+Open data
-Basic information
Entry | Database: PDB / ID: 6trs | ||||||
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Title | Crystal structure of TFIIH subunit p52 in complex with p8 | ||||||
Components |
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Keywords | TRANSCRIPTION / TFIIH / DNA repair | ||||||
Function / homology | Function and homology information : / transcription factor TFIIH holo complex / transcription factor TFIIH core complex / ATPase activator activity / transcription initiation at RNA polymerase II promoter / nucleotide-excision repair / cytosol Similarity search - Function | ||||||
Biological species | Chaetomium thermophilum (fungus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.68 Å | ||||||
Authors | Koelmel, W. / Kuper, J. / Schoenwetter, E. / Kisker, C. | ||||||
Funding support | Germany, 1items
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Citation | Journal: Nucleic Acids Res. / Year: 2020 Title: How to limit the speed of a motor: the intricate regulation of the XPB ATPase and translocase in TFIIH. Authors: Kappenberger, J. / Koelmel, W. / Schoenwetter, E. / Scheuer, T. / Woerner, J. / Kuper, J. / Kisker, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6trs.cif.gz | 287.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6trs.ent.gz | 240.8 KB | Display | PDB format |
PDBx/mmJSON format | 6trs.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tr/6trs ftp://data.pdbj.org/pub/pdb/validation_reports/tr/6trs | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 46245.441 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus) Gene: CTHT_0044720 / Production host: Escherichia coli (E. coli) / References: UniProt: G0S965 #2: Protein | | Mass: 11563.133 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus) Gene: CTHT_0052580 / Production host: Escherichia coli (E. coli) / References: UniProt: G0SDQ1 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.91 Å3/Da / Density % sol: 57.79 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion / pH: 8.5 / Details: ammonium chloride, PEG 4000, TRIS |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID30B / Wavelength: 0.9677 Å |
Detector | Type: DECTRIS EIGER X 4M / Detector: PIXEL / Date: Feb 27, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9677 Å / Relative weight: 1 |
Reflection | Resolution: 2.68→19.92 Å / Num. obs: 17307 / % possible obs: 88.7 % / Redundancy: 4.9 % / Biso Wilson estimate: 53.57 Å2 / CC1/2: 0.983 / Rmerge(I) obs: 0.28 / Rpim(I) all: 0.14 / Net I/σ(I): 5.7 |
Reflection shell | Resolution: 2.68→2.95 Å / Redundancy: 4.8 % / Rmerge(I) obs: 1.429 / Mean I/σ(I) obs: 1.2 / Num. unique obs: 865 / CC1/2: 0.318 / Rpim(I) all: 0.715 / % possible all: 49.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.68→19.92 Å / Cor.coef. Fo:Fc: 0.849 / Cor.coef. Fo:Fc free: 0.818 / Cross valid method: THROUGHOUT / σ(F): 0 / SU Rfree Blow DPI: 0.434
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Displacement parameters | Biso max: 145.28 Å2 / Biso mean: 53.17 Å2 / Biso min: 19.73 Å2
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Refine analyze | Luzzati coordinate error obs: 0.49 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.68→19.92 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.68→2.85 Å / Rfactor Rfree error: 0 / Total num. of bins used: 9
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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