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Yorodumi- PDB-1qfj: CRYSTAL STRUCTURE OF NAD(P)H:FLAVIN OXIDOREDUCTASE FROM ESCHERICH... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1qfj | ||||||
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Title | CRYSTAL STRUCTURE OF NAD(P)H:FLAVIN OXIDOREDUCTASE FROM ESCHERICHIA COLI | ||||||
Components | PROTEIN (FLAVIN REDUCTASE) | ||||||
Keywords | OXIDOREDUCTASE / RIBOFLAVIN / FLAVIN REDUCTASE / FERREDOXIN REDUCTASE SUPERFAMILY | ||||||
Function / homology | Function and homology information riboflavin reductase [NAD(P)H] / riboflavin reductase (NAD(P)H) activity / riboflavin reductase (NADPH) activity / protein repair / : / enzyme activator activity / monoatomic ion transport / response to oxidative stress / cytosol Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.2 Å | ||||||
Authors | Ingelman, M. / Ramaswamy, S. / Niviere, V. / Fontecave, M. / Eklund, H. | ||||||
Citation | Journal: Biochemistry / Year: 1999 Title: Crystal structure of NAD(P)H:flavin oxidoreductase from Escherichia coli. Authors: Ingelman, M. / Ramaswamy, S. / Niviere, V. / Fontecave, M. / Eklund, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qfj.cif.gz | 189.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1qfj.ent.gz | 154.5 KB | Display | PDB format |
PDBx/mmJSON format | 1qfj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qf/1qfj ftp://data.pdbj.org/pub/pdb/validation_reports/qf/1qfj | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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2 |
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3 |
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4 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 26143.791 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Details: DISULFIDE LINKS BETWEEN MOLECULES A AND D AS WELL AS B AND C RESPECTIVELY Source: (gene. exp.) Escherichia coli (E. coli) / Strain: JM109 / Cell: BACTERIAL / Cellular location: CYTOPLASM / Gene: FRE / Plasmid: PEE1001 / Cellular location (production host): CYTOPLASM / Gene (production host): FRE / Production host: Escherichia coli (E. coli) / Strain (production host): JM109 / References: UniProt: P23486, UniProt: P0AEN1*PLUS #2: Chemical | ChemComp-GOL / #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: 2.7 Å3/Da / Density % sol: 51 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 6.5 Details: 15 % PEG 4000, 0.5 M NACL, 100 MM BIS-TRIS PROPANE PH 6.5 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion | ||||||||||||||||||||||||||||||
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: EMBL/DESY, HAMBURG / Beamline: BW7B / Wavelength: 0.864 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jun 1, 1995 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.864 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→20 Å / Num. all: 54692 / Num. obs: 54692 / % possible obs: 93.2 % / Observed criterion σ(I): 0 / Redundancy: 6.8 % / Rmerge(I) obs: 0.064 / Net I/σ(I): 9.3 |
Reflection shell | Resolution: 2.2→2.24 Å / Redundancy: 6 % / Rmerge(I) obs: 0.235 / Mean I/σ(I) obs: 3.9 / % possible all: 88.2 |
Reflection | *PLUS Num. measured all: 626153 |
Reflection shell | *PLUS % possible obs: 88.2 % |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.2→20 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 35.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |