6CKX Transferase Inhibitor date Mar 01, 2018
title Structure Of Cdk12cyck In Complex With A Small Molecule Inh (4-(1-Methyl-1h-Pyrazol-4-Yl)Phenyl)-N-((1r,4r)-4-(Quinazol Ylamino)Cyclohexyl)Acetamide
authors M.G.Klein
compound source
Molecule: Cyclin-Dependent Kinase 12
Chain: A, C
Fragment: Unp Residues 713-1062
Synonym: Cdc2-Related Kinase,Arginineserine-Rich,Crkrs,Cel Cycle 2-Related Protein Kinase 7,Cdc2-Related Protein Kinas Division Protein Kinase 12,Hcdk12;
Ec: 2.7.11.22,2.7.11.23
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdk12, Crk7, Crkrs, Kiaa0904
Expression_system: Unidentified Baculovirus
Expression_system_taxid: 10469

Molecule: Cyclin-K
Chain: B, D
Fragment: Unp Residues 1-267
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ccnk, Cpr4
Expression_system: Unidentified Baculovirus
Expression_system_taxid: 10469
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
96.596 107.530 138.324 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand
enzyme Transferase E.C.2.7.11.22 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceDiscovery of 3-Benzyl-1-( trans-4-((5-cyanopyridin-2-yl)amino)cyclohexyl)-1-arylurea Derivatives as Novel and Selective Cyclin-Dependent Kinase 12 (CDK12) Inhibitors., Ito M, Tanaka T, Toita A, Uchiyama N, Kokubo H, Morishita N, Klein MG, Zou H, Murakami M, Kondo M, Sameshima T, Araki S, Endo S, Kawamoto T, Morin GB, Aparicio SA, Nakanishi A, Maezaki H, Imaeda Y, J Med Chem. 2018 Aug 20. doi: 10.1021/acs.jmedchem.8b00683. PMID:30067358
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (381 Kb) [Save to disk]
  • Biological Unit Coordinates (6ckx.pdb1.gz) 188 Kb
  • Biological Unit Coordinates (6ckx.pdb2.gz) 188 Kb
  • CSU: Contacts of Structural Units for 6CKX
  • Structure Factors (561 Kb)
  • Retrieve 6CKX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6CKX from S2C, [Save to disk]
  • View 6CKX 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 6CKX
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6ckx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6ckx_B] [6ckx_A] [6ckx_C] [6ckx_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6CKX
  • Community annotation for 6CKX at PDBWiki (http://pdbwiki.org)

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