3CY2 Transferase date Apr 25, 2008
title Crystal Structure Of Human Proto-Oncogene Serine Threonine K (Pim1) In Complex With A Consensus Peptide And A Beta Carbo Ligand II
authors P.Filippakopoulos, A.Bullock, O.Fedorov, K.Huber, F.Bracher, A.C. F.Von Delft, C.H.Arrowsmith, A.M.Edwards, C.Bountra, S.Knapp, St Genomics Consortium (Sgc)
compound source
Molecule: Proto-Oncogene Serinethreonine-Protein Kinase Pi Isoform 2;
Chain: A
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: Pim1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-R3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic28-Bsa4

Molecule: Pimtide Peptide
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide
symmetry Space Group: P 65
R_factor 0.167 R_Free 0.199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.668 98.668 81.129 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.01 Å
ligand CL, EDO, MB9 enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary reference7,8-Dichloro-1-oxo-beta-carbolines as a Versatile Scaffold for the Development of Potent and Selective Kinase Inhibitors with Unusual Binding Modes., Huber K, Brault L, Fedorov O, Gasser C, Filippakopoulos P, Bullock AN, Fabbro D, Trappe J, Schwaller J, Knapp S, Bracher F, J Med Chem. 2012 Jan 12;55(1):403-13. Epub 2012 Jan 3. PMID:22136433
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (3cy2.pdb1.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 3CY2
  • CSU: Contacts of Structural Units for 3CY2
  • Likely Quarternary Molecular Structure file(s) for 3CY2
  • Structure Factors (454 Kb)
  • Retrieve 3CY2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3CY2 from S2C, [Save to disk]
  • Re-refined 3cy2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3CY2 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 3CY2
  • 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 3CY2, from MSDmotif at EBI
  • Fold representative 3cy2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3cy2] [3cy2_B] [3cy2_A]
  • SWISS-PROT database: [P11309]
  • Domain organization of [PIM1_HUMAN] by SWISSPFAM
  • Domain found in 3CY2: [S_TKc ] by SMART
  • Other resources with information on 3CY2
  • Community annotation for 3CY2 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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