3DV3 Transferase date Jul 18, 2008
title Mek1 With Pf-04622664 Bound
authors S.L.Kazmirski, M.Kothe, Y.H.Ding
compound source
Molecule: Dual Specificity Mitogen-Activated Protein Kinase
Chain: A
Fragment: Unp Residues 62-382
Synonym: Map Kinase Kinase 1, Mapkk 1, Erk Activator Kinase Mapkerk Kinase 1, Mek1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Map2k1, Mek1, Prkmk1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 62
R_factor 0.182 R_Free 0.221
length a length b length c angle alpha angle beta angle gamma
81.596 81.596 129.966 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand ATP, GOL, MEK, MG enzyme Transferase E.C. BRENDA

Primary referenceBeyond the MEK-pocket: can current MEK kinase inhibitors be utilized to synthesize novel type III NCKIs? Does the MEK-pocket exist in kinases other than MEK?, Tecle H, Shao J, Li Y, Kothe M, Kazmirski S, Penzotti J, Ding YH, Ohren J, Moshinsky D, Coli R, Jhawar N, Bora E, Jacques-O'Hagan S, Wu J, Bioorg Med Chem Lett. 2009 Jan 1;19(1):226-9. Epub 2008 Oct 31. PMID:19019675
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3dv3.pdb1.gz) 97 Kb
  • Biological Unit Coordinates (3dv3.pdb2.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 3DV3
  • CSU: Contacts of Structural Units for 3DV3
  • Likely Quarternary Molecular Structure file(s) for 3DV3
  • Structure Factors (717 Kb)
  • Retrieve 3DV3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DV3 from S2C, [Save to disk]
  • Re-refined 3dv3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DV3 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 3DV3
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3DV3, from MSDmotif at EBI
  • Fold representative 3dv3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dv3] [3dv3_A]
  • SWISS-PROT database: [Q02750]
  • Domain organization of [MP2K1_HUMAN] by SWISSPFAM
  • Domain found in 3DV3: [S_TKc ] by SMART
  • Other resources with information on 3DV3
  • Community annotation for 3DV3 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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