2VD5 Transferase date Sep 30, 2007
title Structure Of Human Myotonic Dystrophy Protein Kinase In Comp The Bisindoylmaleide Inhibitor Bim Viii
authors A.C.W.Pike, A.Amos, J.Elkins, A.Bullock, K.Guo, O.Fedorov, G.Bunko P.Filippakopoulos, E.S.Pilka, E.Ugochukwu, C.Umeano, F.Niesen, M.Sundstrom, J.Weigelt, A.Edwards, C.H.Arrowsmith, F.Von Delft,
compound source
Molecule: Dmpk Protein
Chain: A, B
Fragment: Kinase Domain, Residues 11-420
Synonym: Myotonic Dystrophy Protein Kinase
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_variant: R3-Prare2
Expression_system_plasmid: Pnic28-Bsa4
symmetry Space Group: P 32 2 1
R_factor 0.196 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
122.599 122.599 134.278 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
ligand BI8 enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure of dystrophia myotonica protein kinase., Elkins JM, Amos A, Niesen FH, Pike AC, Fedorov O, Knapp S, Protein Sci. 2009 Apr;18(4):782-91. PMID:19309729
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (2vd5.pdb1.gz) 120 Kb
  • Biological Unit Coordinates (2vd5.pdb2.gz) 116 Kb
  • LPC: Ligand-Protein Contacts for 2VD5
  • CSU: Contacts of Structural Units for 2VD5
  • Likely Quarternary Molecular Structure file(s) for 2VD5
  • Structure Factors (395 Kb)
  • Retrieve 2VD5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VD5 from S2C, [Save to disk]
  • Re-refined 2vd5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VD5 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 2VD5
  • 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
  • 3D motif for 2VD5, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vd5_B] [2vd5] [2vd5_A]
  • SWISS-PROT database: [Q09013]
  • Domain organization of [DMPK_HUMAN] by SWISSPFAM
  • Domains found in 2VD5: [S_TK_X] [S_TKc ] by SMART
  • Other resources with information on 2VD5
  • Community annotation for 2VD5 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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