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Yorodumi- PDB-2ldc: Solution structure of the estrogen receptor-binding stapled pepti... -
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-Basic information
Entry | Database: PDB / ID: 2ldc | |||||||||
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Title | Solution structure of the estrogen receptor-binding stapled peptide SP1 (Ac-HXILHXLLQDS-NH2) | |||||||||
Components | Estrogen receptor-binding stapled peptide SP1 | |||||||||
Keywords | DE NOVO PROTEIN | |||||||||
Function / homology | Function and homology information RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding / locomotor rhythm / aryl hydrocarbon receptor binding / regulation of lipid metabolic process / cellular response to Thyroglobulin triiodothyronine / regulation of glucose metabolic process / Synthesis of bile acids and bile salts / Endogenous sterols / Synthesis of bile acids and bile salts via 27-hydroxycholesterol / Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol ...RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding / locomotor rhythm / aryl hydrocarbon receptor binding / regulation of lipid metabolic process / cellular response to Thyroglobulin triiodothyronine / regulation of glucose metabolic process / Synthesis of bile acids and bile salts / Endogenous sterols / Synthesis of bile acids and bile salts via 27-hydroxycholesterol / Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol / regulation of cellular response to insulin stimulus / Recycling of bile acids and salts / cellular response to hormone stimulus / positive regulation of adipose tissue development / peroxisome proliferator activated receptor signaling pathway / RORA activates gene expression / Regulation of lipid metabolism by PPARalpha / BMAL1:CLOCK,NPAS2 activates circadian gene expression / SUMOylation of transcription cofactors / Activation of gene expression by SREBF (SREBP) / nuclear receptor coactivator activity / response to progesterone / nuclear receptor binding / circadian regulation of gene expression / Heme signaling / mRNA transcription by RNA polymerase II / Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 / Transcriptional activation of mitochondrial biogenesis / PPARA activates gene expression / Cytoprotection by HMOX1 / Transcriptional regulation of white adipocyte differentiation / RNA polymerase II transcription regulator complex / Circadian Clock / HATs acetylate histones / Estrogen-dependent gene expression / transcription regulator complex / transcription coactivator activity / nuclear body / protein dimerization activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / protein domain specific binding / chromatin binding / chromatin / regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / protein-containing complex / nucleoplasm / nucleus / cytoplasm Similarity search - Function | |||||||||
Method | SOLUTION NMR / simulated annealing | |||||||||
Model details | closest to the average, model 1 | |||||||||
Authors | Phillips, C. / Bazin, R. / Bent, A. / Davies, N. / Moore, R. / Pannifer, A. / Pickford, A. / Prior, S. / Read, C. / Roberts, L. ...Phillips, C. / Bazin, R. / Bent, A. / Davies, N. / Moore, R. / Pannifer, A. / Pickford, A. / Prior, S. / Read, C. / Roberts, L. / Schade, M. / Scott, A. / Brown, D. / Xu, B. / Irving, S. | |||||||||
Citation | Journal: J.Am.Chem.Soc. / Year: 2011 Title: Design and structure of stapled peptides binding to estrogen receptors. Authors: Phillips, C. / Roberts, L.R. / Schade, M. / Bazin, R. / Bent, A. / Davies, N.L. / Moore, R. / Pannifer, A.D. / Pickford, A.R. / Prior, S.H. / Read, C.M. / Scott, A. / Brown, D.G. / Xu, B. / Irving, S.L. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ldc.cif.gz | 40.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ldc.ent.gz | 27.1 KB | Display | PDB format |
PDBx/mmJSON format | 2ldc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ld/2ldc ftp://data.pdbj.org/pub/pdb/validation_reports/ld/2ldc | HTTPS FTP |
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-Related structure data
Related structure data | 2ldaC 2lddC 2yjaC 2yjdC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 1355.648 Da / Num. of mol.: 1 / Source method: obtained synthetically / References: UniProt: Q15596*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | Ionic strength: 50 / pH: 5.5 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / 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: closest to the average | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 10 / Conformers submitted total number: 10 |