+Open data
-Basic information
Entry | Database: PDB / ID: 5t7q | ||||||
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Title | TIRAP phosphoinositide-binding motif | ||||||
Components | Toll/interleukin-1 receptor domain-containing adapter protein | ||||||
Keywords | SIGNALING PROTEIN / TIRAP / phosphoinositide / phosphorylation / phosphoinositide-binding motif / structure | ||||||
Function / homology | Function and homology information positive regulation of interleukin-15 production / TIRAP-dependent toll-like receptor 4 signaling pathway / regulation of interferon-beta production / cellular response to bacterial lipopeptide / positive regulation of toll-like receptor 3 signaling pathway / Toll-like receptor 4 binding / positive regulation of toll-like receptor 2 signaling pathway / Toll-like receptor 2 binding / positive regulation of toll-like receptor 4 signaling pathway / positive regulation of chemokine (C-X-C motif) ligand 1 production ...positive regulation of interleukin-15 production / TIRAP-dependent toll-like receptor 4 signaling pathway / regulation of interferon-beta production / cellular response to bacterial lipopeptide / positive regulation of toll-like receptor 3 signaling pathway / Toll-like receptor 4 binding / positive regulation of toll-like receptor 2 signaling pathway / Toll-like receptor 2 binding / positive regulation of toll-like receptor 4 signaling pathway / positive regulation of chemokine (C-X-C motif) ligand 1 production / myeloid cell differentiation / positive regulation of chemokine (C-X-C motif) ligand 2 production / positive regulation of neutrophil chemotaxis / MyD88 deficiency (TLR2/4) / MyD88-dependent toll-like receptor signaling pathway / IRAK4 deficiency (TLR2/4) / MyD88:MAL(TIRAP) cascade initiated on plasma membrane / toll-like receptor 4 signaling pathway / 3'-UTR-mediated mRNA stabilization / regulation of innate immune response / extrinsic component of cytoplasmic side of plasma membrane / cellular response to lipoteichoic acid / endocytic vesicle / signaling adaptor activity / positive regulation of B cell proliferation / phosphatidylinositol-4,5-bisphosphate binding / positive regulation of interleukin-12 production / positive regulation of interleukin-8 production / protein kinase C binding / positive regulation of JNK cascade / ruffle membrane / positive regulation of protein-containing complex assembly / positive regulation of interleukin-6 production / positive regulation of tumor necrosis factor production / positive regulation of NF-kappaB transcription factor activity / protein-macromolecule adaptor activity / positive regulation of canonical NF-kappaB signal transduction / ER-Phagosome pathway / response to lipopolysaccharide / positive regulation of ERK1 and ERK2 cascade / cell surface receptor signaling pathway / molecular adaptor activity / defense response to Gram-positive bacterium / inflammatory response / innate immune response / cell surface / identical protein binding / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Capelluto, D.G.S. / Ellena, J.F. / Armstrong, G. / Zhao, X. / Xiao, S. | ||||||
Funding support | United States, 1items
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Citation | Journal: Sci Rep / Year: 2017 Title: Membrane targeting of TIRAP is negatively regulated by phosphorylation in its phosphoinositide-binding motif. Authors: Zhao, X. / Xiong, W. / Xiao, S. / Tang, T.X. / Ellena, J.F. / Armstrong, G.S. / Finkielstein, C.V. / Capelluto, D.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5t7q.cif.gz | 150.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5t7q.ent.gz | 90.6 KB | Display | PDB format |
PDBx/mmJSON format | 5t7q.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5t7q_validation.pdf.gz | 353.5 KB | Display | wwPDB validaton report |
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Full document | 5t7q_full_validation.pdf.gz | 408.3 KB | Display | |
Data in XML | 5t7q_validation.xml.gz | 7.2 KB | Display | |
Data in CIF | 5t7q_validation.cif.gz | 11.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/t7/5t7q ftp://data.pdbj.org/pub/pdb/validation_reports/t7/5t7q | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 2550.200 Da / Num. of mol.: 1 / Fragment: UNP residues 15-35 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: TIRAP, MAL Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) References: UniProt: P58753 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: micelle Contents: 0.4 mM [U-99% 13C; U-99% 15N] TIRAP PBM, 90% H2O/10% D2O Label: TIRAP PBM / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.4 mM / Component: TIRAP PBM / Isotopic labeling: [U-99% 13C; U-99% 15N] |
Sample conditions | Details: 10 mM d4-sodium citrate (pH 6), 50 mM NaCl, 1 mM NaN3, 10% D2O, and 160 mM d38-DPC. Ionic strength: 60 mM mM / Ionic strength err: 0.2 / Label: conditions_1 / pH: 6 / PH err: 0.05 / Pressure: 1 atm / Pressure err: 0.01 / Temperature: 298 K / Temperature err: 0.2 |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy and backbone RMSD < 2A Conformers calculated total number: 500 / Conformers submitted total number: 20 |