2HQS

Crystal structure of TolB/Pal complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.182 

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This is version 1.2 of the entry. See complete history. 


Literature

Molecular mimicry enables competitive recruitment by a natively disordered protein.

Bonsor, D.A., Grishkovskaya, I., Dodson, E.J., Kleanthous, C.

(2007) J Am Chem Soc 129: 4800-4807

  • DOI: 10.1021/ja070153n
  • Primary Citation of Related Structures:  
    2HQS

  • PubMed Abstract: 

    • We report the crystal structure of the Escherichia coli TolB-Pal complex, a protein-protein complex involved in maintaining the integrity of the outer membrane (OM) in all Gram-negative bacteria that is parasitized by colicins (protein antibiotics) to expedite their entry into cells ...

    We report the crystal structure of the Escherichia coli TolB-Pal complex, a protein-protein complex involved in maintaining the integrity of the outer membrane (OM) in all Gram-negative bacteria that is parasitized by colicins (protein antibiotics) to expedite their entry into cells. Nuclease colicins competitively recruit TolB using their natively disordered regions (NDRs) to disrupt its complex with Pal, which is thought to trigger translocation of the toxin across a locally destabilized OM. The structure shows induced-fit binding of peptidoglycan-associated lipoprotein (Pal) to the beta-propeller domain of TolB causing the N-terminus of one of its alpha-helices to unwind and several residues to undergo substantial changes in conformation. The resulting interactions with TolB are known to be essential for the stability of the complex and the bacterial OM. Structural comparisons with a TolB-colicin NDR complex reveal that colicins bind at the Pal site, mimicking rearranged Pal residues while simultaneously appearing to block induced-fit changes in TolB. The study therefore explains how colicins recruit TolB in the bacterial periplasm and highlights a novel binding mechanism for a natively disordered protein.

    Organizational Affiliation: 

    Department of Biology, University of York, Heslington, York, YO10 5YW, United Kingdom.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein tolBA,
C [auth B],
E [auth D],
G [auth F]		415Escherichia coliMutation(s): 0 
Gene Names: tolB
UniProt
Find proteins for P0A855 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0A855
Entity Groups  
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UniProt GroupP0A855
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Peptidoglycan-associated lipoproteinD [auth C],
F [auth E],
H [auth G],
B [auth H]		118Escherichia coliMutation(s): 0 
Gene Names: pal, excC
UniProt
Find proteins for P0A912 (Escherichia coli (strain K12))
Explore P0A912 
Go to UniProtKB:  P0A912
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A912
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
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J [auth A],
O [auth B],
S [auth D],
W [auth F],
X [auth F],
J [auth A],
O [auth B],
S [auth D],
W [auth F],
X [auth F],
Y [auth F]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L		 Ligand Interaction
GOL
Query on GOL
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AA [auth F],
K [auth A],
L [auth A],
P [auth B],
Q [auth B],
AA [auth F],
K [auth A],
L [auth A],
P [auth B],
Q [auth B],
T [auth D],
Z [auth F]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N		 Ligand Interaction
ACT
Query on ACT
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BA [auth G],
I [auth A],
M [auth H],
N [auth B],
R [auth C],
BA [auth G],
I [auth A],
M [auth H],
N [auth B],
R [auth C],
U [auth E],
V [auth F]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.182 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.847α = 87.15
b = 89.049β = 89.62
c = 91.051γ = 68.81
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-04-03
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance