3R9D Transferase Transferase Inhibitor date Mar 25, 2011
title Cdk2 In Complex With Inhibitor Rc-2-135
authors S.Betzi, R.Alam, H.Han, A.Becker, E.Schonbrunn
compound source
Molecule: Cyclin-Dependent Kinase 2
Chain: A
Synonym: Cdk2, Cell Division Protein Kinase 2, P33 Protein
Ec: 2.7.11.22
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdk2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tuner(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.475 71.690 72.939 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand X6B enzyme Transferase E.C.2.7.11.22 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDevelopment of Highly Potent and Selective Diaminothiazole Inhibitors of Cyclin-Dependent Kinases., Schonbrunn E, Betzi S, Alam R, Martin MP, Becker A, Han H, Francis R, Chakrasali R, Jakkaraj S, Kazi A, Sebti SM, Cubitt CL, Gebhard AW, Hazlehurst LA, Tash JS, Georg GI, J Med Chem. 2013 May 6. PMID:23600925
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3r9d.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 3R9D
  • CSU: Contacts of Structural Units for 3R9D
  • Structure Factors (179 Kb)
  • Retrieve 3R9D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3R9D from S2C, [Save to disk]
  • Re-refined 3r9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3R9D 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 3R9D
  • 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 3R9D, from MSDmotif at EBI
  • Fold representative 3r9d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3r9d] [3r9d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3R9D: [S_TKc ] by SMART
  • Other resources with information on 3R9D
  • Community annotation for 3R9D at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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