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Yorodumi- PDB-2mov: Receptor for Advanced Glycation End Products (RAGE) Specifically ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2mov | ||||||
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Title | Receptor for Advanced Glycation End Products (RAGE) Specifically Recognizes Methylglyoxal Derived AGEs. | ||||||
Components | Advanced glycosylation end product-specific receptor | ||||||
Keywords | PROTEIN BINDING / PROTEIN/LIGAND | ||||||
Function / homology | Function and homology information regulation of CD4-positive, alpha-beta T cell activation / negative regulation of blood circulation / advanced glycation end-product receptor activity / positive regulation of endothelin production / regulation of T cell mediated cytotoxicity / glucose mediated signaling pathway / negative regulation of long-term synaptic depression / positive regulation of monocyte extravasation / positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process / positive regulation of dendritic cell differentiation ...regulation of CD4-positive, alpha-beta T cell activation / negative regulation of blood circulation / advanced glycation end-product receptor activity / positive regulation of endothelin production / regulation of T cell mediated cytotoxicity / glucose mediated signaling pathway / negative regulation of long-term synaptic depression / positive regulation of monocyte extravasation / positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process / positive regulation of dendritic cell differentiation / regulation of p38MAPK cascade / regulation of non-canonical NF-kappaB signal transduction / scavenger receptor activity / induction of positive chemotaxis / transcytosis / protein localization to membrane / positive regulation of monocyte chemotactic protein-1 production / positive regulation of heterotypic cell-cell adhesion / S100 protein binding / regulation of long-term synaptic potentiation / regulation of spontaneous synaptic transmission / laminin receptor activity / positive regulation of p38MAPK cascade / negative regulation of interleukin-10 production / positive regulation of activated T cell proliferation / response to amyloid-beta / TRAF6 mediated NF-kB activation / Advanced glycosylation endproduct receptor signaling / transport across blood-brain barrier / negative regulation of long-term synaptic potentiation / positive regulation of chemokine production / positive regulation of interleukin-12 production / astrocyte activation / positive regulation of interleukin-1 beta production / positive regulation of JNK cascade / microglial cell activation / TAK1-dependent IKK and NF-kappa-B activation / positive regulation of non-canonical NF-kappaB signal transduction / regulation of synaptic plasticity / transmembrane signaling receptor activity / fibrillar center / response to wounding / positive regulation of interleukin-6 production / cellular response to amyloid-beta / cell junction / positive regulation of tumor necrosis factor production / neuron projection development / regulation of inflammatory response / signaling receptor activity / positive regulation of NF-kappaB transcription factor activity / amyloid-beta binding / postsynapse / positive regulation of ERK1 and ERK2 cascade / learning or memory / cell surface receptor signaling pathway / molecular adaptor activity / response to hypoxia / positive regulation of protein phosphorylation / apical plasma membrane / inflammatory response / protein-containing complex binding / cell surface / extracellular region / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | fewest violations, model12 | ||||||
Authors | Shekhtman, A. / Xue, J. / Ray, R. / Singer, D. / Bohme, D. / Burz, D.S. / Rai, V. / Hoffman, R. | ||||||
Citation | Journal: Biochemistry / Year: 2014 Title: The Receptor for Advanced Glycation End Products (RAGE) Specifically Recognizes Methylglyoxal-Derived AGEs. Authors: Xue, J. / Ray, R. / Singer, D. / Bohme, D. / Burz, D.S. / Rai, V. / Hoffmann, R. / Shekhtman, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2mov.cif.gz | 716.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2mov.ent.gz | 601.8 KB | Display | PDB format |
PDBx/mmJSON format | 2mov.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mo/2mov ftp://data.pdbj.org/pub/pdb/validation_reports/mo/2mov | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11571.323 Da / Num. of mol.: 1 / Fragment: UNP residues 23-125 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: AGER, RAGE / Production host: Escherichia coli (E. coli) / References: UniProt: Q15109 |
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#2: Chemical | ChemComp-IOR / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.1 mM [U-13C; U-15N] Methylglyoxal-derived hydroimidazolones isoform 1, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.1 mM Component: Methylglyoxal-derived hydroimidazolones isoform 1-1 Isotopic labeling: [U-13C; U-15N] |
Sample conditions | pH: 6.5 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: fewest violations | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 1000 / Conformers submitted total number: 20 |