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Yorodumi- PDB-1piw: APO AND HOLO STRUCTURES OF AN NADP(H)-DEPENDENT CINNAMYL ALCOHOL ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1piw | ||||||
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Title | APO AND HOLO STRUCTURES OF AN NADP(H)-DEPENDENT CINNAMYL ALCOHOL DEHYDROGENASE FROM SACCHAROMYCES CEREVISIAE | ||||||
Components | Hypothetical zinc-type alcohol dehydrogenase-like protein in PRE5-FET4 intergenic region | ||||||
Keywords | OXIDOREDUCTASE / ADH TOPOLOGY / NADP(H)DEPENDENT | ||||||
Function / homology | Function and homology information hydroxymethylfurfural reductase (NADH) activity / hydroxymethylfurfural reductase (NADPH) activity / furaldehyde metabolic process / 3-methylbutanal reductase (NADPH) activity / Oxidoreductases; Acting on NADH or NADPH / cinnamyl-alcohol dehydrogenase activity / alcohol dehydrogenase (NADP+) / alcohol metabolic process / alcohol dehydrogenase (NADP+) activity / cellular aldehyde metabolic process ...hydroxymethylfurfural reductase (NADH) activity / hydroxymethylfurfural reductase (NADPH) activity / furaldehyde metabolic process / 3-methylbutanal reductase (NADPH) activity / Oxidoreductases; Acting on NADH or NADPH / cinnamyl-alcohol dehydrogenase activity / alcohol dehydrogenase (NADP+) / alcohol metabolic process / alcohol dehydrogenase (NADP+) activity / cellular aldehyde metabolic process / zinc ion binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3 Å | ||||||
Authors | Valencia, E. / Larroy, C. / Ochoa, W.F. / Pares, X. / Fita, I. / Biosca, J.A. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: Apo and Holo Structures of an NADP(H)-dependent Cinnamyl Alcohol Dehydrogenase from Saccharomyces cerevisiae Authors: Valencia, E. / Larroy, C. / Ochoa, W.F. / Pares, X. / Fita, I. / Biosca, J.A. #1: Journal: Acta Crystallogr.,Sect.D / Year: 2003 Title: Crystallization and preliminary X-ray analysis of NADP(H)-dependent alcohol dehydrogenases from Saccharomyces cerevisiae and Rana perezi Authors: Valencia, E. / Rosell, A. / Larroy, C. / Farres, J. / Biosca, J.A. / Fita, I. / Pares, X. / Ochoa, W.F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1piw.cif.gz | 144.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1piw.ent.gz | 121.8 KB | Display | PDB format |
PDBx/mmJSON format | 1piw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1piw_validation.pdf.gz | 1 MB | Display | wwPDB validaton report |
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Full document | 1piw_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | 1piw_validation.xml.gz | 33.2 KB | Display | |
Data in CIF | 1piw_validation.cif.gz | 43.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pi/1piw ftp://data.pdbj.org/pub/pdb/validation_reports/pi/1piw | HTTPS FTP |
-Related 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: 39669.516 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Gene: YMR318C (ADH6) / Plasmid: pYes2-YMR318C / Production host: Saccharomyces cerevisiae (brewer's yeast) / Strain (production host): BJ2168 / References: UniProt: Q04894 #2: Chemical | ChemComp-ZN / #3: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.9 Å3/Da / Density % sol: 68.42 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: PEG 4000, MPD, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.939 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jun 18, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.939 Å / Relative weight: 1 |
Reflection | Resolution: 3→30 Å / Num. all: 24484 / Num. obs: 24236 / % possible obs: 98.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
-Processing
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3→30 Å / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 3→30 Å
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Refine LS restraints |
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Xplor file |
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