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: 10.1021/ja036677e

  • 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 i ...

    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  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
microcin J25
A
21Escherichia coliGene Names: mcjA
Find proteins for Q9X2V7 (Escherichia coli)
Go to UniProtKB:  Q9X2V7
Small Molecules
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000184
Query on PRD_000184
AMicrocin J25Polypeptide / Inhibitor

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Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 60 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 
  • Olderado: 1PP5 Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

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