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Open data
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Basic information
Entry | Database: PDB / ID: 4rsi | ||||||
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Title | Yeast Smc2-Smc4 hinge domain with extended coiled coils | ||||||
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![]() | CELL CYCLE / Smc hinge domain with coiled coil / chromosomal condensation | ||||||
Function / homology | ![]() negative regulation of meiotic DNA double-strand break formation / Condensation of Prometaphase Chromosomes / tRNA gene clustering / condensin complex / DNA secondary structure binding / rDNA chromatin condensation / mitotic chromosome condensation / chromosome condensation / minor groove of adenine-thymine-rich DNA binding / mitotic sister chromatid segregation ...negative regulation of meiotic DNA double-strand break formation / Condensation of Prometaphase Chromosomes / tRNA gene clustering / condensin complex / DNA secondary structure binding / rDNA chromatin condensation / mitotic chromosome condensation / chromosome condensation / minor groove of adenine-thymine-rich DNA binding / mitotic sister chromatid segregation / condensed chromosome / double-stranded DNA binding / cell division / chromatin binding / chromatin / ATP hydrolysis activity / mitochondrion / ATP binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Soh, Y.M. / Shin, H.C. / Oh, B.H. | ||||||
![]() | ![]() Title: Molecular Basis for SMC Rod Formation and Its Dissolution upon DNA Binding. Authors: Soh, Y.M. / Burmann, F. / Shin, H.C. / Oda, T. / Jin, K.S. / Toseland, C.P. / Kim, C. / Lee, H. / Kim, S.J. / Kong, M.S. / Durand-Diebold, M.L. / Kim, Y.G. / Kim, H.M. / Lee, N.K. / Sato, M. ...Authors: Soh, Y.M. / Burmann, F. / Shin, H.C. / Oda, T. / Jin, K.S. / Toseland, C.P. / Kim, C. / Lee, H. / Kim, S.J. / Kong, M.S. / Durand-Diebold, M.L. / Kim, Y.G. / Kim, H.M. / Lee, N.K. / Sato, M. / Oh, B.H. / Gruber, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 146.8 KB | Display | ![]() |
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PDB format | ![]() | 112.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 426.1 KB | Display | ![]() |
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Full document | ![]() | 441.9 KB | Display | |
Data in XML | ![]() | 16.3 KB | Display | |
Data in CIF | ![]() | 24 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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Unit cell |
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Components
#1: Protein | Mass: 45382.734 Da / Num. of mol.: 1 / Fragment: Smc2 hinge Source method: isolated from a genetically manipulated source Details: separate expression co-purification Source: (gene. exp.) ![]() ![]() Strain: ATCC 204508 / S288c / Gene: Saccharomyces cerevisiae, SMC2, YFR031C / Plasmid: pProExHTa / Production host: ![]() ![]() | ||
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#2: Protein | Mass: 45231.340 Da / Num. of mol.: 1 / Fragment: Smc4 hinge Source method: isolated from a genetically manipulated source Details: stop codon, culture in minimal media, co-purification Source: (gene. exp.) ![]() ![]() Strain: ATCC 204508 / S288c / Gene: L9449.5, Saccharomyces cerevisiae, SMC4, YLR086W / Plasmid: pET30a / Production host: ![]() ![]() | ||
#3: Chemical | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.92 Å3/Da / Density % sol: 68.59 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 16% PEG 300, 0.1 M Na/K phosphate pH 6.0, 8% glycerol, 10 mM dithiothreitol (DTT), VAPOR DIFFUSION, HANGING DROP, temperature 293.15K |
-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Nov 8, 2012 |
Radiation | Monochromator: Numerical link type double crystal monochromator, liquid nitrogen cooling Si(111) Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9789 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→50 Å / Num. all: 49139 / Num. obs: 28485 / % possible obs: 90.2 % / Observed criterion σ(F): 2.5 / Observed criterion σ(I): 2.5 / Redundancy: 4.4 % / Rsym value: 0.09 / Net I/σ(I): 33.5 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: 2.9→38.922 Å
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Refine LS restraints |
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LS refinement shell |
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