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Yorodumi- PDB-5tsf: Crystal structure of AChBP from Aplysia californica complex with ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5tsf | ||||||
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Title | Crystal structure of AChBP from Aplysia californica complex with 2-aminopyrimidine at pH 7.0 spacegroup P212121 | ||||||
Components | Soluble acetylcholine receptor | ||||||
Keywords | METAL BINDING PROTEIN / AChBP / 2-aminopyrimidi9ne complex | ||||||
Function / homology | Function and homology information acetylcholine receptor activity / acetylcholine-gated monoatomic cation-selective channel activity / response to nicotine / neuron projection / synapse / membrane / identical protein binding / metal ion binding Similarity search - Function | ||||||
Biological species | Aplysia californica (California sea hare) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.286 Å | ||||||
Authors | Camacho-Hernandez, G.A. / Kaczanowska, K. / Harel, M. / Finn, M.G. / Taylor, P.W. | ||||||
Citation | Journal: To Be Published Title: Crystal structure of AChBP from Aplysia californica complex with 2-aminopyrimidine at pH 7.0 spacegroup P212121 Authors: Camacho-Hernandez, G.A. / Kaczanowska, K. / Harel, M. / Finn, M.G. / Taylor, P.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5tsf.cif.gz | 232.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5tsf.ent.gz | 187.1 KB | Display | PDB format |
PDBx/mmJSON format | 5tsf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ts/5tsf ftp://data.pdbj.org/pub/pdb/validation_reports/ts/5tsf | HTTPS FTP |
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-Related structure data
Related structure data | 5tvhC 2byrS 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: 26212.105 Da / Num. of mol.: 5 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Aplysia californica (California sea hare) Cell line (production host): hek923s Gnt1 / Production host: Homo sapiens (human) / References: UniProt: Q8WSF8 #2: Chemical | ChemComp-7KO / #3: Sugar | #4: Water | ChemComp-HOH / | |
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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: 2.55 Å3/Da / Density % sol: 51.76 % |
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Crystal grow | Temperature: 281 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 20% PEG 4000, 0.1M HEPES pH 7.0, 0.15M ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 5.0.3 / Wavelength: 1 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Sep 17, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.286→86.72 Å / Num. obs: 61343 / % possible obs: 99.1 % / Redundancy: 13.5 % / Net I/σ(I): 28.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2BYR.pdb Resolution: 2.286→86.72 Å / SU ML: 0.23 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 24.5
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.286→86.72 Å
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Refine LS restraints |
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LS refinement shell |
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