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Yorodumi- PDB-1fx1: A CRYSTALLOGRAPHIC STRUCTURAL STUDY OF THE OXIDATION STATES OF DE... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1fx1 | |||||||||
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Title | A CRYSTALLOGRAPHIC STRUCTURAL STUDY OF THE OXIDATION STATES OF DESULFOVIBRIO VULGARIS FLAVODOXIN | |||||||||
Components | FLAVODOXIN | |||||||||
Keywords | ELECTRON TRANSFER (FLAVOPROTEIN) | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Desulfovibrio vulgaris (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | |||||||||
Authors | Watenpaugh, K.D. / Sieker, L.C. / Jensen, L.H. | |||||||||
Citation | Journal: Flavins and Flavoproteins / Year: 1976 Title: A Crystallographic Structural Study of the Oxidation States of Desulfovibrio Vulgaris Flavodoxin Authors: Watenpaugh, K.D. / Sieker, L.C. / Jensen, L.H. #1: Journal: STRUCTURE AND CONFORMATION OF NUCLEIC ACIDS AND PROTEIN-NUCLEIC ACID INTERACTIONS : PROCEEDINGS OF THE FOURTH ANNUAL HARRY STEENBOCK SYMPOSIUM, JUNE 16-19, 1974, MADISON, WISCONSIN Year: 1975 Title: Flavin Mononucleotide Conformation and Environment in Flavodoxin from Desulfovibrio Vulgaris Authors: Watenpaugh, K.D. / Sieker, L.C. / Jensen, L.H. #2: Journal: Proc.Natl.Acad.Sci.USA / Year: 1973 Title: The binding of riboflavin-5'-phosphate in a flavoprotein: flavodoxin at 2.0-Angstrom resolution. Authors: Watenpaugh, K.D. / Sieker, L.C. / Jensen, L.H. #3: Journal: Proc.Natl.Acad.Sci.USA / Year: 1972 Title: Structure of the oxidized form of a flavodoxin at 2.5-Angstrom resolution: resolution of the phase ambiguity by anomalous scattering. Authors: Watenpaugh, K.D. / Sieker, L.C. / Jensen, L.H. / Legall, J. / Dubourdieu, M. #4: Journal: J.Biol.Chem. / Year: 1977 Title: Amino acid sequence of Desulfovibrio vulgaris flavodoxin. Authors: Dubourdieu, M. / Fox, J.L. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1fx1.cif.gz | 34.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1fx1.ent.gz | 25.7 KB | Display | PDB format |
PDBx/mmJSON format | 1fx1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fx/1fx1 ftp://data.pdbj.org/pub/pdb/validation_reports/fx/1fx1 | HTTPS FTP |
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-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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Atom site foot note | 1: SEE REMARK 5 ABOVE. |
-Components
#1: Protein | Mass: 15833.373 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Desulfovibrio vulgaris (bacteria) / References: UniProt: P00323 |
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#2: Chemical | ChemComp-FMN / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.93 Å3/Da / Density % sol: 58.08 % |
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
-Processing
Refinement | Highest resolution: 2 Å Details: SOME OF THE INTERATOMIC DISTANCES ARE SIGNIFICANTLY DIFFERENT FROM THE EXPECTED VALUES. THIS IS MAINLY DUE TO THE FACT THAT THE COORDINATES WERE MANUALLY FITTED TO THE ELECTRON DENSITY AND ...Details: SOME OF THE INTERATOMIC DISTANCES ARE SIGNIFICANTLY DIFFERENT FROM THE EXPECTED VALUES. THIS IS MAINLY DUE TO THE FACT THAT THE COORDINATES WERE MANUALLY FITTED TO THE ELECTRON DENSITY AND WERE NOT IDEALIZED OR REFINED. IN PARTICULAR THE FOLLOWING INTERATOMIC DISTANCES DEVIATE SIGNIFICANTLY FROM THE EXPECTED VALUES, RESIDUE RESIDUE ATOM1 - ATOM2 DISTANCE NAME NUMBER LYS 3 CE - NZ 2.455 ALA 38 N - CA 1.972 LEU 46 CA - C 1.905 PHE 47 N - CA 1.778 GLU 48 CA - C 2.221 LEU 55 CA - C 1.232 ASP 106 N - CA 1.233 LEU 112 CB - CA 1.719 | ||||||||||||
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Refinement step | Cycle: LAST / Highest resolution: 2 Å
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