2Y8O Transferase date Feb 08, 2011
title Crystal Structure Of Human P38alpha Complexed With A Mapk Do Peptide
authors T.Barkai, A.Garai, I.Toeroe, A.Remenyi
compound source
Molecule: Mitogen-Activated Protein Kinase 14
Chain: A
Synonym: Cytokine Suppressive Anti-Inflammatory Drug-Bindin Map Kinase Mxi2, Max-Interacting Protein 2, Mitogen-Activat Kinase P38 Alpha;
Ec: 2.7.11.24
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Rosetta Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet Derivative

Molecule: Dual Specificity Mitogen-Activated Protein Kinase
Chain: B
Fragment: N-Terminal Docking Peptide Of Mkk6, Residues 4-17
Synonym: Mapkerk Kinase 6, Sapkk3
Ec: 2.7.12.2
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 31 2 1
R_factor 0.176 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.920 81.920 122.590 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.95 Å
ligand
enzyme Transferase E.C.2.7.11.24 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSpecificity of linear motifs that bind to a common mitogen-activated protein kinase docking groove., Garai A, Zeke A, Gogl G, Toro I, Fordos F, Blankenburg H, Barkai T, Varga J, Alexa A, Emig D, Albrecht M, Remenyi A, Sci Signal. 2012 Oct 9;5(245):ra74. doi: 10.1126/scisignal.2003004. PMID:23047924
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk]
  • Biological Unit Coordinates (2y8o.pdb1.gz) 118 Kb
  • CSU: Contacts of Structural Units for 2Y8O
  • Structure Factors (594 Kb)
  • Retrieve 2Y8O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y8O from S2C, [Save to disk]
  • Re-refined 2y8o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y8O 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 2Y8O
  • 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 2Y8O, from MSDmotif at EBI
  • Fold representative 2y8o from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y8o_A] [2y8o] [2y8o_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2Y8O: [S_TKc ] by SMART
  • Other resources with information on 2Y8O
  • Community annotation for 2Y8O at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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