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Yorodumi- PDB-1cdo: ALCOHOL DEHYDROGENASE (E.C.1.1.1.1) (EE ISOZYME) COMPLEXED WITH N... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1cdo | ||||||
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Title | ALCOHOL DEHYDROGENASE (E.C.1.1.1.1) (EE ISOZYME) COMPLEXED WITH NICOTINAMIDE ADENINE DINUCLEOTIDE (NAD), AND ZINC | ||||||
Components | ALCOHOL DEHYDROGENASE | ||||||
Keywords | OXIDOREDUCTASE (CH-OH(D)-NAD(A)) / OXIDOREDUCTASE | ||||||
Function / homology | Function and homology information alcohol dehydrogenase (NAD+) activity / alcohol dehydrogenase / zinc ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Gadus callarias (Baltic cod) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.05 Å | ||||||
Authors | Eklund, H. | ||||||
Citation | Journal: Protein Sci. / Year: 1996 Title: Crystal structure of cod liver class I alcohol dehydrogenase: substrate pocket and structurally variable segments. Authors: Ramaswamy, S. / el Ahmad, M. / Danielsson, O. / Jornvall, H. / Eklund, H. #1: Journal: Biochemistry / Year: 1994 Title: Structures of Horse Liver Alcohol Dehydrogenase Complexed with Nad+ and Substituted Benzyl Alcohols Authors: Ramaswamy, S. / Eklund, H. / Plapp, B.V. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cdo.cif.gz | 165.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cdo.ent.gz | 129.4 KB | Display | PDB format |
PDBx/mmJSON format | 1cdo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1cdo_validation.pdf.gz | 961.4 KB | Display | wwPDB validaton report |
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Full document | 1cdo_full_validation.pdf.gz | 969.1 KB | Display | |
Data in XML | 1cdo_validation.xml.gz | 35.3 KB | Display | |
Data in CIF | 1cdo_validation.cif.gz | 52.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cd/1cdo ftp://data.pdbj.org/pub/pdb/validation_reports/cd/1cdo | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO A 63 / 2: CIS PROLINE - PRO B 63 |
-Components
#1: Protein | Mass: 40049.387 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Gadus callarias (Baltic cod) / Organ: LIVER / References: UniProt: P26325, alcohol dehydrogenase #2: Chemical | ChemComp-ZN / #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.38 Å3/Da / Density % sol: 48.3 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 6.9 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 0.89 |
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Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 1, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.89 Å / Relative weight: 1 |
Reflection | Num. obs: 39749 / % possible obs: 86.9 % / Redundancy: 2.1 % / Rmerge(I) obs: 0.12 |
Reflection | *PLUS Highest resolution: 2.05 Å / Num. measured all: 83875 / Rmerge(I) obs: 0.12 |
Reflection shell | *PLUS Highest resolution: 2.05 Å / Lowest resolution: 2.08 Å / % possible obs: 73.7 % |
-Processing
Software |
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Refinement | Resolution: 2.05→7 Å / σ(F): 0
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Displacement parameters | Biso mean: 11.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.05→7 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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