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Yorodumi- PDB-1lo1: ESTROGEN RELATED RECEPTOR 2 DNA BINDING DOMAIN IN COMPLEX WITH DNA -
+Open data
-Basic information
Entry | Database: PDB / ID: 1lo1 | ||||||
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Title | ESTROGEN RELATED RECEPTOR 2 DNA BINDING DOMAIN IN COMPLEX WITH DNA | ||||||
Components |
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Keywords | HORMONE/GROWTH FACTOR RECEPTOR/DNA / Estrogen Related Receptor 2 / DNA Binding Domain / hERR2 / Hormone Nuclear Receptor / HORMONE-GROWTH FACTOR RECEPTOR-DNA COMPLEX | ||||||
Function / homology | Function and homology information cell dedifferentiation / regulation of stem cell division / stem cell division / negative regulation of stem cell differentiation / photoreceptor cell maintenance / nuclear steroid receptor activity / stem cell population maintenance / positive regulation of stem cell population maintenance / RNA polymerase II complex binding / inner ear development ...cell dedifferentiation / regulation of stem cell division / stem cell division / negative regulation of stem cell differentiation / photoreceptor cell maintenance / nuclear steroid receptor activity / stem cell population maintenance / positive regulation of stem cell population maintenance / RNA polymerase II complex binding / inner ear development / cis-regulatory region sequence-specific DNA binding / estrogen response element binding / nuclear receptor-mediated steroid hormone signaling pathway / condensed chromosome / steroid binding / Nuclear Receptor transcription pathway / nuclear receptor activity / sequence-specific double-stranded DNA binding / DNA-binding transcription activator activity, RNA polymerase II-specific / RNA polymerase II-specific DNA-binding transcription factor binding / cell population proliferation / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / regulation of DNA-templated transcription / chromatin / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / positive regulation of transcription by RNA polymerase II / zinc ion binding / nucleoplasm / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / distance geometry simulated annealing | ||||||
Authors | Gearhart, M.D. / Holmbeck, S.M.A. / Evans, R.M. / Dyson, H.J. / Wright, P.E. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2003 Title: Monomeric Complex of Human Orphan Estrogen Related Receptor-2 with DNA: A Pseudo-dimer Interface Mediates Extended Half-site Recognition Authors: Gearhart, M.D. / Holmbeck, S.M.A. / Evans, R.M. / Dyson, H.J. / Wright, P.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1lo1.cif.gz | 884.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1lo1.ent.gz | 736.1 KB | Display | PDB format |
PDBx/mmJSON format | 1lo1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1lo1_validation.pdf.gz | 374.6 KB | Display | wwPDB validaton report |
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Full document | 1lo1_full_validation.pdf.gz | 686.4 KB | Display | |
Data in XML | 1lo1_validation.xml.gz | 33 KB | Display | |
Data in CIF | 1lo1_validation.cif.gz | 63 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lo/1lo1 ftp://data.pdbj.org/pub/pdb/validation_reports/lo/1lo1 | HTTPS FTP |
-Related structure data
Similar structure data |
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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: DNA chain | Mass: 3976.599 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: DNA chain | Mass: 3967.585 Da / Num. of mol.: 1 / Source method: obtained synthetically |
#3: Protein | Mass: 11148.113 Da / Num. of mol.: 1 / Fragment: DNA BINDING DOMAIN / Mutation: C163A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: hERR2 / Plasmid: pET24a / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: O95718 |
#4: Chemical |
-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 conditions | Ionic strength: 20 mM K2SO4 / pH: 6.8 / Pressure: ambient / Temperature: 310 K | |||||||||
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | ||||||||||||||||||||
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Radiation wavelength | Relative weight: 1 | ||||||||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 32 / Conformers submitted total number: 20 |