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Yorodumi- PDB-1hny: The structure of human pancreatic alpha-amylase at 1.8 angstroms ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1hny | |||||||||
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Title | The structure of human pancreatic alpha-amylase at 1.8 angstroms resolution and comparisons with related enzymes | |||||||||
Components | HUMAN PANCREATIC ALPHA-AMYLASE | |||||||||
Keywords | HYDROLASE (O-GLYCOSYL) | |||||||||
Function / homology | Function and homology information polysaccharide digestion / Digestion of dietary carbohydrate / alpha-amylase / carbohydrate catabolic process / alpha-amylase activity / chloride ion binding / carbohydrate metabolic process / calcium ion binding / extracellular space / extracellular exosome / extracellular region Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | |||||||||
Authors | Luo, Y. / Brayer, G.D. | |||||||||
Citation | Journal: Protein Sci. / Year: 1995 Title: The structure of human pancreatic alpha-amylase at 1.8 A resolution and comparisons with related enzymes. Authors: Brayer, G.D. / Luo, Y. / Withers, S.G. #1: Journal: J.Mol.Biol. / Year: 1993 Title: Isolation, Crystallization and Preliminary Diffraction Analyses of Human Pancreatic Alpha-Amylase Authors: Burk, D. / Wang, Y. / Dombroski, D. / Berghuis, A.M. / Evans, S.V. / Luo, Y. / Withers, S.G. / Brayer, G.D. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1hny.cif.gz | 115 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1hny.ent.gz | 92.1 KB | Display | PDB format |
PDBx/mmJSON format | 1hny.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hn/1hny ftp://data.pdbj.org/pub/pdb/validation_reports/hn/1hny | 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: CIS PROLINE - PRO 54 / 2: CIS PROLINE - PRO 130 |
-Components
#1: Protein | Mass: 55931.305 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / Organ: PANCREAS / References: UniProt: P04746, alpha-amylase |
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#2: Chemical | ChemComp-CA / |
#3: Chemical | ChemComp-CL / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.43 Å3/Da / Density % sol: 49.48 % | ||||||||||||||||||||||||||||||
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Crystal | *PLUS Density % sol: 50 % | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / pH: 7.5 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: RIGAKU / Detector: IMAGE PLATE |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→36.6 Å / Num. obs: 42316 / % possible obs: 82.1 % / Observed criterion σ(I): 2 / Redundancy: 3 % / Rmerge(I) obs: 0.055 |
Reflection | *PLUS Rmerge(I) obs: 0.055 |
Reflection shell | *PLUS Highest resolution: 1.8 Å / Lowest resolution: 2 Å / % possible obs: 63.1 % |
-Processing
Software |
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Refinement | Resolution: 1.8→8 Å / σ(F): 2
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Displacement parameters | Biso mean: 22.71 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.18 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→8 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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