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Yorodumi- PDB-1ee2: THE STRUCTURE OF STEROID-ACTIVE ALCOHOL DEHYDROGENASE AT 1.54 A R... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ee2 | ||||||
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Title | THE STRUCTURE OF STEROID-ACTIVE ALCOHOL DEHYDROGENASE AT 1.54 A RESOLUTION | ||||||
Components | ALCOHOL DEHYDROGENASE | ||||||
Keywords | OXIDOREDUCTASE / DEHYDROGENASE / ALCOHOL / NICOTINAMIDE COENZYME / STEROID BINDING | ||||||
Function / homology | Function and homology information alcohol dehydrogenase (NAD+) activity, zinc-dependent / : / all-trans-retinol dehydrogenase (NAD+) activity / alcohol dehydrogenase / retinoic acid metabolic process / retinol metabolic process / zinc ion binding / cytosol Similarity search - Function | ||||||
Biological species | Equus caballus (horse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.54 Å | ||||||
Authors | Adolph, H.W. | ||||||
Citation | Journal: Biochemistry / Year: 2000 Title: Structural basis for substrate specificity differences of horse liver alcohol dehydrogenase isozymes. Authors: Adolph, H.W. / Zwart, P. / Meijers, R. / Hubatsch, I. / Kiefer, M. / Lamzin, V. / Cedergren-Zeppezauer, E. #1: Journal: Eur.J.Biochem. / Year: 1991 Title: Substrate Specificity and Stereoselectivity of Horse Liver Alcohol Dehydrogenase. Kinetic Evaluation of Binding and Activation Parameters Controlling the Catalitic Cycles of Unbranched, ...Title: Substrate Specificity and Stereoselectivity of Horse Liver Alcohol Dehydrogenase. Kinetic Evaluation of Binding and Activation Parameters Controlling the Catalitic Cycles of Unbranched, Acyclic Secondary Alcohols and Ketones as Substrates of the Native and Active-Site-Specific Co(II)-Substituted Enzyme Authors: Adolph, H.W. / Maurer, P. / Scheinder-Bernlohr, H. / Sartorius, C. / Zeppezauer, M. #2: Journal: J.CHROMATOGR.,A / Year: 1995 Title: Preparation and Characterization of Isozymes and Isoforms of Horse Liver Alcohol Dehydrogenase Authors: Hubatsch, I. / Maurer, P. / Engel, D. / Adolph, H.W. #3: Journal: Biochemistry / Year: 1997 Title: Electrostatic Effects in the Kinetics of Coenzyme Binding to Isozymes of Alcohol Dehydrogenase from Horse Liver Authors: Adolph, H.W. / Kiefer, M. / Cedergren-Zeppezauer, E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ee2.cif.gz | 185.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ee2.ent.gz | 143.8 KB | Display | PDB format |
PDBx/mmJSON format | 1ee2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ee/1ee2 ftp://data.pdbj.org/pub/pdb/validation_reports/ee/1ee2 | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 39541.090 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Equus caballus (horse) / Organ: LIVER / References: UniProt: P00328, alcohol dehydrogenase #2: Chemical | ChemComp-ZN / #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46.46 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 7 Details: PEG400, PEG8000, TES/KOH, NAD+, Cholic Acid, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 277K | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Details: used micro bridge | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: BW7B / Wavelength: 0.8373 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 23, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8373 Å / Relative weight: 1 |
Reflection | Resolution: 1.54→20 Å / Num. all: 103854 / Num. obs: 103854 / % possible obs: 98 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.16 % / Biso Wilson estimate: 14.1 Å2 / Rmerge(I) obs: 0.106 / Net I/σ(I): 10.9 |
Reflection shell | Resolution: 1.54→1.57 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.25 / % possible all: 97.2 |
Reflection | *PLUS % possible obs: 98.3 % |
Reflection shell | *PLUS % possible obs: 97.2 % / Mean I/σ(I) obs: 4.5 |
-Processing
Software |
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Refinement | Resolution: 1.54→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Eng & Huber
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Refinement step | Cycle: LAST / Resolution: 1.54→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 20 Å / σ(F): 0 / % reflection Rfree: 2 % / Rfactor obs: 0.145 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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