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Yorodumi- PDB-1rt8: CRYSTAL STRUCTURE OF THE ACTIN-CROSSLINKING CORE OF SCHIZOSACCHAR... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1rt8 | ||||||
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Title | CRYSTAL STRUCTURE OF THE ACTIN-CROSSLINKING CORE OF SCHIZOSACCHAROMYCES POMBE FIMBRIN | ||||||
Components | fimbrin | ||||||
Keywords | STRUCTURAL PROTEIN / Filamentous Actin Binding Domain (ABD) / Calponin Homology / Actin-Crosslinking | ||||||
Function / homology | Function and homology information actomyosin contractile ring organization / actin body / formin-nucleated actin cable organization / mitotic actomyosin contractile ring, distal actin filament layer / positive regulation of actin filament severing / negative regulation of actin filament binding / actin cortical patch organization / medial cortex / actin cortical patch localization / actin filament network formation ...actomyosin contractile ring organization / actin body / formin-nucleated actin cable organization / mitotic actomyosin contractile ring, distal actin filament layer / positive regulation of actin filament severing / negative regulation of actin filament binding / actin cortical patch organization / medial cortex / actin cortical patch localization / actin filament network formation / negative regulation of Arp2/3 complex-mediated actin nucleation / actin cortical patch / cell division site / actin filament bundle / actin filament bundle assembly / actin filament / endocytosis / actin filament binding / calcium ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Schizosaccharomyces pombe (fission yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / AB INITIO PHASING / Resolution: 2 Å | ||||||
Authors | Klein, M.G. / Shi, W. / Ramagopal, U. / Tseng, Y. / Wirtz, D. / Kovar, D.R. / Staiger, C.J. / Almo, S.C. | ||||||
Citation | Journal: Structure / Year: 2004 Title: Structure of the actin crosslinking core of fimbrin. Authors: Klein, M.G. / Shi, W. / Ramagopal, U. / Tseng, Y. / Wirtz, D. / Kovar, D.R. / Staiger, C.J. / Almo, S.C. #1: Journal: Mol.Cell.Biol. / Year: 2001 Title: Interactions among a fibrin, a capping protein, and an actin-depolymerizing factor in organization of the fission yeast actin cytoskeleton Authors: Nakano, K. / Satoh, K. / Morimatsu, A. / Ohnuma, M. / Mabuchi, I. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1rt8.cif.gz | 106.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1rt8.ent.gz | 80.4 KB | Display | PDB format |
PDBx/mmJSON format | 1rt8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rt/1rt8 ftp://data.pdbj.org/pub/pdb/validation_reports/rt/1rt8 | HTTPS FTP |
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-Related structure data
Related structure data | 1pxySC 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: 57451.445 Da / Num. of mol.: 1 / Fragment: Actin-Crosslinking Core, amino acids 108-614 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Schizosaccharomyces pombe (fission yeast) Plasmid: pGEX-4T-1 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: O59945 | ||
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#2: Chemical | ChemComp-SO4 / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.69 Å3/Da / Density % sol: 54.24 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 5.7 Details: PEG 3300, MES, Lithium Sulfate, pH 5.7, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2→30 Å / Num. all: 42732 / Num. obs: 37818 / % possible obs: 95.2 % / Observed criterion σ(F): 2 | |||||||||||||||
Reflection shell | Resolution: 2→2.07 Å / % possible all: 65 |
-Processing
Software |
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Refinement | Method to determine structure: AB INITIO PHASING Starting model: PDB ENTRY 1PXY Resolution: 2→30 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 40.7 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→30 Å
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