2MMT | pdb_00002mmt

Lasso peptide-based integrin inhibitor: Microcin J25 variant with RGDF substitution of Gly12-Ile13-Gly14-Thr15

• PDB DOI: https://doi.org/10.2210/pdb2MMT/pdb
• BMRB: 19865

• Classification: ANTIBIOTIC
• Organism(s): Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-03-18 Released: 2014-07-02 
• Deposition Author(s): Hegemann, J.D., Zimmermann, M., Knappe, T.A., Xie, X., Marahiel, M.A.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Rational improvement of the affinity and selectivity of integrin binding of grafted lasso peptides.

Hegemann, J.D., De Simone, M., Zimmermann, M., Knappe, T.A., Xie, X., Di Leva, F.S., Marinelli, L., Novellino, E., Zahler, S., Kessler, H., Marahiel, M.A.

(2014) J Med Chem 57: 5829-5834

• PubMed: 24949551 
• DOI: https://doi.org/10.1021/jm5004478
• Primary Citation Related Structures: 
  2MMT


• PubMed Abstract: 
  

  Integrins moderate diverse important functions in the human body and are promising targets in cancer therapy. Hence, the selective inhibition of specific integrins is of great medicinal interest. Here, we report the optimization of a grafted lasso peptide, yielding MccJ25(RGDF), which is a highly potent and selective αvβ3 integrin inhibitor. Furthermore, its NMR structure was elucidated and employed in a molecular dynamics approach, revealing information about the integrin binding mode and selectivity profile of MccJ25(RGDF).

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Organizational Affiliation: 
• Department of Chemistry/Biochemistry, LOEWE Center for Synthetic Microbiology, Philipps-Universität Marburg , Hans-Meerwein-Strasse 4, 35032 Marburg, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 2.27 kDa 
• Atom Count: 162 
• Modeled Residue Count: 21 
• Deposited Residue Count: 21 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microcin J25 RGDF mutant	A	21	Escherichia coli	Mutation(s): 4
UniProt
Find proteins for Q9X2V7 (Escherichia coli) Explore Q9X2V7  Go to UniProtKB:  Q9X2V7

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-02 
Deposition Author(s): Hegemann, J.D., Zimmermann, M., Knappe, T.A., Xie, X., Marahiel, M.A.

Revision History  

• Version 1.0: 2014-07-02
  Type: Initial release
  
• Version 1.1: 2014-07-23
  Changes: Database references
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary