+Open data
-Basic information
Entry | Database: PDB / ID: 2bf0 | ||||||
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Title | crystal structure of the rpr of pcf11 | ||||||
Components | PCF11 | ||||||
Keywords | TRANSCRIPTION / RNA / PHOSPHORYLATION | ||||||
Function / homology | Function and homology information termination of RNA polymerase II transcription, poly(A)-coupled / termination of RNA polymerase II transcription, exosome-dependent / mRNA cleavage factor complex / termination of RNA polymerase II transcription / : / RNA polymerase II complex binding / mRNA binding / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | SACCHAROMYCES CEREVISIAE (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.3 Å | ||||||
Authors | Noble, C.G. / Hollingworth, D. / Martin, S.R. / Adeniran, V.E. / Smerdon, S.J. / Kelly, G. / Taylor, I.A. / Ramos, A. | ||||||
Citation | Journal: Nat.Struct.Mol.Biol. / Year: 2005 Title: Key Features of the Interaction between Pcf11 Cid and RNA Polymerase II Ctd. Authors: Noble, C.G. / Hollingworth, D. / Martin, S.R. / Adeniran, V.E. / Smerdon, S.J. / Kelly, G. / Taylor, I.A. / Ramos, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2bf0.cif.gz | 37.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2bf0.ent.gz | 29.2 KB | Display | PDB format |
PDBx/mmJSON format | 2bf0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bf/2bf0 ftp://data.pdbj.org/pub/pdb/validation_reports/bf/2bf0 | HTTPS FTP |
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-Related structure data
Related structure data | |
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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: 16633.701 Da / Num. of mol.: 1 / Fragment: CID, RESIDUES 1-138 Source method: isolated from a genetically manipulated source Source: (gene. exp.) SACCHAROMYCES CEREVISIAE (brewer's yeast) Plasmid: PGEX6P1 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P39081 |
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#2: Chemical | ChemComp-CA / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 44 % |
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Crystal grow | pH: 7.8 Details: 25% PEG 4000, 0.1 M TRIS PH 7.0, 0.2 M (NH4)2SO4 AND 10 MM CACL2 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID29 / Wavelength: 0.976,0.9792,0.9795 | ||||||||||||
Detector | Type: ADSC CCD / Detector: CCD / Date: May 15, 2004 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.3→20 Å / Num. obs: 7191 / % possible obs: 100 % / Observed criterion σ(I): 2 / Redundancy: 7 % / Rmerge(I) obs: 0.06 / Net I/σ(I): 36 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.3→15 Å / Cor.coef. Fo:Fc: 0.899 / Cor.coef. Fo:Fc free: 0.875 / Cross valid method: THROUGHOUT / ESU R: 0.394 / ESU R Free: 0.262 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 30.88 Å2
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Refinement step | Cycle: LAST / Resolution: 2.3→15 Å
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Refine LS restraints |
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