+Open data
-Basic information
Entry | Database: PDB / ID: 5eup | ||||||||||||
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Title | Structure of the Drosophila melanogaster CP190 BTB domain | ||||||||||||
Components | Centrosome-associated zinc finger protein CP190 | ||||||||||||
Keywords | STRUCTURAL PROTEIN / BTB domain CP190 chromatin insulator centrosome | ||||||||||||
Function / homology | Function and homology information nuclear axial expansion / Generic Transcription Pathway / heterochromatin boundary formation / chromatin insulator sequence binding / polytene chromosome band / POZ domain binding / chromatin looping / polytene chromosome / regulation of cytoskeleton organization / pericentriolar material ...nuclear axial expansion / Generic Transcription Pathway / heterochromatin boundary formation / chromatin insulator sequence binding / polytene chromosome band / POZ domain binding / chromatin looping / polytene chromosome / regulation of cytoskeleton organization / pericentriolar material / condensed chromosome / spindle microtubule / microtubule binding / DNA-binding transcription factor activity, RNA polymerase II-specific / centrosome / chromatin binding / chromatin / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / protein homodimerization activity / DNA binding / metal ion binding / nucleus / identical protein binding / cytoplasm Similarity search - Function | ||||||||||||
Biological species | Drosophila melanogaster (fruit fly) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.5 Å | ||||||||||||
Authors | Plevock, K.M. / Galletta, B.J. / Slep, K.C. / Rusan, N.M. | ||||||||||||
Funding support | United States, 3items
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Citation | Journal: Plos One / Year: 2015 Title: Newly Characterized Region of CP190 Associates with Microtubules and Mediates Proper Spindle Morphology in Drosophila Stem Cells. Authors: Plevock, K.M. / Galletta, B.J. / Slep, K.C. / Rusan, N.M. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5eup.cif.gz | 64.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5eup.ent.gz | 47.4 KB | Display | PDB format |
PDBx/mmJSON format | 5eup.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/eu/5eup ftp://data.pdbj.org/pub/pdb/validation_reports/eu/5eup | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 16176.713 Da / Num. of mol.: 1 / Fragment: UNP residues 1-135 Source method: isolated from a genetically manipulated source Details: N-terminal residues: GSH are a cloning artifact from placing the construct into pET28. Thrombin was used to remove the N-terminal His tag, leaving the N-terminal residues:GSH. Source: (gene. exp.) Drosophila melanogaster (fruit fly) / Gene: Cp190, E(mod)4-1, CG6384 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(E3) pLysS / References: UniProt: Q24478 |
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#2: 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: 2.67 Å3/Da / Density % sol: 53.88 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: Well condition = 1 ml of 20% PEG 3350 (w/v), 160 mM ammonium citrate dibasic. The initial hanging drop contained 2 micro liters of the mother liquor plus 2 micro liters of 15 mg/ml CP190 BTB domain. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.98038 Å |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Apr 15, 2011 |
Radiation | Monochromator: Si (111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98038 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→28.223 Å / Num. obs: 6124 / % possible obs: 99.5 % / Redundancy: 5.3 % / Rsym value: 0.058 / Net I/σ(I): 23.3 |
Reflection shell | Resolution: 2.5→2.59 Å / Redundancy: 5.5 % / Mean I/σ(I) obs: 3.3 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.5→28.223 Å / SU ML: 0.31 / Cross valid method: FREE R-VALUE / σ(F): 0 / Phase error: 31.86 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→28.223 Å
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Refine LS restraints |
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LS refinement shell |
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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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