6DI3 Transferase Transferase Inhibitor date May 22, 2018
title Crystal Structure Of Btk In Complex With Fragment Ligand
authors A.Gardberg
compound source
Molecule: Tyrosine-Protein Kinase Btk
Chain: A
Synonym: Agammaglobulinemia Tyrosine Kinase,Atk,B-Cell Prog Kinase,Bpk,Bruton Tyrosine Kinase;
Ec: 2.7.10.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Btk, Agmx1, Atk, Bpk
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.200 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.100 104.960 38.080 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand GJA enzyme Transferase E.C.2.7.10.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of potent, highly selective covalent irreversible BTK inhibitors from a fragment hit., Qiu H, Liu-Bujalski L, Caldwell RD, Follis AV, Gardberg A, Goutopoulos A, Grenningloh R, Head J, Johnson T, Jones R, Mochalkin I, Morandi F, Neagu C, Sherer B, Bioorg Med Chem Lett. 2018 Sep 15;28(17):2939-2944. doi:, 10.1016/j.bmcl.2018.07.008. Epub 2018 Jul 5. PMID:30122225
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (6di3.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 6DI3
  • CSU: Contacts of Structural Units for 6DI3
  • Structure Factors (515 Kb)
  • Retrieve 6DI3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DI3 from S2C, [Save to disk]
  • View 6DI3 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 6DI3
  • 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: [6di3_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DI3
  • Community annotation for 6DI3 at PDBWiki (http://pdbwiki.org)

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