5WRI Transferase date Dec 02, 2016
title Crystal Structure Of Human Tyrosylprotein Sulfotransferase-1 With Pap And C4 Peptide
authors S.Tanaka, T.Nishiyori, H.Kojo, R.Otsubo, Y.Kakuta
compound source
Molecule: Protein-Tyrosine Sulfotransferase 1
Chain: A, B
Fragment: Unp Residues 43-341
Synonym: Tyrosylprotein Sulfotransferase 1,Tpst-1
Ec: 2.8.2.20
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tpst1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Asp-Phe-Glu-Asp-Tyr-Glu-Phe-Asp
Chain: D, E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_common: 32630
Organism_taxid: 32630
symmetry Space Group: P 21 21 2
R_factor 0.133 R_Free 0.178
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.576 155.972 48.892 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand A3P, GOL, MG, ZN enzyme Transferase E.C.2.8.2.20 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1., Tanaka S, Nishiyori T, Kojo H, Otsubo R, Tsuruta M, Kurogi K, Liu MC, Suiko M, Sakakibara Y, Kakuta Y, Sci Rep. 2017 Aug 18;7(1):8776. doi: 10.1038/s41598-017-07141-8. PMID:28821720
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (231 Kb) [Save to disk]
  • Biological Unit Coordinates (5wri.pdb1.gz) 225 Kb
  • LPC: Ligand-Protein Contacts for 5WRI
  • CSU: Contacts of Structural Units for 5WRI
  • Structure Factors (2160 Kb)
  • Retrieve 5WRI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WRI from S2C, [Save to disk]
  • View 5WRI 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 5WRI
  • 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: [5wri_B] [5wri_E] [5wri_A] [5wri_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5WRI
  • Community annotation for 5WRI at PDBWiki (http://pdbwiki.org)

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