7M1D | pdb_00007m1d

Structural and functional studies about scorpine showed the presence of blocking channel and cytolytic activities as well as two different structural domains


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Structural and functional studies of scorpine: A channel blocker and cytolytic peptide.

Lopez-Giraldo, E.Carrillo, E.Titaux-Delgado, G.Cano-Sanchez, P.Colorado, A.Possani, L.D.Rio-Portilla, F.D.

(2022) Toxicon 222: 106985-106985

  • DOI: https://doi.org/10.1016/j.toxicon.2022.106985
  • Primary Citation Related Structures: 
    7M1D, 7M1E

  • PubMed Abstract: 

    Scorpine is an antimicrobial and antimalarial peptide isolated from Pandinus imperator scorpion venom. As there are few functional and structural studies reported on scorpine-like peptides, we investigated the recombinant truncated N- and C-terminal domains as well as complete scorpine using biological assays and determined the N- and C-terminal structures using solution nuclear magnetic resonance. The study was conducted using recombinant N- and C-terminal peptides and complete scorpine expressed in Escherichia coli. The results showed that N-scorpine presented a random coil structure in water and adopted α-helical folding in the presence of 50% trifluoroethanol (TFE). C-scorpine contains three disulfide bonds with two structural domains: an unstructured N-terminal domain in water that can form a typical secondary alpha-helix structure in 50% TFE and a C-terminal domain with the CS-αβ motif. Our findings demonstrate cytolytic activity associated with C-scorpine, N-scorpine, and scorpine, as well as channel blocking activity associated with the C-scorpine domain.


  • Organizational Affiliation
    • Instituto de Química, Universidad Nacional Autónoma de México, CdMx, Mexico.

Macromolecule Content 

  • Total Structure Weight: 5.31 kDa 
  • Atom Count: 362 
  • Modeled Residue Count: 48 
  • Deposited Residue Count: 48 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Scorpine48Pandinus imperatorMutation(s): 0 
UniProt
Find proteins for P56972 (Pandinus imperator)
Explore P56972 
Go to UniProtKB:  P56972
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP56972
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2022-01-19
    Type: Initial release
  • Version 1.1: 2022-12-21
    Changes: Database references
  • Version 1.2: 2023-06-14
    Changes: Other
  • Version 1.3: 2024-10-09
    Changes: Data collection, Database references, Structure summary