+Open data
-Basic information
Entry | Database: PDB / ID: 7e0w | ||||||
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Title | Crystal Structure of BCH domain from S. pombe | ||||||
Components | Putative Rho GTPase-activating protein C1565.02c | ||||||
Keywords | LIPID BINDING PROTEIN / Intertwined / Anti-parallel / Dimeric structure | ||||||
Function / homology | Function and homology information : / phospholipid transfer activity / intermembrane phospholipid transfer / GTPase activator activity / Golgi apparatus / signal transduction Similarity search - Function | ||||||
Biological species | Schizosaccharomyces pombe 972h- (yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.8 Å | ||||||
Authors | Chichili, V.P.R. / Jobichen, C. / Sivaraman, J. | ||||||
Funding support | Singapore, 1items
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Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2021 Title: A novel intertwined anti-parallel dimeric structure of scaffold BCH domain regulates RhoA and RhoGAP functions Authors: Chichili, V.P.R. / Chew, T.W. / Er, S.Y. / Chin, C.F. / Shankar, S. / Jobichen, C. / Pan, Q.C. / Zhou, Y.T. / Yeong, F.M. / Low, B.C. / Sivaraman, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7e0w.cif.gz | 133.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7e0w.ent.gz | 104.8 KB | Display | PDB format |
PDBx/mmJSON format | 7e0w.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7e0w_validation.pdf.gz | 471 KB | Display | wwPDB validaton report |
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Full document | 7e0w_full_validation.pdf.gz | 492.2 KB | Display | |
Data in XML | 7e0w_validation.xml.gz | 25 KB | Display | |
Data in CIF | 7e0w_validation.cif.gz | 32.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/e0/7e0w ftp://data.pdbj.org/pub/pdb/validation_reports/e0/7e0w | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 18716.518 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Schizosaccharomyces pombe 972h- (yeast) Strain: 972 / ATCC 24843 / Gene: SPAC1565.02c / Production host: Escherichia coli (E. coli) / References: UniProt: Q9P3B1 #2: Chemical | ChemComp-PG4 / Has ligand of interest | N | |
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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: 5.67 Å3/Da / Density % sol: 78.31 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / Details: 0.1M Bis-Tris propane pH 7.0 and 2.1M NaCl. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-C / Wavelength: 0.9789 Å |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Jul 15, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9789 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. obs: 36910 / % possible obs: 87.7 % / Redundancy: 5.5 % / Rsym value: 0.089 / Net I/σ(I): 12.6 |
Reflection shell | Resolution: 2.8→2.93 Å / Num. unique obs: 2453 / Rsym value: 0.338 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.8→49.736 Å / Cross valid method: FREE R-VALUE / σ(F): 146.76 / Phase error: 25.71
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→49.736 Å
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Refine LS restraints |
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LS refinement shell |
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