3HEG Transferase date May 08, 2009
title P38 In Complex With Sorafenib
authors H.V.Namboodiri, M.Karpusas
compound source
Molecule: Mitogen-Activated Protein Kinase 14
Chain: A
Fragment: Kinase Domain, Unp Residues 5-352
Synonym: Mitogen-Activated Protein Kinase P38 Alpha, Map Ki Alpha, Cytokine Suppressive Anti-Inflammatory Drug-Binding Csaid-Binding Protein, Csbp, Max-Interacting Protein 2, Map Mxi2, Sapk2a;
Ec: 2.7.11.24
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Csbp, Csbp1, Csbp2, Cspb1, Mapk14, Mxi2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta
Expression_system_vector_type: De3
symmetry Space Group: P 21 21 21
R_factor 0.236 R_Free 0.309
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.492 74.249 77.843 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand BAX BindingDB enzyme Transferase E.C.2.7.11.24 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAnalysis of imatinib and sorafenib binding to p38alpha compared with c-Abl and b-Raf provides structural insights for understanding the selectivity of inhibitors targeting the DFG-out form of protein kinases., Namboodiri HV, Bukhtiyarova M, Ramcharan J, Karpusas M, Lee Y, Springman EB, Biochemistry. 2010 May 4;49(17):3611-8. PMID:20337484
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (3heg.pdb1.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 3HEG
  • CSU: Contacts of Structural Units for 3HEG
  • Structure Factors (113 Kb)
  • Retrieve 3HEG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3HEG from S2C, [Save to disk]
  • Re-refined 3heg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3HEG 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 3HEG
  • 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 3HEG, from MSDmotif at EBI
  • Fold representative 3heg from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3heg] [3heg_A]
  • SWISS-PROT database: [Q16539]
  • Domain organization of [MK14_HUMAN] by SWISSPFAM
  • Domain found in 3HEG: [S_TKc ] by SMART
  • Other resources with information on 3HEG
  • Community annotation for 3HEG 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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