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Yorodumi- PDB-2rnr: Solution structure of the complex between TFIIE alpha C-terminal ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2rnr | ||||||
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Title | Solution structure of the complex between TFIIE alpha C-terminal acidic domain and TFIIH p62 PH domain | ||||||
Components |
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Keywords | TRANSCRIPTION / general transcription factor / human TFIIE alpha / human TFIIH p62 / acidic domain / PH domain / DNA DAMAGE / DNA REPAIR | ||||||
Function / homology | Function and homology information transcription factor TFIIE complex / transcription open complex formation at RNA polymerase II promoter / transcription factor TFIIH core complex / transcription factor TFIIH holo complex / RNA Polymerase I Transcription Termination / nuclear thyroid hormone receptor binding / regulation of cyclin-dependent protein serine/threonine kinase activity / RNA Pol II CTD phosphorylation and interaction with CE during HIV infection / RNA Pol II CTD phosphorylation and interaction with CE / Formation of the Early Elongation Complex ...transcription factor TFIIE complex / transcription open complex formation at RNA polymerase II promoter / transcription factor TFIIH core complex / transcription factor TFIIH holo complex / RNA Polymerase I Transcription Termination / nuclear thyroid hormone receptor binding / regulation of cyclin-dependent protein serine/threonine kinase activity / RNA Pol II CTD phosphorylation and interaction with CE during HIV infection / RNA Pol II CTD phosphorylation and interaction with CE / Formation of the Early Elongation Complex / Formation of the HIV-1 Early Elongation Complex / mRNA Capping / HIV Transcription Initiation / RNA Polymerase II HIV Promoter Escape / Transcription of the HIV genome / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Polymerase I Transcription Initiation / transcription by RNA polymerase I / RNA polymerase II transcribes snRNA genes / transcription factor TFIID complex / RNA polymerase II general transcription initiation factor activity / Tat-mediated elongation of the HIV-1 transcript / Formation of HIV-1 elongation complex containing HIV-1 Tat / Formation of HIV elongation complex in the absence of HIV Tat / RNA Polymerase II Transcription Elongation / Formation of RNA Pol II elongation complex / RNA Polymerase II Pre-transcription Events / hormone-mediated signaling pathway / nucleotide-excision repair / TP53 Regulates Transcription of DNA Repair Genes / RNA Polymerase I Promoter Escape / transcription initiation at RNA polymerase II promoter / NoRC negatively regulates rRNA expression / Dual Incision in GG-NER / Transcription-Coupled Nucleotide Excision Repair (TC-NER) / Formation of TC-NER Pre-Incision Complex / Formation of Incision Complex in GG-NER / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / transcription by RNA polymerase II / DNA repair / chromatin binding / positive regulation of DNA-templated transcription / nucleoplasm / nucleus / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / DGSA-distance geometry simulated annealing, simulated annealing | ||||||
Authors | Okuda, M. / Nishimura, Y. | ||||||
Citation | Journal: Embo J. / Year: 2008 Title: Structural insight into the TFIIE-TFIIH interaction: TFIIE and p53 share the binding region on TFIIH Authors: Okuda, M. / Tanaka, A. / Satoh, M. / Mizuta, S. / Takazawa, M. / Ohkuma, Y. / Nishimura, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2rnr.cif.gz | 1 MB | Display | PDBx/mmCIF format |
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PDB format | pdb2rnr.ent.gz | 879.6 KB | Display | PDB format |
PDBx/mmJSON format | 2rnr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2rnr_validation.pdf.gz | 356.3 KB | Display | wwPDB validaton report |
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Full document | 2rnr_full_validation.pdf.gz | 669.7 KB | Display | |
Data in XML | 2rnr_validation.xml.gz | 82.5 KB | Display | |
Data in CIF | 2rnr_validation.cif.gz | 107.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rn/2rnr ftp://data.pdbj.org/pub/pdb/validation_reports/rn/2rnr | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 7382.924 Da / Num. of mol.: 1 / Fragment: C-terminal acidic domain, UNP residues 378-439 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) / References: UniProt: P29083 |
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#2: Protein | Mass: 12450.445 Da / Num. of mol.: 1 / Fragment: PH domain, UNP residues 1-108 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) / References: UniProt: P32780 |
-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: 0 / pH: 6.8 / Pressure: ambient / Temperature: 305 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: DGSA-distance geometry simulated annealing, simulated annealing Software ordinal: 1 / Details: refinement with water | |||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |