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Yorodumi- PDB-5wye: Structure of gold nano particle-tagged VG16KRKP in Salmonella typ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5wye | ||||||
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Title | Structure of gold nano particle-tagged VG16KRKP in Salmonella typhi LPS | ||||||
Components | Au-VG16KRKP | ||||||
Keywords | ANTIMICROBIAL PROTEIN / ANTIMICROBIAL PEPTIDE / GOLD NANOPARTICLE TAGGED / TURN AND LOOP TYPE STRUCTURE / AMPHIPATHIC STRUCTURE | ||||||
Biological species | Dengue virus | ||||||
Method | SOLUTION NMR / distance geometry | ||||||
Authors | Ilyas, H. / Bhunia, A. | ||||||
Funding support | India, 1items
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Citation | Journal: Nanoscale / Year: 2017 Title: Multivalent gold nanoparticle-peptide conjugates for targeting intracellular bacterial infections Authors: Chowdhury, R. / Ilyas, H. / Ghosh, A. / Ali, H. / Ghorai, A. / Midya, A. / Jana, N.R. / Das, S. / Bhunia, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5wye.cif.gz | 110.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5wye.ent.gz | 81.5 KB | Display | PDB format |
PDBx/mmJSON format | 5wye.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5wye_validation.pdf.gz | 432.3 KB | Display | wwPDB validaton report |
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Full document | 5wye_full_validation.pdf.gz | 577.8 KB | Display | |
Data in XML | 5wye_validation.xml.gz | 14.8 KB | Display | |
Data in CIF | 5wye_validation.cif.gz | 17.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wy/5wye ftp://data.pdbj.org/pub/pdb/validation_reports/wy/5wye | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 1765.157 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: This sequence was chemically synthesized / Source: (synth.) Dengue virus |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 0.5 mM None Au-VG16KRKP, 15 uM None LPS from S. typhosa, 55.5 M None H2O, 50 M None D2O, 1 mM None TSP, 90% H2O/10% D2O Label: Au-VG16KRKP_sample / Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | Details: The sample was prepared at 298.15 K and the pH was adjusted to 6.5. No heating effect occurred. Ionic strength: 0.00 M / Ionic strength err: 0 / Label: Au-VG16KRKP_conditions / pH: 6.5 / PH err: 0 / Pressure: 1 atm / Pressure err: 0 / Temperature: 298.15 K / Temperature err: 0 |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz / Details: with cryoprobe |
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-Processing
NMR software |
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Refinement | Method: distance geometry / Software ordinal: 1 | |||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 20 |