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Open data
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Basic information
Entry | Database: PDB / ID: 2cpg | ||||||
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Title | TRANSCRIPTIONAL REPRESSOR COPG | ||||||
![]() | TRANSCRIPTIONAL REPRESSOR COPG | ||||||
![]() | GENE REGULATION / TRANSCRIPTIONAL REPRESSOR / DNA-BINDING PROTEIN / PLASMID | ||||||
Function / homology | ![]() plasmid maintenance / protein-DNA complex / sequence-specific DNA binding / regulation of DNA-templated transcription Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gomis-Rueth, F.X. / Sola, M. / Acebo, P. / Parraga, A. / Guasch, A. / Eritja, R. / Gonzalez, A. / Espinosa, M. / del Solar, G. / Coll, M. | ||||||
![]() | ![]() Title: The structure of plasmid-encoded transcriptional repressor CopG unliganded and bound to its operator. Authors: Gomis-Ruth, F.X. / Sola, M. / Acebo, P. / Parraga, A. / Guasch, A. / Eritja, R. / Gonzalez, A. / Espinosa, M. / del Solar, G. / Coll, M. #1: ![]() Title: Overexpression, Purification, Crystallization and Preliminary X-Ray Diffraction Analysis of the Pmv158-Encoded Plasmid Transcriptional Repressor Protein Copg Authors: Gomis-Rueth, F.X. / Sola, M. / Perez-Luque, R. / Acebo, P. / Alda, M.T. / Gonzalez, A. / Espinosa, M. / del Solar, G. / Coll, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 40.3 KB | Display | ![]() |
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PDB format | ![]() | 29.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 375.3 KB | Display | ![]() |
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Full document | ![]() | 377.4 KB | Display | |
Data in XML | ![]() | 4.2 KB | Display | |
Data in CIF | ![]() | 7.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Details | THE SMALLEST FUNCTIONAL UNIT IS A HOMODIMER. IN THE PRESENT STRUCTURE, ONE A PROTOMER AND ONE B PROTOMER ESTABLISH SUCH AN INTERACTION. THE THIRD MOLECULE PRESENT IN THE ASYMMETRIC UNIT, MOLECULE C, ESTABLISHES ANOTHER HOMODIMER STRUCTURE WITH A SYMMETRY EQUIVALENT C MOLECULE. |
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Components
#1: Protein/peptide | Mass: 5152.106 Da / Num. of mol.: 3 / Fragment: DNA-BINDING PROTEIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.27 Å3/Da / Density % sol: 45 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 6.7 / Details: 72% MPD, 0.1 M HEPES PH 6.7, 3% BENZAMIDINE | ||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7.5 / Method: vapor diffusion, sitting drop / Details: Gomis-Rueth, F.X., (1998) FEBS Lett., 425, 161. | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 | ||||||||||||||||||
Reflection | Resolution: 1.6→19.61 Å / Num. obs: 91693 / % possible obs: 98.1 % / Redundancy: 5 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 10.3 | ||||||||||||||||||
Reflection shell | Resolution: 1.6→1.69 Å / Rmerge(I) obs: 0.126 / Mean I/σ(I) obs: 3 / % possible all: 96.4 | ||||||||||||||||||
Reflection | *PLUS Num. obs: 18358 / Num. measured all: 91693 / Rmerge(I) obs: 0.08 | ||||||||||||||||||
Reflection shell | *PLUS % possible obs: 96.4 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: MOEWS & KRETSINGER | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.6→8 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 1.6 Å / σ(F): 0 / % reflection Rfree: 14 % / Rfactor Rwork: 0.202 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |