3MOP Signaling Protein, Immune System date Apr 23, 2010
title The Ternary Death Domain Complex Of Myd88, Irak4, And Irak2
authors S.C.Lin, Y.C.Lo, H.Wu
compound source
Molecule: Myeloid Differentiation Primary Response Protein
Chain: A, B, C, D, E, F
Fragment: Death Domain Residues 20-117
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Myd88
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ripl
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: Interleukin-1 Receptor-Associated Kinase 4
Chain: G, H, I, J
Fragment: Death Domain Residues 4-106
Synonym: Irak-4, Renal Carcinoma Antigen Ny-Ren-64
Ec: 2.7.11.1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Irak4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ripl
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a

Molecule: Interleukin-1 Receptor-Associated Kinase-Like 2
Chain: K, L, M, N
Fragment: Death Domain Residues 2-112
Synonym: Irak-2
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Irak2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ripl
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a
symmetry Space Group: C 2 2 21
R_factor 0.216 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.709 307.116 187.619 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand
enzyme Transferase E.C.2.7.11.1 BRENDA
note 3MOP is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
F, A, N, K, E, B, M, C, D, L


Primary referenceHelical assembly in the MyD88-IRAK4-IRAK2 complex in TLR/IL-1R signalling., Lin SC, Lo YC, Wu H, Nature. 2010 May 19. PMID:20485341
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (514 Kb) [Save to disk]
  • Biological Unit Coordinates (3mop.pdb1.gz) 505 Kb
  • CSU: Contacts of Structural Units for 3MOP
  • Structure Factors (527 Kb)
  • Retrieve 3MOP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MOP from S2C, [Save to disk]
  • Re-refined 3mop structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MOP 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 3MOP
  • 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 3MOP, from MSDmotif at EBI
  • Fold representative 3mop from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mop_F] [3mop_M] [3mop_I] [3mop_C] [3mop] [3mop_K] [3mop_L] [3mop_B] [3mop_H] [3mop_E] [3mop_A] [3mop_J] [3mop_D] [3mop_G] [3mop_N]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3MOP: [DEATH ] by SMART
  • Other resources with information on 3MOP
  • Community annotation for 3MOP 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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