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- PDB-2bc1: Structural Analysis of Streptococcus pyogenes NADH oxidase: C44S Nox -
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Open data
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Basic information
Entry | Database: PDB / ID: 2bc1 | ||||||
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Title | Structural Analysis of Streptococcus pyogenes NADH oxidase: C44S Nox | ||||||
![]() | NADH Oxidase | ||||||
![]() | OXIDOREDUCTASE / flavoprotein / NADH oxidase / pyridine nucleotide disulfide oxidoreductase / C(4a)-peroxyflavin / conformational dynamics / cysteine oxidation / sulfinic acid | ||||||
Function / homology | ![]() NADH oxidase (H2O-forming) / NADH dehydrogenase (ubiquinone) activity / flavin adenine dinucleotide binding / oxidoreductase activity Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Boles, W.H. / Mallett, T.C. | ||||||
![]() | ![]() Title: Structural Analysis of Streptococcus pyogenes NADH Oxidase: Conformational Dynamics Involved in Formation of the C(4a)-Peroxyflavin Intermediate. Authors: Wallen, J.R. / Mallett, T.C. / Okuno, T. / Parsonage, D. / Sakai, H. / Tsukihara, T. / Claiborne, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 202.1 KB | Display | ![]() |
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PDB format | ![]() | 158.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 935.8 KB | Display | ![]() |
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Full document | ![]() | 953.3 KB | Display | |
Data in XML | ![]() | 39.4 KB | Display | |
Data in CIF | ![]() | 55.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2bc0C ![]() 2bcpC ![]() 1joaS 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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Unit cell |
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Components
#1: Protein | Mass: 53444.305 Da / Num. of mol.: 2 / Mutation: C44S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.09 Å3/Da / Density % sol: 41.19 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: Ammonium sulfate, Na-K tartrate, Na citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: WEISSENBERG / Detector: DIFFRACTOMETER |
Radiation | Monochromator: Si 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.15→200 Å / Num. all: 49891 / Num. obs: 49891 / % possible obs: 91.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Rmerge(I) obs: 0.047 / Net I/σ(I): 17.8 |
Reflection shell | Resolution: 2.15→2.23 Å / Rmerge(I) obs: 0.128 / Mean I/σ(I) obs: 8.3 / Num. unique all: 3862 / % possible all: 78.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1JOA (NADH peroxidase, poly-alanine) Resolution: 2.15→50 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.15→50 Å
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Refine LS restraints |
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