5A5X | pdb_00005a5x

Crystal Structure of Se-Met MltF from Pseudomonas aeruginosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 
    0.217 (Depositor), 0.226 (DCC) 
  • R-Value Work: 
    0.179 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 
    0.181 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 5A5X

This is version 1.2 of the entry. See complete history

Literature

Activation by Allostery in Cell-Wall Remodeling by a Modular Membrane-Bound Lytic Transglycosylase from Pseudomonas aeruginosa.

Dominguez-Gil, T.Lee, M.Acebron-Avalos, I.Mahasenan, K.V.Hesek, D.Dik, D.A.Byun, B.Lastochkin, E.Fisher, J.F.Mobashery, S.Hermoso, J.A.

(2016) Structure 24: 1729-1741

  • DOI: https://doi.org/10.1016/j.str.2016.07.019
  • Primary Citation Related Structures: 
    5A5X, 5AA1, 5AA2, 5AA3, 5AA4

  • PubMed Abstract: 

    Bacteria grow and divide without loss of cellular integrity. This accomplishment is notable, as a key component of their cell envelope is a surrounding glycopeptide polymer. In Gram-negative bacteria this polymer-the peptidoglycan-grows by the difference between concurrent synthesis and degradation. The regulation of the enzymatic ensemble for these activities is poorly understood. We report herein the structural basis for the control of one such enzyme, the lytic transglycosylase MltF of Pseudomonas aeruginosa. Its structure comprises two modules: an ABC-transporter-like regulatory module and a catalytic module. Occupancy of the regulatory module by peptidoglycan-derived muropeptides effects a dramatic and long-distance (40 Å) conformational change, occurring over the entire protein structure, to open its active site for catalysis. This discovery of the molecular basis for the allosteric control of MltF catalysis is foundational to further study of MltF within the complex enzymatic orchestration of the dynamic peptidoglycan.


  • Organizational Affiliation
    • Departamento de Cristalografía y Biología Estructural, Instituto de Química-Física "Rocasolano", CSIC, Serrano 119, 28006 Madrid, Spain.

Macromolecule Content 

  • Total Structure Weight: 104.06 kDa 
  • Atom Count: 7,450 
  • Modeled Residue Count: 837 
  • Deposited Residue Count: 905 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
MEMBRANE-BOUND LYTIC MUREIN TRANSGLYCOSYLASE F453Pseudomonas aeruginosa PAO1Mutation(s): 0 
EC: 4.2.2
UniProt
Find proteins for Q9HXN1 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HXN1 
Go to UniProtKB:  Q9HXN1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HXN1
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
MEMBRANE-BOUND LYTIC MUREIN TRANSGLYCOSYLASE F452Pseudomonas aeruginosa PAO1Mutation(s): 0 
EC: 4.2.2
UniProt
Find proteins for Q9HXN1 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HXN1 
Go to UniProtKB:  Q9HXN1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HXN1
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free:  0.217 (Depositor), 0.226 (DCC) 
  • R-Value Work:  0.179 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 0.181 (Depositor) 
Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 166.993α = 90
b = 134.977β = 90
c = 48.749γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-10-12
    Type: Initial release
  • Version 1.1: 2017-03-22
    Changes: Atomic model, Database references
  • Version 1.2: 2024-11-20
    Changes: Data collection, Database references, Derived calculations, Other, Structure summary