+Open data
-Basic information
Entry | Database: PDB / ID: 1pif | |||||||||
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Title | PIG ALPHA-AMYLASE | |||||||||
Components | ALPHA-AMYLASE | |||||||||
Keywords | GLYCOSYLTRANSFERASE / ALPHA-AMYLASE ALPHA-1 / 4-GLUCAN-4-GLUCANOHYDROLASE GLYCOSYLTRANSFERASE | |||||||||
Function / homology | Function and homology information alpha-amylase / carbohydrate catabolic process / alpha-amylase activity / chloride ion binding / carbohydrate metabolic process / calcium ion binding / extracellular space Similarity search - Function | |||||||||
Biological species | Sus scrofa (pig) | |||||||||
Method | X-RAY DIFFRACTION / PATTERSON SEARCH / Resolution: 2.3 Å | |||||||||
Authors | Machius, M. / Vertesy, L. / Huber, R. / Wiegand, G. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 1996 Title: Carbohydrate and protein-based inhibitors of porcine pancreatic alpha-amylase: structure analysis and comparison of their binding characteristics. Authors: Machius, M. / Vertesy, L. / Huber, R. / Wiegand, G. #1: Journal: J.Mol.Biol. / Year: 1995 Title: The Crystal Structure of Porcine Pancreatic Alpha-Amylase in Complex with the Microbial Inhibitor Tendamistat Authors: Wiegand, G. / Epp, O. / Huber, R. #2: Journal: Protein Sci. / Year: 1995 Title: Carbohydrate Binding Sites in a Pancreatic Alpha-Amylase-Substrate Complex, Derived from X-Ray Structure Analysis at 2.1 Angstrom Resolution Authors: Qian, M. / Haser, R. / Payan, F. #3: Journal: J.Mol.Biol. / Year: 1994 Title: Refined Molecular Structure of Pig Pancreatic Alpha-Amylase at 2.1 A Resolution Authors: Larson, S.B. / Greenwood, A. / Cascio, D. / Day, J. / McPherson, A. #4: Journal: Biochemistry / Year: 1994 Title: The Active Center of a Mammalian Alpha-Amylase. Structure of the Complex of a Pancreatic Alpha-Amylase with a Carbohydrate Inhibitor Refined to 2.2-A Resolution Authors: Qian, M. / Haser, R. / Buisson, G. / Duee, E. / Payan, F. #5: Journal: J.Mol.Biol. / Year: 1993 Title: Structure and Molecular Model Refinement of Pig Pancreatic Alpha-Amylase at 2.1 A Resolution Authors: Qian, M. / Haser, R. / Payan, F. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pif.cif.gz | 113.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pif.ent.gz | 87.7 KB | Display | PDB format |
PDBx/mmJSON format | 1pif.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pi/1pif ftp://data.pdbj.org/pub/pdb/validation_reports/pi/1pif | HTTPS FTP |
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-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: 55373.680 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Sus scrofa (pig) / Organ: PANCREAS / References: UniProt: P00690, 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 / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.39 Å3/Da / Density % sol: 72 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 6 / Details: pH 6.0 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 275 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 14, 1995 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→22.3 Å / Num. obs: 41481 / % possible obs: 95.2 % / Observed criterion σ(I): 2 / Redundancy: 3.9 % / Biso Wilson estimate: 35.4 Å2 / Rmerge(I) obs: 0.082 |
Reflection shell | Resolution: 2.3→2.4 Å / % possible all: 81.5 |
Reflection shell | *PLUS % possible obs: 81.5 % |
-Processing
Software |
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Refinement | Method to determine structure: PATTERSON SEARCH Starting model: PIG PANCREAS ALPHA-AMYLASE (REFERENCE 1) Resolution: 2.3→7 Å / σ(F): 2
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Displacement parameters | Biso mean: 32.2 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→7 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.3→2.4 Å
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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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