+Open data
-Basic information
Entry | Database: PDB / ID: 2k7s | ||||||
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Title | Human ARNT C-Terminal PAS Domain, 3 Residue IB slip | ||||||
Components | Aryl hydrocarbon receptor nuclear translocator | ||||||
Keywords | TRANSCRIPTION / ARNT PAS-B / Beta-strand Slip / PAS domain / Activator / Alternative splicing / DNA-binding / Nucleus / Polymorphism / Transcription regulation | ||||||
Function / homology | Function and homology information nuclear aryl hydrocarbon receptor complex / Aryl hydrocarbon receptor signalling / positive regulation of hormone biosynthetic process / aryl hydrocarbon receptor complex / positive regulation of protein sumoylation / Xenobiotics / Phase I - Functionalization of compounds / positive regulation of vascular endothelial growth factor receptor signaling pathway / Regulation of gene expression by Hypoxia-inducible Factor / aryl hydrocarbon receptor binding ...nuclear aryl hydrocarbon receptor complex / Aryl hydrocarbon receptor signalling / positive regulation of hormone biosynthetic process / aryl hydrocarbon receptor complex / positive regulation of protein sumoylation / Xenobiotics / Phase I - Functionalization of compounds / positive regulation of vascular endothelial growth factor receptor signaling pathway / Regulation of gene expression by Hypoxia-inducible Factor / aryl hydrocarbon receptor binding / positive regulation of vascular endothelial growth factor production / embryonic placenta development / Endogenous sterols / cis-regulatory region sequence-specific DNA binding / positive regulation of endothelial cell proliferation / NPAS4 regulates expression of target genes / positive regulation of glycolytic process / positive regulation of erythrocyte differentiation / PPARA activates gene expression / negative regulation of inflammatory response / RNA polymerase II transcription regulator complex / nuclear receptor activity / sequence-specific double-stranded DNA binding / cellular response to oxidative stress / RNA polymerase II-specific DNA-binding transcription factor binding / sequence-specific DNA binding / cell differentiation / nuclear body / response to hypoxia / DNA-binding transcription factor activity, RNA polymerase II-specific / protein heterodimerization activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin / regulation of transcription by RNA polymerase II / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / nucleoplasm / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing, torsion angle dynamics, molecular dynamics | ||||||
Authors | Evans, M.R. / Card, P.B. / Gardner, K.H. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2009 Title: ARNT PAS-B has a fragile native state structure with an alternative beta-sheet register nearby in sequence space Authors: Evans, M.R. / Card, P.B. / Gardner, K.H. #1: Journal: J.Mol.Biol. / Year: 2005 Title: Structural Basis of ARNT PAS-B Dimerization: Use of a Common Beta-sheet Interface for Hetero- and Homodimerization Authors: Card, P.B. / Erbel, P.J.A. / Gardner, K.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2k7s.cif.gz | 738.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2k7s.ent.gz | 615.3 KB | Display | PDB format |
PDBx/mmJSON format | 2k7s.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2k7s_validation.pdf.gz | 398.1 KB | Display | wwPDB validaton report |
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Full document | 2k7s_full_validation.pdf.gz | 546.5 KB | Display | |
Data in XML | 2k7s_validation.xml.gz | 46.6 KB | Display | |
Data in CIF | 2k7s_validation.cif.gz | 73.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/k7/2k7s ftp://data.pdbj.org/pub/pdb/validation_reports/k7/2k7s | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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NMR ensembles |
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-Components
#1: Protein | Mass: 13799.488 Da / Num. of mol.: 1 / Fragment: ARNT PAS-B / Mutation: F444Q, F446A, Y456T Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: ARNT / Plasmid: pHis-parallel / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P27540 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 900 uM [U-98% 13C; U-98% 15N] ARNT PAS-B Slipped IB Strand, 50 mM TRIS, 17 mM sodium chloride, 5 mM DTT, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 17 / pH: 7.5 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, torsion angle dynamics, molecular dynamics Software ordinal: 1 | ||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 1000 / Conformers submitted total number: 20 |