5VT1 Transferase Transferase Inhibitor date May 15, 2017
title Crystal Structure Of The Human Camkk2b Bound To A Thiadiazin Benzamide Inhibitor
authors R.M.Counago, C.R.M.Asquith, P.Arruda, A.M.Edwards, O.Gileadi, A.S.Kalogirou, P.A.Koutentis, Structural Genomics Consortium
compound source
Molecule: Calciumcalmodulin-Dependent Protein Kinase Kinas
Chain: A
Fragment: Unp Residues 161-449
Synonym: Camkk 2,Calciumcalmodulin-Dependent Protein Kinas Beta,Camkk Beta;
Ec: 2.7.11.17
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Camkk2, Camkkb, Kiaa0787
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: R3
Expression_system_vector_type: Plasmid
symmetry Space Group: P 61
R_factor 0.161 R_Free 0.185
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.454 100.454 69.674 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand 9JS, MG enzyme Transferase E.C.2.7.11.17 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary reference1,2,6-Thiadiazinones as Novel Narrow Spectrum Calcium/Calmodulin-Dependent Protein Kinase Kinase 2 (CaMKK2) Inhibitors., Asquith CRM, Godoi PH, Counago RM, Laitinen T, Scott JW, Langendorf CG, Oakhill JS, Drewry DH, Zuercher WJ, Koutentis PA, Willson TM, Kalogirou AS, Molecules. 2018 May 19;23(5). pii: molecules23051221. doi:, 10.3390/molecules23051221. PMID:29783765
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (183 Kb) [Save to disk]
  • Biological Unit Coordinates (5vt1.pdb1.gz) 177 Kb
  • LPC: Ligand-Protein Contacts for 5VT1
  • CSU: Contacts of Structural Units for 5VT1
  • Structure Factors (1224 Kb)
  • Retrieve 5VT1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5VT1 from S2C, [Save to disk]
  • Re-refined 5vt1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5VT1 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 5VT1
  • 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
  • Fold representative 5vt1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5vt1] [5vt1_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5VT1
  • Community annotation for 5VT1 at PDBWiki (http://pdbwiki.org)

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