1PP5

Structure of Antibacterial Peptide Microcin J25: a 21-Residue Lariat Protoknot


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 60 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structure of Antibacterial Peptide Microcin J25: A 21-Residue Lariat Protoknot.

Bayro, M.J.Mukhopadhyay, J.Swapna, G.V.T.Huang, J.Y.Ma, L.-C.Sineva, E.Dawson, P.E.Montelione, G.T.Ebright, R.H.

(2003) J Am Chem Soc 125: 12382-12383

  • DOI: https://doi.org/10.1021/ja036677e
  • Primary Citation of Related Structures:  
    1PP5

  • PubMed Abstract: 
  • The antibacterial peptide microcin J25 (MccJ25) inhibits bacterial transcription by binding within, and obstructing, the nucleotide-uptake channel of bacterial RNA polymerase. Published covalent and three-dimensional structures indicate that MccJ25 is a 21-residue cycle ...

    The antibacterial peptide microcin J25 (MccJ25) inhibits bacterial transcription by binding within, and obstructing, the nucleotide-uptake channel of bacterial RNA polymerase. Published covalent and three-dimensional structures indicate that MccJ25 is a 21-residue cycle. Here, we show that the published covalent and three-dimensional structures are incorrect, and that MccJ25 in fact is a 21-residue "lariat protoknot", consisting of an 8-residue cyclic segment followed by a 13-residue linear segment that loops back and threads through the cyclic segment. MccJ25 is the first example of a lariat protoknot involving a backbone-side chain amide linkage.


    Organizational Affiliation

    Department of Molecular Biology and Biochemistry, Waksman Institute, and Howard Hughes Medical Institute, Rutgers University, Piscataway, New Jersey 08854, USA.



Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
microcin J2521Escherichia 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
Protein Feature View
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  • Reference Sequence
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 1
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000184
Query on PRD_000184
A
Microcin J25Polypeptide / Inhibitor Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 60 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2003-10-28
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2011-07-27
    Changes: Non-polymer description, Structure summary
  • Version 1.4: 2012-12-12
    Changes: Other