6YV0 Hydrolase date Apr 27, 2020
title Structure Of The Wnt Deacylase Notum In Complex With A Pyrro Carboxylic Acid Fragment 587
authors R.R.Ruza, J.Hillier, E.Y.Jones
compound source
Molecule: Palmitoleoyl-Protein Carboxylesterase Notum
Chain: A
Synonym: Hnotum
Ec: 3.1.1.98
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Notum, Oksw-Cl.30
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293s Gnti-
Expression_system_atcc_number: Crl-3022
symmetry Space Group: P 21 21 21
R_factor 0.211 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.440 73.220 78.670 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand EDO, NAG, PQT, SO4 enzyme Hydrolase E.C.3.1.1.98 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceScreening of a Custom-Designed Acid Fragment Library Identifies 1-Phenylpyrroles and 1-Phenylpyrrolidines as Inhibitors of Notum Carboxylesterase Activity., Mahy W, Patel M, Steadman D, Woodward HL, Atkinson BN, Svensson F, Willis NJ, Flint A, Papatheodorou D, Zhao Y, Vecchia L, Ruza RR, Hillier J, Frew S, Monaghan A, Costa A, Bictash M, Walter MW, Jones EY, Fish PV, J Med Chem. 2020 Aug 18. doi: 10.1021/acs.jmedchem.0c00660. PMID:32787107
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk]
  • Biological Unit Coordinates (6yv0.pdb1.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 6YV0
  • CSU: Contacts of Structural Units for 6YV0
  • Structure Factors (1043 Kb)
  • Retrieve 6YV0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6YV0 from S2C, [Save to disk]
  • View 6YV0 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 6YV0
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6yv0_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6YV0
  • Community annotation for 6YV0 at PDBWiki (http://pdbwiki.org)

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