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Yorodumi- PDB-6taz: Timeless couples G quadruplex detection with processing by DDX11 ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6taz | ||||||
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Title | Timeless couples G quadruplex detection with processing by DDX11 during DNA replication | ||||||
Components | Protein timeless homolog | ||||||
Keywords | DNA BINDING PROTEIN / DNA-binding protein / 3-helix bundle / tandem repeat | ||||||
Function / homology | Function and homology information cellular response to bleomycin / detection of abiotic stimulus / replication fork arrest / cell cycle phase transition / cellular response to cisplatin / cellular response to hydroxyurea / DNA replication checkpoint signaling / replication fork protection complex / positive regulation of double-strand break repair / branching morphogenesis of an epithelial tube ...cellular response to bleomycin / detection of abiotic stimulus / replication fork arrest / cell cycle phase transition / cellular response to cisplatin / cellular response to hydroxyurea / DNA replication checkpoint signaling / replication fork protection complex / positive regulation of double-strand break repair / branching morphogenesis of an epithelial tube / positive regulation of double-strand break repair via homologous recombination / lung development / morphogenesis of an epithelium / regulation of circadian rhythm / circadian rhythm / Processing of DNA double-strand break ends / site of double-strand break / cell division / DNA repair / negative regulation of DNA-templated transcription / DNA damage response / chromatin / DNA binding / nucleoplasm / identical protein binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Lerner Koch, L. / Holzer, S. / Kilkenny, M.L. / Murat, P. / Svikovic, S. / Schiavone, D. / Bittleston, A. / Maman, J.D. / Branzei, D. / Stott, K. ...Lerner Koch, L. / Holzer, S. / Kilkenny, M.L. / Murat, P. / Svikovic, S. / Schiavone, D. / Bittleston, A. / Maman, J.D. / Branzei, D. / Stott, K. / Pellegrini, L. / Sale, E.J. | ||||||
Funding support | United Kingdom, 1items
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Citation | Journal: Embo J. / Year: 2020 Title: Timeless couples G-quadruplex detection with processing by DDX11 helicase during DNA replication. Authors: Lerner, L.K. / Holzer, S. / Kilkenny, M.L. / Svikovic, S. / Murat, P. / Schiavone, D. / Eldridge, C.B. / Bittleston, A. / Maman, J.D. / Branzei, D. / Stott, K. / Pellegrini, L. / Sale, J.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6taz.cif.gz | 901.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6taz.ent.gz | 757.2 KB | Display | PDB format |
PDBx/mmJSON format | 6taz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6taz_validation.pdf.gz | 555.1 KB | Display | wwPDB validaton report |
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Full document | 6taz_full_validation.pdf.gz | 3.7 MB | Display | |
Data in XML | 6taz_validation.xml.gz | 575.2 KB | Display | |
Data in CIF | 6taz_validation.cif.gz | 371.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ta/6taz ftp://data.pdbj.org/pub/pdb/validation_reports/ta/6taz | HTTPS FTP |
-Related structure data
Related structure data | 6t9qC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: Protein | Mass: 16359.771 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: TIMELESS, TIM, TIM1, TIMELESS1 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9UNS1 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 0.5 mM [U-13C; U-15N] TimDBD, 10 mM NA sodium phosphate, 40 mM NA potassium chloride, 0.5 mM NA EDTA, 90% H2O/10% D2O Label: 15N13C_sample / Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 50 mM / Label: 1 / pH: 6.4 / Pressure: atmospheric bar / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | |||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 20 |