4Y83 Transferase date Feb 16, 2015
title Crystal Structure Of Cot Kinase Domain In Complex With 5-(2- (Quinolin-3-Yl)Pyridin-3-Yl)-1,3,4-Oxadiazole-2(3h)-Thione
authors S.Gutmann, A.Hinniger
compound source
Molecule: Mitogen-Activated Protein Kinase Kinase Kinase 8
Chain: A, B, C
Synonym: Cancer Osaka Thyroid Oncogene,Proto-Oncogene C-Cot Serinethreonine-Protein Kinase Cot,Tumor Progression Locus
Ec: 2.7.11.25
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Map3k8, Cot, Estf
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_strain: Sf21
Expression_system_vector: Pfastbac1-Hm
symmetry Space Group: P 31
R_factor 0.202 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.952 101.952 108.315 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.89 Å
ligand 49B enzyme Transferase E.C.2.7.11.25 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceThe Crystal Structure of Cancer Osaka Thyroid Kinase Reveals an Unexpected Kinase Domain Fold., Gutmann S, Hinniger A, Fendrich G, Drueckes P, Antz S, Mattes H, Moebitz H, Ofner S, Schmiedeberg N, Stojanovic A, Rieffel S, Strauss A, Troxler T, Glatthar R, Sparrer H, J Biol Chem. 2015 Apr 27. pii: jbc.M115.648097. PMID:25918157
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (273 Kb) [Save to disk]
  • Biological Unit Coordinates (4y83.pdb1.gz) 95 Kb
  • Biological Unit Coordinates (4y83.pdb2.gz) 94 Kb
  • Biological Unit Coordinates (4y83.pdb3.gz) 83 Kb
  • LPC: Ligand-Protein Contacts for 4Y83
  • CSU: Contacts of Structural Units for 4Y83
  • Structure Factors (283 Kb)
  • Retrieve 4Y83 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4Y83 from S2C, [Save to disk]
  • Re-refined 4y83 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4Y83 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 4Y83
  • 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 4Y83, from MSDmotif at EBI
  • Fold representative 4y83 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4y83_A] [4y83_B] [4y83_C] [4y83]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4Y83: [STYKc ] by SMART
  • Other resources with information on 4Y83
  • Community annotation for 4Y83 at PDBWiki (http://pdbwiki.org)

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