+Open data
-Basic information
Entry | Database: PDB / ID: 7jqr | ||||||
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Title | Abeta 16-36 beta-hairpin mimic with E22G Arctic mutation | ||||||
Components | Abeta 16-36 beta-hairpin mimic VAL-ORN-LYS-LEU-VAL-MEA-PHE-ALA-GLY-ORN-ALA-ILE-ILE-GLY-LEU-MET | ||||||
Keywords | DE NOVO PROTEIN / Alzheimer's disease / amyloid / Abeta / oligomer / familial mutant | ||||||
Function / homology | IODIDE ION Function and homology information | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SAD / Resolution: 2.07 Å | ||||||
Authors | Kreutzer, A.G. / McKnelly, K.J. / Nowick, J.S. | ||||||
Funding support | United States, 1items
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Citation | Journal: Biochemistry / Year: 2022 Title: Effects of Familial Alzheimer's Disease Mutations on the Assembly of a beta-Hairpin Peptide Derived from A beta 16-36 . Authors: McKnelly, K.J. / Kreutzer, A.G. / Howitz, W.J. / Haduong, K. / Yoo, S. / Hart, C. / Nowick, J.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7jqr.cif.gz | 18.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7jqr.ent.gz | 13.7 KB | Display | PDB format |
PDBx/mmJSON format | 7jqr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jq/7jqr ftp://data.pdbj.org/pub/pdb/validation_reports/jq/7jqr | 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 on special symmetry positions |
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-Components
#1: Protein/peptide | Mass: 1722.209 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Homo sapiens (human) | ||||
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#2: Chemical | #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.71 % |
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Crystal grow | Temperature: 297.15 K / Method: vapor diffusion, hanging drop / Details: calcium chloride, sodium acetate, isopropanol |
-Data collection
Diffraction | Mean temperature: 123.15 K / Serial crystal experiment: N |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 HF / Wavelength: 1.54 Å |
Detector | Type: RIGAKU SATURN 944+ / Detector: CCD / Date: Oct 13, 2017 |
Radiation | Monochromator: Cu anode / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 2.07→19.28 Å / Num. obs: 2070 / % possible obs: 99.37 % / Redundancy: 90.7 % / CC1/2: 1 / Rmerge(I) obs: 0.01235 / Rrim(I) all: 0.01747 / Net I/σ(I): 65.87 |
Reflection shell | Resolution: 2.075→2.149 Å / Num. unique obs: 126 / CC1/2: 0.999 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.07→19.28 Å / SU ML: 0.04 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 19.92 / 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 | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 89.73 Å2 / Biso mean: 40.8307 Å2 / Biso min: 20.94 Å2 | ||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.07→19.28 Å
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LS refinement shell | Resolution: 2.075→2.149 Å / Rfactor Rfree error: 0 / Total num. of bins used: 1
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Refinement TLS params. | Method: refined / Origin x: 13.6285 Å / Origin y: 13.1734 Å / Origin z: 27.118 Å
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Refinement TLS group | Selection details: chain 'A' and (resid 1 through 16 ) |