BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 26009

Title: Antimicrobial peptide protegrin PG-5   PubMed: 27589857

Deposition date: 2016-03-21 Original release date: 2016-09-29

Authors: Kolosova, Olga; Klochkova, Evelina; Aganov, Albert; Klochkov, Vladimir

Citation: Usachev, Konstantin; Kolosova, Olga; Klochkova, Evelina; Aganov, Albert; Klochkov, Vladimir; Usachev, Konstantin; Kolosova, Olga; Klochkova, Evelina; Aganov, Albert; Klochkov, Vladimir. "Oligomerization of the antimicrobial peptide Protegrin-5 in a membrane-mimicking environment. Structural studies by high-resolution NMR spectroscopy"  Eur. Biophy. J. 46, 293-300 (2017).

Assembly members:
PG-5, polymer, 18 residues, 2106.591 Da.

Natural source:   Common Name: Sus scrofa   Taxonomy ID: 9823   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Sus scrofa

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):
PG-5: RGGRLCYCRPRFCVCVGR

Data sets:
Data typeCount
1H chemical shifts119

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1Antimicrobial peptide protegrin PG-51

Entities:

Entity 1, Antimicrobial peptide protegrin PG-5 18 residues - 2106.591 Da.

1   ARGGLYGLYARGLEUCYSTYRCYSARGPRO
2   ARGPHECYSVALCYSVALGLYARG

Samples:

sample_1: PG-5 3 mg/mL; DPC, [U-99% 2H], 20 mg/mL; H2O 450 uL; D2O, [U-99% 2H], 50 uL

sample_conditions_1: temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
2D DQF-COSYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY, Goddard - chemical shift assignment, chemical shift calculation, peak picking

X-PLOR_NIH, Schwieters, Kuszewski, Tjandra and Clore - structure solution

NMR spectrometers:

  • Bruker Avance 700 MHz