4C0M Immune System date Aug 05, 2013
title Crystal Structure Of The N Terminal Domain Of Wild Type Trif (Tir-Domain-Containing Adapter-Inducing Interferon-Beta)
authors M.O.Ullah, T.Ve, M.Mangan, M.Alaidarous, M.J.Sweet, A.Mansell, B.K
compound source
Molecule: Tir Domain-Containing Adapter Molecule 1
Chain: A, B, C, D
Fragment: N-Terminal Domain, Residues 1-153
Synonym: Ticam-1, Proline-Rich, Vinculin And Tir Domain-Con Protein B, Putative Nf-Kappa-B-Activating Protein 502h, Toll-Interleukin-1 Receptor Domain-Containing Adapter Prot Inducing Interferon Beta, Myd88-3, Tir Domain-Containing A Protein Inducing Ifn-Beta, Trif;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: B834
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7
symmetry Space Group: P 1
R_factor 0.2516 R_Free 0.2912
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.000 49.400 70.910 88.56 77.20 72.11
method X-Ray Diffractionresolution 2.80 Å
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe TLR signalling adaptor TRIF/TICAM-1 has an N-terminal helical domain with structural similarity to IFIT proteins., Ullah MO, Ve T, Mangan M, Alaidarous M, Sweet MJ, Mansell A, Kobe B, Acta Crystallogr D Biol Crystallogr. 2013 Dec;69(Pt 12):2420-30. doi:, 10.1107/S0907444913022385. Epub 2013 Nov 19. PMID:24311583
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (182 Kb) [Save to disk]
  • Biological Unit Coordinates (4c0m.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (4c0m.pdb2.gz) 45 Kb
  • Biological Unit Coordinates (4c0m.pdb3.gz) 46 Kb
  • Biological Unit Coordinates (4c0m.pdb4.gz) 46 Kb
  • CSU: Contacts of Structural Units for 4C0M
  • Structure Factors (245 Kb)
  • Retrieve 4C0M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4C0M from S2C, [Save to disk]
  • Re-refined 4c0m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4C0M 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 4C0M
  • 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 4C0M, from MSDmotif at EBI
  • Fold representative 4c0m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4c0m_B] [4c0m] [4c0m_C] [4c0m_A] [4c0m_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4C0M
  • Community annotation for 4C0M at PDBWiki (http://pdbwiki.org)

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