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- PDB-8hdi: Brucella melitensis 7-alpha-Hydroxysteroid Dehydrogenase mutant: ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8hdi | |||||||||
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Title | Brucella melitensis 7-alpha-Hydroxysteroid Dehydrogenase mutant: 1-53 truncation/K262T | |||||||||
![]() | 7-alpha-hydroxysteroid dehydrogenase | |||||||||
![]() | OXIDOREDUCTASE / SDR family / hydroxysteroid dehydrogenase | |||||||||
Function / homology | 7alpha-hydroxysteroid dehydrogenase / cholate 7-alpha-dehydrogenase activity / Short-chain dehydrogenase/reductase, conserved site / Short-chain dehydrogenases/reductases family signature. / Enoyl-(Acyl carrier protein) reductase / Short-chain dehydrogenase/reductase SDR / NAD(P)-binding domain superfamily / 7-alpha-hydroxysteroid dehydrogenase![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Liu, Z.Y. / Zhang, R.Z. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of 7-alpha-hydroxysteroid dehydrogenase Authors: Liu, Z.Y. / Zhang, R.Z. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 195.5 KB | Display | ![]() |
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PDB format | ![]() | 153.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 452.4 KB | Display | ![]() |
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Full document | ![]() | 458.8 KB | Display | |
Data in XML | ![]() | 41.5 KB | Display | |
Data in CIF | ![]() | 60.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8hdeC ![]() 8hdnC ![]() 8hs4C ![]() 8hs5C ![]() 8hs6C ![]() 8hs9C ![]() 8hsaC C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 25854.598 Da / Num. of mol.: 4 / Fragment: 1-53 truncation / Mutation: K262T Source method: isolated from a genetically manipulated source Details: Sequence reference for WP_014489477 is not available in UniProt at the time of biocuration. Current sequence reference is from UniProt id Q8YIN7. Source: (gene. exp.) ![]() Gene: BMEI0406 / Production host: ![]() ![]() References: UniProt: Q8YIN7, 7alpha-hydroxysteroid dehydrogenase #2: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.58 Å3/Da / Density % sol: 52.39 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 4 / Details: 0.1M MIB, 10% PEG3350 / PH range: 4.0-8.0 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jul 12, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.99→43.18 Å / Num. obs: 73068 / % possible obs: 99.9 % / Redundancy: 9.9 % / Biso Wilson estimate: 23.48 Å2 / CC1/2: 0.996 / Net I/σ(I): 15.5 |
Reflection shell | Resolution: 1.99→2.07 Å / Redundancy: 10.1 % / Mean I/σ(I) obs: 6.6 / Num. unique obs: 73517 / CC1/2: 0.972 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.99→42.06 Å
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Refine LS restraints |
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LS refinement shell |
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