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- PDB-3c0t: Structure of the Schizosaccharomyces pombe Mediator subcomplex Me... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3c0t | ||||||
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Title | Structure of the Schizosaccharomyces pombe Mediator subcomplex Med8C/18 | ||||||
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![]() | TRANSCRIPTION / BETA BARREL / CHANNEL / PROTEIN-PROTEIN COMPLEX / Activator / Nucleus / Transcription regulation | ||||||
Function / homology | ![]() core mediator complex / mediator complex / termination of RNA polymerase II transcription / positive regulation of transcription initiation by RNA polymerase II / transcription initiation at RNA polymerase II promoter / transcription coregulator activity / transcription coactivator activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / regulation of transcription by RNA polymerase II / nucleus Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lariviere, L. / Seizl, M. / van Wageningen, S. / Roether, S. / van de Pasch, L. / Feldmann, H. / Straesser, K. / Hahn, S. / Holstege, C.P. / Cramer, P. | ||||||
![]() | ![]() Title: Structure-system correlation identifies a gene regulatory Mediator submodule Authors: Lariviere, L. / Seizl, M. / van Wageningen, S. / Rother, S. / van de Pasch, L. / Feldmann, H. / Strasser, K. / Hahn, S. / Holstege, F.C.P. / Cramer, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 58.5 KB | Display | ![]() |
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PDB format | ![]() | 43.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.6 KB | Display | ![]() |
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Full document | ![]() | 442.6 KB | Display | |
Data in XML | ![]() | 11.5 KB | Display | |
Data in CIF | ![]() | 15 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 24056.377 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: med18 / Production host: ![]() ![]() |
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#2: Protein/peptide | Mass: 3859.357 Da / Num. of mol.: 1 / Fragment: C-terminal domain, UNP Residues 180-200 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: med8 / Production host: ![]() ![]() |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.37 Å3/Da / Density % sol: 71.88 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: 100mM Tris pH 8.5, 2M sodium formate, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Oct 1, 2006 |
Radiation | Monochromator: SI 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. all: 19282 / Num. obs: 19282 / % possible obs: 99.4 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 11 % / Rsym value: 0.084 / Net I/σ(I): 21.4 |
Reflection shell | Resolution: 2.4→2.53 Å / Redundancy: 11.2 % / Mean I/σ(I) obs: 4.8 / Num. unique all: 2806 / Rsym value: 0.379 / % possible all: 99.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: The starting model is the structure of Med18 alone, which has not been deposited. Resolution: 2.4→20 Å / Isotropic thermal model: isotropic / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.4→20 Å
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Refine LS restraints |
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