+Open data
-Basic information
Entry | Database: PDB / ID: 1ppr | |||||||||
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Title | PERIDININ-CHLOROPHYLL-PROTEIN OF AMPHIDINIUM CARTERAE | |||||||||
Components | PERIDININ-CHLOROPHYLL PROTEIN | |||||||||
Keywords | LIGHT-HARVESTING PROTEIN / LIGHT HARVESTING PROTEIN / PHOTOSYNTHESIS / CAROTENOIDS / DINOFLAGELLATES | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Amphidinium carterae (eukaryote) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SIR / Resolution: 2 Å | |||||||||
Authors | Hofmann, E. / Welte, W. / Diederichs, K. | |||||||||
Citation | Journal: Science / Year: 1996 Title: Structural basis of light harvesting by carotenoids: peridinin-chlorophyll-protein from Amphidinium carterae. Authors: Hofmann, E. / Wrench, P.M. / Sharples, F.P. / Hiller, R.G. / Welte, W. / Diederichs, K. #1: Journal: FEBS Lett. / Year: 1990 Title: Crystallization and Preliminary X-Ray Analysis of a Peridinin-Chlorophyll a Protein from Amphidinium Carterae Authors: Steck, K. / Wacker, T. / Welte, W. / Sharples, F.P. / Hiller, R.G. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ppr.cif.gz | 234.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ppr.ent.gz | 197.8 KB | Display | PDB format |
PDBx/mmJSON format | 1ppr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ppr_validation.pdf.gz | 6.9 MB | Display | wwPDB validaton report |
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Full document | 1ppr_full_validation.pdf.gz | 7 MB | Display | |
Data in XML | 1ppr_validation.xml.gz | 53.5 KB | Display | |
Data in CIF | 1ppr_validation.cif.gz | 68.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pp/1ppr ftp://data.pdbj.org/pub/pdb/validation_reports/pp/1ppr | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS oper:
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-Components
#1: Protein | Mass: 32535.066 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Amphidinium carterae (eukaryote) / Strain: CS-21 / References: UniProt: P80484 #2: Chemical | ChemComp-CLA / #3: Chemical | ChemComp-PID / #4: Sugar | ChemComp-DGD / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 3 |
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-Sample preparation
Crystal | Density Matthews: 3.95 Å3/Da / Density % sol: 56 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.8 / Details: pH 5.8 | ||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 17 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 283 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: BW7B / Wavelength: 0.865 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 16, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.865 Å / Relative weight: 1 |
Reflection | Resolution: 2→33.8 Å / Num. obs: 96045 / % possible obs: 92.5 % / Redundancy: 2.3 % / Rmerge(I) obs: 0.054 |
Reflection shell | Resolution: 2→2.1 Å / Rmerge(I) obs: 0.19 / % possible all: 92.6 |
Reflection shell | *PLUS % possible obs: 82.4 % / Rmerge(I) obs: 0.265 |
-Processing
Software |
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Refinement | Method to determine structure: SIR / Resolution: 2→40 Å / Cross valid method: R-FREE / σ(F): 0
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Displacement parameters | Biso mean: 32.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→40 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection obs: 93720 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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