5T56 | pdb_00005t56

[3]catenane from MccJ25 G12R/I13C/G21C lasso peptide


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

wwPDB Validation 3D Report Full Report

Validation slider image for 5T56

This is version 1.3 of the entry. See complete history

Literature

Self-Assembly of Catenanes from Lasso Peptides.

Allen, C.D.Link, A.J.

(2016) J Am Chem Soc 138: 14214-14217

  • DOI: https://doi.org/10.1021/jacs.6b09454
  • Primary Citation Related Structures: 
    5T56

  • PubMed Abstract: 

    Lasso peptides exist naturally in a threaded state as [1]rotaxanes, and we reasoned that lasso peptides cleaved in their loop region could serve as building blocks for catenanes. Mutagenesis of the lasso peptide microcin J25 (MccJ25) with two cysteine residues followed by cleavage of the peptide with trypsin led to a [2]rotaxane structure that self-assembled into a [3]catenane and [4]catenanes at room temperature in aqueous solution. The [3]catenane represents the smallest ring size of a catenane composed solely of polypeptide segments. The NMR structure of the [3]catenane was determined, suggesting that burial of hydrophobic residues may be a driving force for assembly of the catenane structure.


  • Organizational Affiliation
    • Departments of Chemical and Biological Engineering and ‡Molecular Biology, Princeton University , Princeton, New Jersey 08544, United States.

Macromolecule Content 

  • Total Structure Weight: 4.56 kDa 
  • Atom Count: 318 
  • Modeled Residue Count: 42 
  • Deposited Residue Count: 42 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Microcin J25
A, C
12Escherichia coliMutation(s): 0 
Gene Names: mcjA
UniProt
Find proteins for Q9X2V7 (Escherichia coli)
Explore Q9X2V7 
Go to UniProtKB:  Q9X2V7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9X2V7
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Microcin J25
B, D
9Escherichia coliMutation(s): 0 
Gene Names: mcjA
UniProt
Find proteins for Q9X2V7 (Escherichia coli)
Explore Q9X2V7 
Go to UniProtKB:  Q9X2V7
Entity Groups
UniProt GroupQ9X2V7
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-07-12
    Type: Initial release
  • Version 1.1: 2022-02-23
    Changes: Data collection, Database references, Derived calculations
  • Version 1.2: 2023-06-14
    Changes: Other
  • Version 1.3: 2024-11-13
    Changes: Data collection, Database references, Structure summary