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Yorodumi- PDB-7cjw: Solution structure of monomeric superoxide dismutase 1 with an ad... -
+Open data
-Basic information
Entry | Database: PDB / ID: 7cjw | ||||||||||||
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Title | Solution structure of monomeric superoxide dismutase 1 with an additional mutation H46W in a crowded environment | ||||||||||||
Components | Monomeric Human Cu,Zn Superoxide dismutase | ||||||||||||
Keywords | OXIDOREDUCTASE / Dismutase / Monomer / Amyloid | ||||||||||||
Biological species | Homo sapiens (human) | ||||||||||||
Method | SOLUTION NMR / simulated annealing | ||||||||||||
Authors | Iwakawa, N. / Morimoto, D. / Walinda, E. / Danielsson, J. / Shirakawa, M. / Sugase, K. | ||||||||||||
Funding support | Japan, 3items
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Citation | Journal: J.Phys.Chem.B / Year: 2021 Title: Transient Diffusive Interactions with a Protein Crowder Affect Aggregation Processes of Superoxide Dismutase 1 beta-Barrel. Authors: Iwakawa, N. / Morimoto, D. / Walinda, E. / Leeb, S. / Shirakawa, M. / Danielsson, J. / Sugase, K. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7cjw.cif.gz | 693 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7cjw.ent.gz | 590.2 KB | Display | PDB format |
PDBx/mmJSON format | 7cjw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7cjw_validation.pdf.gz | 468.7 KB | Display | wwPDB validaton report |
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Full document | 7cjw_full_validation.pdf.gz | 639.6 KB | Display | |
Data in XML | 7cjw_validation.xml.gz | 47 KB | Display | |
Data in CIF | 7cjw_validation.cif.gz | 66.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cj/7cjw ftp://data.pdbj.org/pub/pdb/validation_reports/cj/7cjw | HTTPS FTP |
-Related structure data
Related structure data | 7cjvC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: 11038.354 Da / Num. of mol.: 1 / Mutation: H46W Source method: isolated from a genetically manipulated source Details: loops IV and VII deleted, apo form / Source: (gene. exp.) Homo sapiens (human) / Gene: SOD1 / Production host: Escherichia coli (E. coli) / References: superoxide dismutase |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 1 mM [U-13C; U-15N] Monomeric Human Cu,Zn Superoxide dismutase, loops IV and VII deleted, apo form, with an additional mutation H46W, 10 mM Bis-Tris, 50 mg/mL Lysozyme from Egg White, 95% H2O/5% D2O Label: 13C/15N_sample / Solvent system: 95% H2O/5% D2O | ||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0 mM / Label: condition_1 / pH: 6.3 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE II / Manufacturer: Bruker / Model: AVANCE II / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: target function | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 20 / Conformers submitted total number: 20 |