2MW6

Structure of the bee venom toxin melittin with [(C5H5)Ru]+ fragment attached to the tryptophan residue

• PDB DOI: https://doi.org/10.2210/pdb2MW6/pdb
• BMRB: 25300

• Classification: TOXIN
• Organism(s): Apis mellifera
• Mutation(s): Yes 
• Membrane Protein: Yes  OPM


• Deposited: 2014-10-28 Released: 2015-07-01 
• Deposition Author(s): Perekalin, D.S., Pavlov, A.A., Novikov, V.V.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: all calculated structures submitted 

Literature

Selective ruthenium labeling of the tryptophan residue in the bee venom Peptide melittin.

Perekalin, D.S., Novikov, V.V., Pavlov, A.A., Ivanov, I.A., Anisimova, N.Y., Kopylov, A.N., Volkov, D.S., Seregina, I.F., Bolshov, M.A., Kudinov, A.R.

(2015) Chemistry 21: 4923-4925

• PubMed: 25688543 
• DOI: https://doi.org/10.1002/chem.201406510
• Primary Citation of Related Structures:  
  2MW6


• PubMed Abstract: 
  

  Melittin is a membrane-active peptide from bee venom with promising antimicrobial and anticancer activity. Herein we report on a simple and selective method for labeling of the tryptophan residue in melittin by the organometallic fragment [(C5 H5 )Ru](+) in aqueous solution and in air. Ruthenium coordination does not disturb the secondary structure of the peptide (as verified by 2D NMR spectroscopy), but changes the pattern of its intermolecular interactions resulting in an 11-fold decrease of hemolytic activity. The high stability of the organometallic conjugate allowed the establishment of the biodistribution of the labeled melittin in mice by inductively coupled plasma MS analysis of ruthenium.

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Organizational Affiliation: 

Nesmeyanov Institute of Organoelement Compounds, 28 Vavilova str., 119991, Moscow (Russia).

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 3.14 kDa 
• Atom Count: 207 
• Modelled Residue Count: 27 
• Deposited Residue Count: 27 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Melittin	A	27	Apis mellifera	Mutation(s): 1  Membrane Entity: Yes
UniProt
Find proteins for P01501 (Apis mellifera) Explore P01501  Go to UniProtKB:  P01501

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
3UQ	B [auth A]	[(1,2,3,4,5-eta)-cyclopentadienyl][(1,2,3,4,4a,8a-eta)-naphthalene]ruthenium(1+) C15 H13 Ru OPZOOBQSPMUFBC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: all calculated structures submitted 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-07-01 
Deposition Author(s): Perekalin, D.S., Pavlov, A.A., Novikov, V.V.

Revision History  

• Version 1.0: 2015-07-01
  Type: Initial release
  
• Version 1.1: 2019-11-20
  Changes: Advisory, Data collection, Database references, Derived calculations, Experimental preparation
• Version 1.2: 2023-06-14
  Changes: Data collection, Database references, Derived calculations, Other