1LMC

THE CRYSTAL STRUCTURE OF A COMPLEX BETWEEN BULGECIN, A BACTERIAL METABOLITE, AND LYSOZYME FROM THE RAINBOW TROUT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of a complex between bulgecin, a bacterial metabolite, and lysozyme from the rainbow trout.

Karlsen, S.Hough, E.

(1996) Acta Crystallogr.,Sect.D 52: 115-123

  • DOI: 10.1107/S0907444995006366

  • PubMed Abstract: 
  • Bulgecin, a sulfonated glycopeptide produced by Pseudomonas acidophila and Pseudomonas mesoacidophila, induces bulge formation and enhances lysis of bacterial cell walls when used in combination with beta-lactam antibiotics. The compound does not its ...

    Bulgecin, a sulfonated glycopeptide produced by Pseudomonas acidophila and Pseudomonas mesoacidophila, induces bulge formation and enhances lysis of bacterial cell walls when used in combination with beta-lactam antibiotics. The compound does not itself exhibit any antibacterial activity, but has been shown to inhibit a soluble lytic transglycosylase (SLT70) from Escherichia coli which has a lysozyme-like domain. Recently, the crystal structure of an SLT-bulgecin complex has been determined to 3.5 A resolution. We report here the crystal structure of a complex between lysozyme from the rainbow trout (RBTL) and bulgecin A at 2.0 A resolution. As for the SLT-bulgecin complex, bulgecin is bound with the glycosaminyl moiety in subsite C and the proline residue in site D of the active-site cleft of RBTL, where it makes hydrogen-bonding interactions with the catalytic residues. The taurine moiety is bound to the left side of subsites E and F in the lower part of the active-site cleft. From the observed position of the bulgecin molecule, it seems reasonable that it is an inhibitor of rainbow trout lysozyme. The lysozymes may, in general, be a target for the design of a novel type of antibiotics distinct from the beta-lactams which are insensitive to the muramidases.


    Related Citations: 
    • Structures of Bulgecins, Bacterial Metabolites with Bulge-Inducing Activity
      Shinagawa, S.,Kasahara, F.,Wada, Y.,Harada, S.,Asai, M.
      (1984) Tetrahedron 40: 3465
    • The Refined Crystal Structure of Lysozyme from Rainbow Trout (Oncorhynchus Mykiss)
      Karlsen, S.,Eliassen, B.E.,Hansen, L.K.,Larsen, R.L.,Riise, B.W.,Smalaas, A.O.,Hough, E.,Grinde, B.
      () TO BE PUBLISHED --: --
    • The Crystal Structures of Three Complexes between Chitooligosaccharides and Lysozyme from the Rainbow Trout
      Karlsen, S.,Hough, E.
      () TO BE PUBLISHED --: --


    Organizational Affiliation

    Protein Crystallography Group, Institute of Mathematical and Physical Science, University of Tromsø, Norway.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LYSOZYME
A
129Oncorhynchus mykissEC: 3.2.1.17
Find proteins for P11941 (Oncorhynchus mykiss)
Go to UniProtKB:  P11941
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BUL
Query on BUL

Download SDF File 
Download CCD File 
A
BULGECIN A
C16 H29 N3 O14 S2
RPNZWZDLNYCCIG-HMMVDTEZSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 76.570α = 90.00
b = 76.570β = 90.00
c = 54.400γ = 120.00
Software Package:
Software NamePurpose
PROLSQrefinement
MADNESdata reduction
MADNESdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1994-11-14 
  • Released Date: 1996-01-01 
  • Deposition Author(s): Karlsen, S., Hough, E.

Revision History 

  • Version 1.0: 1996-01-01
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.3: 2018-04-18
    Type: Advisory, Data collection, Other