3W3K Immune System date Dec 22, 2012
title Crystal Structure Of Human Tlr8 In Complex With Cl075
authors H.Tanji, U.Ohto, T.Shimizu
compound source
Molecule: Toll-Like Receptor 8
Chain: A, B
Fragment: Unp Residues 27-827
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tlr8, Unq249pro286
Expression_system: Drosophila
Expression_system_taxid: 7215
Expression_system_strain: S2
symmetry Space Group: P 1 21 1
R_factor 0.205 R_Free 0.244
length a length b length c angle alpha angle beta angle gamma
72.410 154.020 86.860 90.00 103.03 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand BMA, L07, MAN, NAG enzyme
A, B

Primary referenceStructural reorganization of the Toll-like receptor 8 dimer induced by agonistic ligands., Tanji H, Ohto U, Shibata T, Miyake K, Shimizu T, Science. 2013 Mar 22;339(6126):1426-9. doi: 10.1126/science.1229159. PMID:23520111
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (531 Kb) [Save to disk]
  • Biological Unit Coordinates (3w3k.pdb1.gz) 521 Kb
  • LPC: Ligand-Protein Contacts for 3W3K
  • CSU: Contacts of Structural Units for 3W3K
  • Structure Factors (4081 Kb)
  • Retrieve 3W3K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3W3K from S2C, [Save to disk]
  • Re-refined 3w3k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3W3K 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 3W3K
  • 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 3W3K, from MSDmotif at EBI
  • Fold representative 3w3k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3w3k] [3w3k_B] [3w3k_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3W3K: [LRR] [LRRCT] [LRR_TYP ] by SMART
  • Other resources with information on 3W3K
  • Community annotation for 3W3K at PDBWiki (http://pdbwiki.org)

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