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Yorodumi- PDB-4l6y: Structure of the microtubule associated protein PRC1 (Protein Reg... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4l6y | ||||||
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Title | Structure of the microtubule associated protein PRC1 (Protein Regulator of Cytokinesis 1) | ||||||
Components | Protein regulator of cytokinesis 1 | ||||||
Keywords | STRUCTURAL PROTEIN / Spectrin / Microtubule binding / microtubule crosslinking / microtubule / kinesin-4 / spindle midzone | ||||||
Function / homology | Function and homology information contractile ring / mitotic spindle midzone assembly / mitotic spindle elongation / mitotic spindle midzone / RHO GTPases activate CIT / intercellular bridge / kinesin binding / regulation of cytokinesis / spindle microtubule / spindle pole ...contractile ring / mitotic spindle midzone assembly / mitotic spindle elongation / mitotic spindle midzone / RHO GTPases activate CIT / intercellular bridge / kinesin binding / regulation of cytokinesis / spindle microtubule / spindle pole / microtubule cytoskeleton organization / spindle / microtubule cytoskeleton / chromosome / midbody / microtubule binding / cell division / positive regulation of cell population proliferation / protein kinase binding / nucleoplasm / identical protein binding / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.3015 Å | ||||||
Authors | Subramanian, R. / Ti, S. / Tan, L. / Darst, S.A. / Kapoor, T.M. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 2013 Title: Marking and Measuring Single Microtubules by PRC1 and Kinesin-4. Authors: Subramanian, R. / Ti, S.C. / Tan, L. / Darst, S.A. / Kapoor, T.M. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4l6y.cif.gz | 178.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4l6y.ent.gz | 138.9 KB | Display | PDB format |
PDBx/mmJSON format | 4l6y.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/l6/4l6y ftp://data.pdbj.org/pub/pdb/validation_reports/l6/4l6y | HTTPS FTP |
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-Related structure data
Related structure data | 4l3iSC S: Starting model for refinement C: citing same article (ref.) |
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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: 58182.660 Da / Num. of mol.: 2 / Fragment: UNP Residues 1-486 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: PRC1 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21-Rosetta / References: UniProt: O43663 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 6.3 Å3/Da / Density % sol: 80.5 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop / pH: 8 Details: Concentration: 5-10 mg/ml. Protein buffer: 80 mM PIPES (pH 6.8), 1 mM MgCl2, 1 mM EGTA, 150 mM KCl, VAPOR DIFFUSION, HANGING DROP, temperature 294K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-E / Wavelength: 0.9792 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jul 1, 2011 |
Radiation | Monochromator: Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection twin | Operator: h,-k,-h-l / Fraction: 0.5 |
Reflection | Resolution: 3.2→40 Å / Num. all: 40830 / Num. obs: 39522 / % possible obs: 90.5 % / Observed criterion σ(F): 1.4 / Observed criterion σ(I): 1.4 |
Reflection shell | Resolution: 3.2→3.31 Å / % possible all: 82.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 4L3I Resolution: 3.3015→29.906 Å / σ(F): 1.37 / Phase error: 35.46 / Stereochemistry target values: TWIN_LSQ_F
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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: 3.3015→29.906 Å
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Refine LS restraints |
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LS refinement shell |
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