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- PDB-5e5v: Structure of amyloid forming peptide NFGAILS (residues 22-28) fro... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5e5v | ||||||
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Title | Structure of amyloid forming peptide NFGAILS (residues 22-28) from Islet Amyloid Polypeptide | ||||||
![]() | NFGAILS (22-28) from islet amyloid polypeptide, synthesized | ||||||
![]() | de novo protein / membrane protein / amyloid-like protofibril / Protein Fibril | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Soriaga, A.B. / Macdonald, R. / Sawaya, M.R. / Sangwan, S. / Eisenberg, D. | ||||||
![]() | ![]() Title: Crystal Structures of IAPP Amyloidogenic Segments Reveal a Novel Packing Motif of Out-of-Register Beta Sheets. Authors: Soriaga, A.B. / Sangwan, S. / Macdonald, R. / Sawaya, M.R. / Eisenberg, D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 11.2 KB | Display | ![]() |
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PDB format | ![]() | 5.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 375.1 KB | Display | ![]() |
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Full document | ![]() | 375.1 KB | Display | |
Data in XML | ![]() | 2.7 KB | Display | |
Data in CIF | ![]() | 2.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein/peptide | Mass: 720.815 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.44 Å3/Da / Density % sol: 14.85 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop Details: 7 mg/ml in water and mixed with 10% ethanol and 1.5M NaCl |
-Data collection
Diffraction | Mean temperature: 291 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Mar 22, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 1.24→100 Å / Num. obs: 2283 / % possible obs: 97.8 % / Redundancy: 2.9 % / Rmerge(I) obs: 0.166 / Net I/σ(I): 6.48 |
Reflection shell | Resolution: 1.28→1.34 Å / Rmerge(I) obs: 0.558 / Mean I/σ(I) obs: 1.6 / % possible all: 96.9 |
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Processing
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Refinement | Resolution: 1.24→21.342 Å / SU ML: 0.13 / Cross valid method: FREE R-VALUE / σ(F): 2 / Phase error: 21.37 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.24→21.342 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.2403→21.3455 Å
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