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Open data
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Basic information
Entry | Database: PDB / ID: 1ib0 | ||||||
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Title | CRYSTAL STRUCTURE OF RAT B5R IN COMPLEX WITH FAD AND NAD | ||||||
![]() | NADH-CYTOCHROME B5 REDUCTASE | ||||||
![]() | OXYGEN STORAGE/TRANSPORT / electron transfer / methemologobinemia / NADH / FAD / OXYGEN STORAGE-TRANSPORT COMPLEX | ||||||
Function / homology | ![]() Phase I - Functionalization of compounds / nitric-oxide synthase complex / Vitamin C (ascorbate) metabolism / cytochrome-b5 reductase / cytochrome-b5 reductase activity, acting on NAD(P)H / nitrite reductase (NO-forming) activity / Neutrophil degranulation / AMP binding / cholesterol biosynthetic process / nitric oxide biosynthetic process ...Phase I - Functionalization of compounds / nitric-oxide synthase complex / Vitamin C (ascorbate) metabolism / cytochrome-b5 reductase / cytochrome-b5 reductase activity, acting on NAD(P)H / nitrite reductase (NO-forming) activity / Neutrophil degranulation / AMP binding / cholesterol biosynthetic process / nitric oxide biosynthetic process / FAD binding / lipid droplet / mitochondrial membrane / ADP binding / NAD binding / flavin adenine dinucleotide binding / mitochondrial outer membrane / endoplasmic reticulum membrane / mitochondrion Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bewley, M.C. / Marohnic, C.C. / Barber, M.J. | ||||||
![]() | ![]() Title: The structure and biochemistry of NADH-dependent cytochrome b5 reductase are now consistent. Authors: Bewley, M.C. / Marohnic, C.C. / Barber, M.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 75.3 KB | Display | ![]() |
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PDB format | ![]() | 53.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 545.6 KB | Display | ![]() |
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Full document | ![]() | 556.3 KB | Display | |
Data in XML | ![]() | 9.3 KB | Display | |
Data in CIF | ![]() | 13.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1i7pSC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 31315.178 Da / Num. of mol.: 1 / Fragment: SOLUBLE DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-FAD / |
#3: Chemical | ChemComp-NAD / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.95 Å3/Da / Density % sol: 58.33 % | ||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: PEG 6000, MPD, Hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K | ||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 99 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 16, 2001 / Details: monochromator |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→30.2 Å / Num. all: 1 / Num. obs: 15598 / % possible obs: 97.3 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 4.1 % / Biso Wilson estimate: 24.99 Å2 / Rmerge(I) obs: 0.091 / Net I/σ(I): 8.5 |
Reflection shell | Resolution: 2.3→2.4 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.315 / % possible all: 90.4 |
Reflection | *PLUS Lowest resolution: 30 Å |
Reflection shell | *PLUS % possible obs: 90.4 % / Mean I/σ(I) obs: 2.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1I7P Resolution: 2.3→30 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: engh & huber
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Refinement step | Cycle: LAST / Resolution: 2.3→30 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 30 Å / σ(F): 0 / Rfactor obs: 0.218 / Rfactor Rfree: 0.265 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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