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- PDB-1ma6: TPY4 Tachyplesin I tyrosine mutant in the presence of dodecylphos... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ma6 | ||||||
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Title | TPY4 Tachyplesin I tyrosine mutant in the presence of dodecylphosphocholine micelles (300 mM) | ||||||
![]() | Tachyplesin I | ||||||
![]() | ANTIMICROBIAL PROTEIN / Tachyplesin I / TPY4 / dodecylphosphocholine / micelle / beta hairpin | ||||||
Function / homology | defense response to bacterium / extracellular region / Tachyplesin-1![]() | ||||||
Method | SOLUTION NMR / Simulated annealing with complete cross validation | ||||||
Model type details | minimized average | ||||||
![]() | Laederach, A. / Andreotti, A.H. / Fulton, D.B. | ||||||
![]() | ![]() Title: Solution and micelle-bound structures of tachyplesin I and its active linear derivatives Authors: Laederach, A. / Andreotti, A.H. / Fulton, D.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 199.2 KB | Display | ![]() |
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PDB format | ![]() | 139.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 347.8 KB | Display | ![]() |
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Full document | ![]() | 597.4 KB | Display | |
Data in XML | ![]() | 25 KB | Display | |
Data in CIF | ![]() | 36.8 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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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 2514.931 Da / Num. of mol.: 1 / Mutation: C3Y, C7Y, C12Y, C16Y / Source method: obtained synthetically Details: The peptide was chemically synthesized using Fmoc solid state synthesis. The sequence of the peptide is naturally found in Tachypleus Tridentatus (Japanese Horeshoe Crab). References: UniProt: P14213 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using standard 2D homonuclear techniques. A temperature of 313K was used to reduce spectral overlap. |
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Sample preparation
Details | Contents: TPY4 mutant of Tachyplesin I 1mM 300 mM Dodecylphosphocholine (D38) Solvent system: 90%/10% H2O/D2O with 0.15% TFA pH 3.0 |
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Sample conditions | Ionic strength: 0.15% / pH: 3.0 / Pressure: ambient / Temperature: 313 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker DRX / Manufacturer: Bruker / Model: DRX / Field strength: 500 MHz |
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Processing
NMR software |
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Refinement | Method: Simulated annealing with complete cross validation / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 300 / Conformers submitted total number: 31 |