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Yorodumi- PDB-1gaw: CRYSTAL STRUCTURE ANALYSIS OF THE FERREDOXIN-NADP+ REDUCTASE FROM... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1gaw | ||||||
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Title | CRYSTAL STRUCTURE ANALYSIS OF THE FERREDOXIN-NADP+ REDUCTASE FROM MAIZE LEAF | ||||||
Components | FERREDOXIN-NADP+ REDUCTASEFerredoxin—NADP(+) reductase | ||||||
Keywords | OXIDOREDUCTASE/ELECTRON TRANSPORT / OXIDOREDUCTASE-ELECTRON TRANSPORT complex | ||||||
Function / homology | Function and homology information chloroplast thylakoid membrane protein complex / oxidoreductase activity, acting on NAD(P)H, heme protein as acceptor / ferredoxin-NADP+ reductase / NADPH dehydrogenase activity / ferredoxin-NADP+ reductase activity / chloroplast stroma / electron transport chain / photosynthesis / electron transfer activity / nucleotide binding Similarity search - Function | ||||||
Biological species | Zea mays (maize) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.2 Å | ||||||
Authors | Kurisu, G. / Kusunoki, M. / Hase, T. | ||||||
Citation | Journal: Nat.Struct.Biol. / Year: 2001 Title: Structure of the electron transfer complex between ferredoxin and ferredoxin-NADP(+) reductase. Authors: Kurisu, G. / Kusunoki, M. / Katoh, E. / Yamazaki, T. / Teshima, K. / Onda, Y. / Kimata-Ariga, Y. / Hase, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gaw.cif.gz | 136 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gaw.ent.gz | 106.4 KB | Display | PDB format |
PDBx/mmJSON format | 1gaw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ga/1gaw ftp://data.pdbj.org/pub/pdb/validation_reports/ga/1gaw | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 35360.449 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Zea mays (maize) / Plasmid: PQE60 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9SLP6, ferredoxin-NADP+ reductase #2: Chemical | #3: 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: 2.53 Å3/Da / Density % sol: 51.41 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: Ammonium Succinate, MES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / pH: 7.5 | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 288 K |
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: BL-6A / Wavelength: 1 |
Detector | Type: WEISSENBERG / Detector: DIFFRACTOMETER / Date: Jul 7, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Biso Wilson estimate: 20.3 Å2 |
Reflection shell | Resolution: 2.2→2.34 Å |
Reflection | *PLUS Highest resolution: 2.2 Å / Num. obs: 29086 / % possible obs: 81.3 % / Num. measured all: 67831 / Rmerge(I) obs: 0.033 |
Reflection shell | *PLUS Lowest resolution: 2.45 Å / % possible obs: 69.8 % / Rmerge(I) obs: 0.092 |
-Processing
Software |
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Refinement | Resolution: 2.2→35.09 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 1804168.23 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 34.66 Å2 / ksol: 0.337 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 26.9 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→35.09 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.02 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: CNS / Version: 0.9 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 2 / % reflection Rfree: 5 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 26.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.293 / % reflection Rfree: 4.9 % / Rfactor Rwork: 0.24 |