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- PDB-7prv: The glucocorticoid receptor in complex with fluticasone furoate, ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7prv | ||||||
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Title | The glucocorticoid receptor in complex with fluticasone furoate, a PGC1a coactivator fragment and sgk 23bp | ||||||
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![]() | SIGNALING PROTEIN / nuclear receptor / ligand-activated transcription factor / multi-domain / complex / agonist | ||||||
Function / homology | ![]() Regulation of NPAS4 gene transcription / regulation of glucocorticoid biosynthetic process / nuclear glucocorticoid receptor activity / steroid hormone binding / positive regulation of fatty acid oxidation / PTK6 Expression / neuroinflammatory response / glucocorticoid metabolic process / : / microglia differentiation ...Regulation of NPAS4 gene transcription / regulation of glucocorticoid biosynthetic process / nuclear glucocorticoid receptor activity / steroid hormone binding / positive regulation of fatty acid oxidation / PTK6 Expression / neuroinflammatory response / glucocorticoid metabolic process / : / microglia differentiation / mammary gland duct morphogenesis / maternal behavior / astrocyte differentiation / lncRNA binding / cellular response to glucocorticoid stimulus / response to muscle activity / Activation of PPARGC1A (PGC-1alpha) by phosphorylation / cellular respiration / motor behavior / temperature homeostasis / regulation of gluconeogenesis / adrenal gland development / cellular response to steroid hormone stimulus / intracellular glucose homeostasis / response to starvation / fatty acid oxidation / response to dietary excess / estrogen response element binding / adipose tissue development / FOXO-mediated transcription of oxidative stress, metabolic and neuronal genes / energy homeostasis / brown fat cell differentiation / nuclear receptor-mediated steroid hormone signaling pathway / core promoter sequence-specific DNA binding / positive regulation of gluconeogenesis / digestion / cellular response to transforming growth factor beta stimulus / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / TBP-class protein binding / steroid binding / respiratory electron transport chain / mitochondrion organization / RNA splicing / cellular response to dexamethasone stimulus / SUMOylation of transcription cofactors / nuclear receptor coactivator activity / synaptic transmission, glutamatergic / chromosome segregation / gluconeogenesis / nuclear receptor binding / transcription initiation at RNA polymerase II promoter / transcription coregulator activity / negative regulation of smooth muscle cell proliferation / RNA polymerase II transcription regulatory region sequence-specific DNA binding / circadian regulation of gene expression / Hsp90 protein binding / Heme signaling / SUMOylation of intracellular receptors / Transcriptional activation of mitochondrial biogenesis / regulation of circadian rhythm / PPARA activates gene expression / chromatin DNA binding / mRNA processing / PML body / positive regulation of DNA-binding transcription factor activity / DNA-binding transcription repressor activity, RNA polymerase II-specific / positive regulation of miRNA transcription / Transcriptional regulation of white adipocyte differentiation / Nuclear Receptor transcription pathway / spindle / Regulation of RUNX2 expression and activity / nuclear receptor activity / sequence-specific double-stranded DNA binding / positive regulation of neuron apoptotic process / Circadian Clock / chromatin organization / positive regulation of cold-induced thermogenesis / gene expression / cellular response to oxidative stress / protein-containing complex assembly / DNA-binding transcription activator activity, RNA polymerase II-specific / DNA-binding transcription factor binding / neuron apoptotic process / RNA polymerase II-specific DNA-binding transcription factor binding / negative regulation of neuron apoptotic process / sequence-specific DNA binding / Potential therapeutics for SARS / transcription coactivator activity / protein stabilization / DNA-binding transcription factor activity, RNA polymerase II-specific / nuclear speck / mitochondrial matrix / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / cell division / negative regulation of DNA-templated transcription / centrosome / apoptotic process / ubiquitin protein ligase binding / synapse Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Postel, S. / Edman, K. / Wissler, L. | ||||||
Funding support | 1items
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![]() | ![]() Title: Quaternary glucocorticoid receptor structure highlights allosteric interdomain communication. Authors: Postel, S. / Wissler, L. / Johansson, C.A. / Gunnarsson, A. / Gordon, E. / Collins, B. / Castaldo, M. / Kohler, C. / Oling, D. / Johansson, P. / Froderberg Roth, L. / Beinsteiner, B. / ...Authors: Postel, S. / Wissler, L. / Johansson, C.A. / Gunnarsson, A. / Gordon, E. / Collins, B. / Castaldo, M. / Kohler, C. / Oling, D. / Johansson, P. / Froderberg Roth, L. / Beinsteiner, B. / Dainty, I. / Delaney, S. / Klaholz, B.P. / Billas, I.M.L. / Edman, K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 337.7 KB | Display | ![]() |
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PDB format | ![]() | 271.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.2 MB | Display | ![]() |
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Full document | ![]() | 1.2 MB | Display | |
Data in XML | ![]() | 27.4 KB | Display | |
Data in CIF | ![]() | 37.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7prwC ![]() 7prxC ![]() 3g9oS ![]() 4p6wS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
-DNA chain , 2 types, 2 molecules CD
#2: DNA chain | Mass: 7064.585 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() |
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#3: DNA chain | Mass: 7015.546 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() |
-Protein / Protein/peptide , 2 types, 3 molecules ABF
#1: Protein | Mass: 44511.457 Da / Num. of mol.: 2 / Mutation: S404A, N517D, V571M, F602S, C638D Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #4: Protein/peptide | | Mass: 2261.611 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() |
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-Non-polymers , 4 types, 39 molecules ![](data/chem/img/ZN.gif)
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#5: Chemical | ChemComp-ZN / #6: Chemical | #7: Chemical | #8: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.02 Å3/Da / Density % sol: 63.66 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 8 % PEG3350, 0.3 M 1,6-hexanediol, 0.1 M guanidine hydrochloride, 8 % 2,2,2-trifluoroethanol, 0.1 M Bis Tris Propane pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 2M / Detector: PIXEL / Date: Mar 7, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.96545 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→68.684 Å / Num. obs: 24963 / % possible obs: 93.9 % / Redundancy: 6.5 % / CC1/2: 0.999 / Rmerge(I) obs: 0.067 / Rpim(I) all: 0.029 / Net I/σ(I): 16.3 |
Reflection shell | Resolution: 2.7→3.005 Å / Redundancy: 6.9 % / Rmerge(I) obs: 1.035 / Mean I/σ(I) obs: 1.6 / Num. unique obs: 1248 / Rpim(I) all: 0.425 / % possible all: 63.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3g9O, 4P6W Resolution: 2.7→68.68 Å / Cor.coef. Fo:Fc: 0.933 / Cor.coef. Fo:Fc free: 0.931 / Cross valid method: THROUGHOUT / SU Rfree Blow DPI: 0.382
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Displacement parameters | Biso mean: 103.55 Å2
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Refine analyze | Luzzati coordinate error obs: 0.4 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.7→68.68 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.7→2.88 Å
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Refinement TLS params. | Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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