3FXI	Immune System	date	Jan 21, 2009
title	Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps Ra
authors	B.S.Park, D.H.Song, H.M.Kim, J.O.Lee
compound		source
Molecule: Toll-Like Receptor 4 Chain: A, B Fragment: Extracellular Domain, Residues 27-631 Synonym: Tlr4, Htoll Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Tlr4 Expression_system: Trichoplusia Ni Expression_system_taxid: 7111 Expression_system_cell: High Five Cells Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pacgp67a
Molecule: Lymphocyte Antigen 96 Chain: C, D Synonym: Md-2, Protein Md-2, Esop-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Esop1, Ly96, Md-2, Md2 Expression_system: Trichoplusia Ni Expression_system_taxid: 7111 Expression_system_cell: High Five Cells Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pacgp67a
symmetry	Space Group: P 21 21 21	R_factor 0.241 R_Free 0.281
crystal cell	length a length b length c angle alpha angle beta angle gamma 91.160 103.500 251.810 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.10 Å
ligand	DAO, FTT, GCS, GMH, KDO, MG, MYR, NAG, PA1, PO4	enzyme
note	3FXI (Molecule of the Month:pdb143)
Gene Ontology	Chain Function Process Component A, B D, C
Primary reference	The structural basis of lipopolysaccharide recognition by the TLR4-MD-2 complex., Park BS, Song DH, Kim HM, Choi BS, Lee H, Lee JO, Nature. 2009 Apr 30;458(7242):1191-5. Epub 2009 Mar 1. PMID:19252480

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (257 Kb) [Save to disk] Biological Unit Coordinates (3fxi.pdb1.gz) 247 Kb LPC: Ligand-Protein Contacts for 3FXI CSU: Contacts of Structural Units for 3FXI Likely Quarternary Molecular Structure file(s) for 3FXI Structure Factors (371 Kb) Retrieve 3FXI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3FXI from S2C, [Save to disk] Re-refined 3fxi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3FXI 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 3FXI

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 3D motif for 3FXI, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3fxi_C] [3fxi] [3fxi_D] [3fxi_B] [3fxi_A] SWISS-PROT database: [Q9Y6Y9] [O00206] Belongs to the neat-domain containing methaemoglobin heme sequestration (n-mhs) family according to TCDB. Domain organization of [LY96_HUMAN] [TLR4_HUMAN] by SWISSPFAM Domains found in 3FXI: [LRR] [LRRCT] [LRR_TYP] [ML ] by SMART

Other resources with information on 3FXI

Community annotation for 3FXI at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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