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Yorodumi- PDB-1jnv: The Conformation of the Epsilon and Gamma Subunits within the E. ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1jnv | ||||||
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Title | The Conformation of the Epsilon and Gamma Subunits within the E. coli F1 ATPase | ||||||
Components |
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Keywords | HYDROLASE / F1 ATPase / ATP synthase / bioenergetics | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 4.4 Å | ||||||
Authors | Hausrath, A.C. / Capaldi, R.A. / Matthews, B.W. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2001 Title: The conformation of the epsilon- and gamma-subunits within the Escherichia coli F(1) ATPase. Authors: Hausrath, A.C. / Capaldi, R.A. / Matthews, B.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1jnv.cif.gz | 275.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1jnv.ent.gz | 219.1 KB | Display | PDB format |
PDBx/mmJSON format | 1jnv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jn/1jnv ftp://data.pdbj.org/pub/pdb/validation_reports/jn/1jnv | HTTPS FTP |
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-Related 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: 41889.645 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: atpA / Plasmid: pAN45 / Production host: Escherichia coli (E. coli) / Strain (production host): GO104 / References: EC: 3.6.1.34 #2: Protein | Mass: 39762.000 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: atpD / Plasmid: pAN45 / Production host: Escherichia coli (E. coli) / Strain (production host): GO104 / References: EC: 3.6.1.34 #3: Protein | | Mass: 11507.176 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: atpC / Plasmid: pAN45 / Production host: Escherichia coli (E. coli) / Strain (production host): GO104 / References: EC: 3.6.1.34 #4: Protein | | Mass: 24442.998 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: atpG / Plasmid: pAN45 / Production host: Escherichia coli (E. coli) / Strain (production host): GO104 / References: EC: 3.6.1.34 Sequence details | THIS COMPOSITE MODEL WAS CONSTRUCTED BY PLACING COORDINATES FROM PDB ENTRIES 1BMF AND 1FSO INTO A ...THIS COMPOSITE MODEL WAS CONSTRUCTE | |
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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: 2.9 Å3/Da / Density % sol: 60 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.2 Details: TRIS, PEG 8000, GLYCEROL, NACL, MGSO4, LISO4, NAN3, EDTA, AMP-PNP, ATP, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 25 ℃Details: Hausrath, A.C., (1999) Proc.Natl.Acad.Sci.U.S.J., 96, 13697. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-1 / Wavelength: 0.98 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 4.4→25 Å / Num. all: 27196 / Num. obs: 17529 / % possible obs: 64 % / Redundancy: 5.1 % / Rmerge(I) obs: 0.122 / Net I/σ(I): 3.7 |
Reflection shell | Resolution: 4.4→4.44 Å / Redundancy: 5.5 % / Rmerge(I) obs: 0.358 / Mean I/σ(I) obs: 2.1 / % possible all: 53.6 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB Entry 1bmf,1fs0 Resolution: 4.4→25 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: TNT PROTGEO 1.0
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Refinement step | Cycle: LAST / Resolution: 4.4→25 Å
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 4.4 Å / σ(F): 0 / Rfactor all: 0.416 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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