3F5G Transferase date Nov 03, 2008
title Crystal Structure Of Death Associated Protein Kinase In Complex With Adp And Mg2+
authors L.K.Mcnamara, D.M.Watterson, J.S.Brunzelle
compound source
Molecule: Death-Associated Protein Kinase 1
Chain: A
Fragment: Unp Residues 2-285, Protein Kinase Domain, Catalytic Domain;
Synonym: Dap Kinase 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dapk, Dapk1, Death-Associated Protein Kinase 1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Top10
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pask-Iba3
symmetry Space Group: P 21 21 21
R_factor 0.185 R_Free 0.244
length a length b length c angle alpha angle beta angle gamma
46.807 62.545 88.396 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand ADP, MG enzyme Transferase E.C. BRENDA

Primary referenceStructural insight into nucleotide recognition by human death-associated protein kinase., McNamara LK, Watterson DM, Brunzelle JS, Acta Crystallogr D Biol Crystallogr. 2009 Mar;65(Pt 3):241-8. Epub 2009, Feb 20. PMID:19237746
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (3f5g.pdb1.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 3F5G
  • CSU: Contacts of Structural Units for 3F5G
  • Likely Quarternary Molecular Structure file(s) for 3F5G
  • Structure Factors (328 Kb)
  • Retrieve 3F5G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3F5G from S2C, [Save to disk]
  • Re-refined 3f5g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3F5G 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 3F5G
  • 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 3F5G, from MSDmotif at EBI
  • Fold representative 3f5g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3f5g_A] [3f5g]
  • SWISS-PROT database: [P53355]
  • Domain organization of [DAPK1_HUMAN] by SWISSPFAM
  • Domain found in 3F5G: [S_TKc ] by SMART
  • Other resources with information on 3F5G
  • Community annotation for 3F5G 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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