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- PDB-1rvs: STRUCTURE OF TRANSTHYRETIN IN AMYLOID FIBRILS DETERMINED BY SOLID... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1rvs | ||||||
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Title | STRUCTURE OF TRANSTHYRETIN IN AMYLOID FIBRILS DETERMINED BY SOLID-STATE MAGIC ANGLE SPINNING NMR | ||||||
![]() | Transthyretin | ||||||
![]() | DE NOVO PROTEIN / TRANSTHYRETIN / TTR / AMYLOID / FIBRIL | ||||||
Function / homology | ![]() The canonical retinoid cycle in rods (twilight vision) / Retinoid metabolism and transport / thyroid hormone metabolic process / hormone binding / Neutrophil degranulation / thyroid hormone binding / purine nucleobase metabolic process / hormone activity / protein-containing complex binding / protein-containing complex ...The canonical retinoid cycle in rods (twilight vision) / Retinoid metabolism and transport / thyroid hormone metabolic process / hormone binding / Neutrophil degranulation / thyroid hormone binding / purine nucleobase metabolic process / hormone activity / protein-containing complex binding / protein-containing complex / extracellular space / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | SOLID-STATE NMR / SIMULATED ANNEALING, MOLECULAR DYNAMICS | ||||||
![]() | Jaroniec, C.P. / Macphee, C.E. / Bajaj, V.S. / Mcmahon, M.T. / Dobson, C.M. / Griffin, R.G. | ||||||
![]() | ![]() Title: High-resolution molecular structure of a peptide in an amyloid fibril determined by magic angle spinning NMR spectroscopy Authors: Jaroniec, C.P. / MacPhee, C.E. / Bajaj, V.S. / McMahon, M.T. / Dobson, C.M. / Griffin, R.G. #1: ![]() Title: Molecular Conformation of a Peptide Fragment of Transthyretin in an Amyloid Fibril Authors: Jaroniec, C.P. / MacPhee, C.E. / Astrof, N.S. / Dobson, C.M. / Griffin, R.G. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 61.1 KB | Display | ![]() |
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PDB format | ![]() | 41.5 KB | Display | ![]() |
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-Validation report
Summary document | ![]() | 325.2 KB | Display | ![]() |
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Full document | ![]() | 393 KB | Display | |
Data in XML | ![]() | 4.1 KB | Display | |
Data in CIF | ![]() | 6.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 1198.366 Da / Num. of mol.: 1 / Fragment: RESIDUES 1-11 / Source method: obtained synthetically Details: THE PEPTIDE WAS SYNTHESIZED BY STANDARD SOLID-PHASE METHODS AND HPLC PURIFICATION. Source: (synth.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLID-STATE NMR | ||||||||||||||||||||
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NMR experiment |
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Sample preparation
Details | Contents: TRANSTHYRETIN AMYLOID FIBRILS |
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Sample conditions | Pressure: AMBIENT / Temperature: 275.15 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Manufacturer: Home-built / Field strength: 500 MHz |
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Processing
NMR software |
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Refinement | Method: SIMULATED ANNEALING, MOLECULAR DYNAMICS / Software ordinal: 1 Details: IN ADDITION TO EXPERIMENTAL NMR RESTRAINTS, BACKBONE CONFORMATION INDEPENDENT DATABASE-DERIVED RESTRAINTS (DUNBRACK, R.L. AND KARPLUS, M.J., J.MOL.BIOL. 1993, 203:543-574) WERE USED TO ...Details: IN ADDITION TO EXPERIMENTAL NMR RESTRAINTS, BACKBONE CONFORMATION INDEPENDENT DATABASE-DERIVED RESTRAINTS (DUNBRACK, R.L. AND KARPLUS, M.J., J.MOL.BIOL. 1993, 203:543-574) WERE USED TO UNIQUELY DEFINE THE SIDE-CHAIN CONFORMATION OF TYR AND LEU RESIDUES | ||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 20 / Conformers submitted total number: 20 |