S2C, [Save to disk]
  • Re-refined 2wk6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WK6 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 2WK6
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2WK6, from MSDmotif at EBI
  • Fold representative 2wk6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wk6_A] [2wk6] [2wk6_B]
  • SWISS-PROT database: [P19971]
  • Domain organization of [TYPH_HUMAN] by SWISSPFAM
  • Domain found in 2WK6: [PYNP_C ] by SMART
  • Other resources with information on 2WK6
  • Community annotation for 2WK6 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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