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Yorodumi- PDB-1bfx: THE SOLUTION NMR STRUCTURE OF THE B FORM OF OXIDIZED RAT MICROSOM... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bfx | ||||||
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Title | THE SOLUTION NMR STRUCTURE OF THE B FORM OF OXIDIZED RAT MICROSOMAL CYTOCHROME B5, MINIMIZED AVERAGE STRUCTURE | ||||||
Components | CYTOCHROME B5 | ||||||
Keywords | ELECTRON TRANSPORT / CYTOCHROME B5 / PROTEIN RECOGNITION / ELECTRON TRANSFER / SOLUTION STRUCTURE / PARAMAGNETIC NMR | ||||||
Function / homology | Function and homology information Vitamin C (ascorbate) metabolism / Insertion of tail-anchored proteins into the endoplasmic reticulum membrane / response to cadmium ion / mitochondrial outer membrane / electron transfer activity / intracellular membrane-bounded organelle / endoplasmic reticulum membrane / heme binding / enzyme binding / endoplasmic reticulum ...Vitamin C (ascorbate) metabolism / Insertion of tail-anchored proteins into the endoplasmic reticulum membrane / response to cadmium ion / mitochondrial outer membrane / electron transfer activity / intracellular membrane-bounded organelle / endoplasmic reticulum membrane / heme binding / enzyme binding / endoplasmic reticulum / membrane / metal ion binding Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | SOLUTION NMR / TORSION ANGLE MOLECULAR DYNAMICS SIMULATED ANNEALING, RESTRAINED ENERGY MINIMIZATION. PSEUDOCONTACT SHIFTS WERE USED IN THE CALCULATION, IN THE MINIMIZATION AS FURTHER NON-CLASSICAL CONSTRAINTS. | ||||||
Authors | Arnesano, F. / Banci, L. / Bertini, I. / Felli, I.C. | ||||||
Citation | Journal: Eur.J.Biochem. / Year: 1999 Title: Solution structure of the B form of oxidized rat microsomal cytochrome b5 and backbone dynamics via 15N rotating-frame NMR-relaxation measurements. Biological implications. Authors: Arnesano, F. / Banci, L. / Bertini, I. / Felli, I.C. / Koulougliotis, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bfx.cif.gz | 44.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bfx.ent.gz | 30.3 KB | Display | PDB format |
PDBx/mmJSON format | 1bfx.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1bfx_validation.pdf.gz | 410.8 KB | Display | wwPDB validaton report |
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Full document | 1bfx_full_validation.pdf.gz | 410.5 KB | Display | |
Data in XML | 1bfx_validation.xml.gz | 3.7 KB | Display | |
Data in CIF | 1bfx_validation.cif.gz | 4.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bf/1bfx ftp://data.pdbj.org/pub/pdb/validation_reports/bf/1bfx | 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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NMR ensembles |
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-Components
#1: Protein | Mass: 11360.501 Da / Num. of mol.: 1 / Fragment: SOLUBLE DOMAIN Source method: isolated from a genetically manipulated source Details: FROM RAT MICROSOMAL MEMBRANE / Source: (gene. exp.) Rattus norvegicus (Norway rat) / Organ: LIVER / Organelle: MICROSOME / Plasmid: PUC 13 / Cellular location (production host): CYTOPLASM / Production host: Escherichia coli (E. coli) / Strain (production host): NM522 / References: UniProt: P00173 |
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#2: Chemical | ChemComp-HEM / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: H2O AND D2O |
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Sample conditions | Ionic strength: PHOSPHATE 1mM / pH: 7 / Pressure: 1 atm / Temperature: 298 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE 800 MHZ / Manufacturer: Bruker / Model: AVANCE 800 MHZ / Field strength: 800 MHz |
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-Processing
Software |
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NMR software |
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Refinement | Method: TORSION ANGLE MOLECULAR DYNAMICS SIMULATED ANNEALING, RESTRAINED ENERGY MINIMIZATION. PSEUDOCONTACT SHIFTS WERE USED IN THE CALCULATION, IN THE MINIMIZATION AS FURTHER NON-CLASSICAL CONSTRAINTS. Software ordinal: 1 Details: PSEUDOREM (BANCI, BERTINI, GORI SAVELLINI, ROMAGNOLI, TURANO, CREMONINI, LUCHINAT, GRAY) ALSO WAS USED. | |||||||||||||||
NMR ensemble | Conformer selection criteria: MINIMIZED AVERAGE / Conformers calculated total number: 40 / Conformers submitted total number: 1 |