3M2W Transferase date Mar 08, 2010
title Crystal Structure Of Mapkak Kinase 2 (Mk2) Complexed With A Spiroazetidine-Tetracyclic Atp Site Inhibitor
authors M.Kroemer, L.Revesz, C.Be, A.Izaac, C.Huppertz, A.Schlapbach, C.Sc
compound source
Molecule: Map Kinase-Activated Protein Kinase 2
Chain: A
Fragment: Kinase Domain
Synonym: Mapk-Activated Protein Kinase 2, Mapkap Kinase 2, Mk2;
Ec: 2.7.11.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mapkapk2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Tuner
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet
symmetry Space Group: P 63 2 2
R_factor 0.185 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.982 102.982 165.433 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.41 Å
ligand L8I, MG BindingDB enzyme Transferase E.C.2.7.11.1 BRENDA
Primary referenceIn vivo and in vitro SAR of tetracyclic MAPKAP-K2 (MK2) inhibitors. Part II., Revesz L, Schlapbach A, Aichholz R, Dawson J, Feifel R, Hawtin S, Littlewood-Evans A, Koch G, Kroemer M, Mobitz H, Scheufler C, Velcicky J, Huppertz C, Bioorg Med Chem Lett. 2010 Aug 1;20(15):4719-23. Epub 2010 Apr 11. PMID:20591669
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (3m2w.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 3M2W
  • CSU: Contacts of Structural Units for 3M2W
  • Structure Factors (306 Kb)
  • Retrieve 3M2W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3M2W from S2C, [Save to disk]
  • Re-refined 3m2w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3M2W 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 3M2W
  • 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 3M2W, from MSDmotif at EBI
  • Fold representative 3m2w from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3m2w_A] [3m2w]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3M2W: [S_TKc ] by SMART
  • Alignments of the sequence of 3M2W with the sequences similar proteins can be viewed for 3M2W's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3M2W
  • Community annotation for 3M2W 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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