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Yorodumi- PDB-1ral: THREE-DIMENSIONAL STRUCTURE OF RAT LIVER 3ALPHA-HYDROXYSTEROID(SL... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ral | ||||||
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Title | THREE-DIMENSIONAL STRUCTURE OF RAT LIVER 3ALPHA-HYDROXYSTEROID(SLASH)DIHYDRODIOL DEHYDROGENASE: A MEMBER OF THE ALDO-KETO REDUCTASE SUPERFAMILY | ||||||
Components | 3-ALPHA-HYDROXYSTEROID DEHYDROGENASE | ||||||
Keywords | OXIDOREDUCTASE | ||||||
Function / homology | Function and homology information Synthesis of bile acids and bile salts via 24-hydroxycholesterol / Prednisone ADME / 3alpha-hydroxysteroid 3-dehydrogenase (Si-specific) / Synthesis of bile acids and bile salts via 27-hydroxycholesterol / Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol / androsterone dehydrogenase (B-specific) activity / Retinoid metabolism and transport / steroid dehydrogenase activity / androsterone dehydrogenase activity / ketosteroid monooxygenase activity ...Synthesis of bile acids and bile salts via 24-hydroxycholesterol / Prednisone ADME / 3alpha-hydroxysteroid 3-dehydrogenase (Si-specific) / Synthesis of bile acids and bile salts via 27-hydroxycholesterol / Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol / androsterone dehydrogenase (B-specific) activity / Retinoid metabolism and transport / steroid dehydrogenase activity / androsterone dehydrogenase activity / ketosteroid monooxygenase activity / progesterone metabolic process / daunorubicin metabolic process / doxorubicin metabolic process / bile acid binding / aldose reductase (NADPH) activity / prostaglandin metabolic process / steroid metabolic process / hippocampus development / cytosol Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 3 Å | ||||||
Authors | Hoog, S.S. / Pawlowski, J.E. / Alzari, P.M. / Penning, T.M. / Lewis, M. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 1994 Title: Three-dimensional structure of rat liver 3 alpha-hydroxysteroid/dihydrodiol dehydrogenase: a member of the aldo-keto reductase superfamily. Authors: Hoog, S.S. / Pawlowski, J.E. / Alzari, P.M. / Penning, T.M. / Lewis, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ral.cif.gz | 74.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ral.ent.gz | 56.5 KB | Display | PDB format |
PDBx/mmJSON format | 1ral.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ra/1ral ftp://data.pdbj.org/pub/pdb/validation_reports/ra/1ral | HTTPS FTP |
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-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: SER 232 - PRO 233 OMEGA =218.95 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 2: THR 251 - PRO 252 OMEGA =212.66 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION |
-Components
#1: Protein | Mass: 35331.754 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus norvegicus (Norway rat) References: UniProt: P23457, 3alpha-hydroxysteroid 3-dehydrogenase (Si-specific) |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.33 Å3/Da / Density % sol: 47.14 % | ||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 22 ℃ / pH: 5.8 / Method: vapor diffusion | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 3 Å / Lowest resolution: 10 Å / Num. obs: 6122 / % possible obs: 96 % / Num. measured all: 30872 / Rmerge(I) obs: 0.098 |
-Processing
Software |
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Refinement | Resolution: 3→10 Å / σ(F): 1 /
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Refinement step | Cycle: LAST / Resolution: 3→10 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 3 Å / Lowest resolution: 10 Å / Num. reflection obs: 5883 / σ(F): 1 / Rfactor obs: 0.22 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 17 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.8 |