+Open data
-Basic information
Entry | Database: PDB / ID: 5suq | ||||||
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Title | Crystal structure of the THO-Sub2 complex | ||||||
Components |
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Keywords | HYDROLASE / mRNA export | ||||||
Function / homology | Function and homology information transcription export complex / : / mRNA 3'-end processing / subtelomeric heterochromatin formation / transcription-coupled nucleotide-excision repair / mRNA export from nucleus / transcription elongation by RNA polymerase II / spliceosomal complex / mRNA splicing, via spliceosome / RNA helicase activity ...transcription export complex / : / mRNA 3'-end processing / subtelomeric heterochromatin formation / transcription-coupled nucleotide-excision repair / mRNA export from nucleus / transcription elongation by RNA polymerase II / spliceosomal complex / mRNA splicing, via spliceosome / RNA helicase activity / chromosome, telomeric region / RNA helicase / ATP hydrolysis activity / RNA binding / ATP binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 6 Å | ||||||
Authors | Ren, Y. / Blobel, G. | ||||||
Citation | Journal: Elife / Year: 2017 Title: Structural and biochemical analyses of the DEAD-box ATPase Sub2 in association with THO or Yra1. Authors: Ren, Y. / Schmiege, P. / Blobel, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5suq.cif.gz | 661.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5suq.ent.gz | 507.3 KB | Display | PDB format |
PDBx/mmJSON format | 5suq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/su/5suq ftp://data.pdbj.org/pub/pdb/validation_reports/su/5suq | HTTPS FTP |
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-Related structure data
Related structure data | 5supSC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 50375.859 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast) Strain: ATCC 204508 / S288c / Gene: SUB2, YDL084W / Production host: Escherichia coli (E. coli) / References: UniProt: Q07478, RNA helicase #2: Protein | Mass: 34059.902 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Production host: Trichoplusia ni (cabbage looper) #3: Protein | Mass: 195762.641 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Production host: Trichoplusia ni (cabbage looper) #4: Chemical | ChemComp-KEG / Compound details | THE DEPOSITORS STATE THAT BECAUSE OF THE 6.0 A RESOLUTION OF THE DATA AND LACK OF STRUCTURAL ...THE DEPOSITORS | Sequence details | CHAINS B AND D ARE TWO MOLECULES OF TEX1 PROTEIN FROM SACCHAROMYCES BAYANUS. CHAINS M AND N EACH ...CHAINS B AND D ARE TWO MOLECULES OF TEX1 PROTEIN FROM SACCHAROMY | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal grow | Temperature: 289 K / Method: evaporation / pH: 8.4 Details: 100 mM Tris-HCl (pH 8.4), 17.5% PEG3350, 2% methanol, 0.3 M NDSB-195 |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-C / Wavelength: 1.2123 Å |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Aug 15, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.2123 Å / Relative weight: 1 |
Reflection | Resolution: 6→50 Å / Num. obs: 41038 / % possible obs: 98.8 % / Redundancy: 6.5 % / CC1/2: 0.993 / Rmerge(I) obs: 0.14 / Net I/σ(I): 13.3 |
-Processing
Software |
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Refinement | Starting model: 5SUP Resolution: 6→49.57 Å / SU ML: 1.53 / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 53.87
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Solvent computation | Shrinkage radii: 1.2 Å / VDW probe radii: 1.4 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 6→49.57 Å
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Refine LS restraints |
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LS refinement shell |
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