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Yorodumi- PDB-7rul: I5R8 Mastoparano is a peptide synthetic, modified of Mastoparano ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 7rul | ||||||
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Title | I5R8 Mastoparano is a peptide synthetic, modified of Mastoparano (extracted from wasp venom) | ||||||
Components | Mastoparan-L peptide | ||||||
Keywords | ANTIVIRAL PROTEIN / antimicrobial | ||||||
Function / homology | Function and homology information other organism cell membrane / defense response to fungus / toxin activity / killing of cells of another organism / defense response to bacterium / innate immune response / extracellular region / membrane Similarity search - Function | ||||||
Biological species | Vespula lewisii (insect) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Alves, E.S.F. / Santos, B.P.O. | ||||||
Funding support | 1items
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Citation | Journal: To Be Published Title: Mastoparan I5R8, peptide antiviral derived of Mastoparan, venenon vesp. Authors: Alves, E.S.F. / Santos, B.P.O. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7rul.cif.gz | 49.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7rul.ent.gz | 34.4 KB | Display | PDB format |
PDBx/mmJSON format | 7rul.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7rul_validation.pdf.gz | 347.1 KB | Display | wwPDB validaton report |
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Full document | 7rul_full_validation.pdf.gz | 402 KB | Display | |
Data in XML | 7rul_validation.xml.gz | 4.8 KB | Display | |
Data in CIF | 7rul_validation.cif.gz | 6.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ru/7rul ftp://data.pdbj.org/pub/pdb/validation_reports/ru/7rul | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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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: 1609.119 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Vespula lewisii (insect) / Production host: Escherichia coli (E. coli) / References: UniProt: P01514 |
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Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 2 mM I5R8, 100 mM [U-98% 2H] SDS-D25, 5 % v/v [U-98% 2H] DSS, 90% H2O/10% D2O Details: A solution containing 2 mM of peptide was prepared in 100 mM of SDS-d25, 90:10 H2O/D2O and 5% of DSS, and the pH adjusted for 4.0. Label: I5R8 / Solvent system: 90% H2O/10% D2O | ||||||||||||||||
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Sample |
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Sample conditions | Details: A solution containing 2 mM of peptide was prepared in 100 mM of SDS-d25, 90:10 H2O/D2O and 5% of DSS, and the pH adjusted for 4.0. Ionic strength: neutral Not defined / Label: I5R8 / pH: 7 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 500 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 4 | |||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 10 |