+Open data
-Basic information
Entry | Database: PDB / ID: 8hw0 | ||||||
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Title | the structure of AKR6D1 | ||||||
Components | NADPH-dependent aldo/keto reductase AKR6D1 | ||||||
Keywords | TOXIN / dehydrogenase | ||||||
Function / homology | Potassium channel, voltage-dependent, beta subunit, KCNAB-related / NADP-dependent oxidoreductase domain / Aldo/keto reductase family / NADP-dependent oxidoreductase domain superfamily / NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE / NADPH-dependent aldo/keto reductase AKR6D1 Function and homology information | ||||||
Biological species | Devosia (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.5 Å | ||||||
Authors | Chen, M. / Yang, H. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: structure of AKR6D1 Authors: Chen, M. / Yang, H. / Lv, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8hw0.cif.gz | 92.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8hw0.ent.gz | 68 KB | Display | PDB format |
PDBx/mmJSON format | 8hw0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hw/8hw0 ftp://data.pdbj.org/pub/pdb/validation_reports/hw/8hw0 | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 36695.477 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Devosia (bacteria) / Gene: AKR6D1 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A6B8QIS5 | ||||||
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#2: Chemical | #3: Chemical | ChemComp-NAP / | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.71 Å3/Da / Density % sol: 73.88 % |
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Crystal grow | Temperature: 293 K / Method: evaporation / Details: NaCl |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.978 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Sep 25, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.978 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→19.85 Å / Num. obs: 110879 / % possible obs: 99.93 % / Redundancy: 26.3 % / CC1/2: 0.999 / Net I/σ(I): 25.84 |
Reflection shell | Resolution: 1.5→1.554 Å / Num. unique obs: 10918 / CC1/2: 0.961 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.5→19.85 Å / SU ML: 0.1 / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 18.7 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.5→19.85 Å
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Refine LS restraints |
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LS refinement shell |
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