Resolving dual binding conformations of cellulosome cohesin-dockerin complexes using single-molecule force spectroscopy

  1. Markus A Jobst
  2. Lukas F Milles
  3. Constantin Schoeler
  4. Wolfgang Ott
  5. Daniel B Fried
  6. Edward A Bayer
  7. Hermann E Gaub
  8. Michael A Nash  Is a corresponding author
  1. Ludwig-Maximilians-Universität München, Germany
  2. Kean University, United States
  3. Weizmann Institute of Science, Israel

Abstract

Receptor-ligand pairs are ordinarily thought to interact through a lock and key mechanism, where a unique molecular conformation is formed upon binding. Contrary to this paradigm, cellulosomal cohesin-dockerin (Coh-Doc) pairs are believed to interact through redundant dual binding modes consisting of two distinct conformations. Here, we combined site-directed mutagenesis and single-molecule force spectroscopy (SMFS) to study the unbinding of Coh:Doc complexes under force. We designed Doc mutations to knock out each binding mode, and compared their single-molecule unfolding patterns as they were dissociated from Coh using an atomic force microscope (AFM) cantilever. Although average bulk measurements were unable to resolve the differences in Doc binding modes due to the similarity of the interactions, with a single-molecule method we were able to discriminate the two modes based on distinct differences in their mechanical properties. We conclude that wild-type Doc from Clostridium thermocellum exocellulase Cel48S populates each binding mode with equal probability.

Article and author information

Author details

  1. Markus A Jobst

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    Competing interests
    The authors declare that no competing interests exist.
  2. Lukas F Milles

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    Competing interests
    The authors declare that no competing interests exist.
  3. Constantin Schoeler

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    Competing interests
    The authors declare that no competing interests exist.
  4. Wolfgang Ott

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    Competing interests
    The authors declare that no competing interests exist.
  5. Daniel B Fried

    Kean University, Union, United States
    Competing interests
    The authors declare that no competing interests exist.
  6. Edward A Bayer

    Department of Biological Chemistry, Weizmann Institute of Science, Rehovot, Israel
    Competing interests
    The authors declare that no competing interests exist.
  7. Hermann E Gaub

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    Competing interests
    The authors declare that no competing interests exist.
  8. Michael A Nash

    Lehrstuhl für Angewandte Physik, Center for Nanoscience, Ludwig-Maximilians-Universität München, Munich, Germany
    For correspondence
    michael.nash@lmu.de
    Competing interests
    The authors declare that no competing interests exist.

Reviewing Editor

  1. Taekjip Ha, Johns Hopkins University School of Medicine

Version history

  1. Received: July 23, 2015
  2. Accepted: October 28, 2015
  3. Accepted Manuscript published: October 31, 2015 (version 1)
  4. Version of Record published: January 7, 2016 (version 2)

Copyright

© 2015, Jobst et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 1,501
    views
  • 395
    downloads
  • 39
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Markus A Jobst
  2. Lukas F Milles
  3. Constantin Schoeler
  4. Wolfgang Ott
  5. Daniel B Fried
  6. Edward A Bayer
  7. Hermann E Gaub
  8. Michael A Nash
(2015)
Resolving dual binding conformations of cellulosome cohesin-dockerin complexes using single-molecule force spectroscopy
eLife 4:e10319.
https://doi.org/10.7554/eLife.10319

Share this article

https://doi.org/10.7554/eLife.10319

Further reading

    1. Biochemistry and Chemical Biology
    2. Cell Biology
    Natalia Dolgova, Eva-Maria E Uhlemann ... Oleg Y Dmitriev
    Research Article

    Mediator of ERBB2-driven Cell Motility 1 (MEMO1) is an evolutionary conserved protein implicated in many biological processes; however, its primary molecular function remains unknown. Importantly, MEMO1 is overexpressed in many types of cancer and was shown to modulate breast cancer metastasis through altered cell motility. To better understand the function of MEMO1 in cancer cells, we analyzed genetic interactions of MEMO1 using gene essentiality data from 1028 cancer cell lines and found multiple iron-related genes exhibiting genetic relationships with MEMO1. We experimentally confirmed several interactions between MEMO1 and iron-related proteins in living cells, most notably, transferrin receptor 2 (TFR2), mitoferrin-2 (SLC25A28), and the global iron response regulator IRP1 (ACO1). These interactions indicate that cells with high MEMO1 expression levels are hypersensitive to the disruptions in iron distribution. Our data also indicate that MEMO1 is involved in ferroptosis and is linked to iron supply to mitochondria. We have found that purified MEMO1 binds iron with high affinity under redox conditions mimicking intracellular environment and solved MEMO1 structures in complex with iron and copper. Our work reveals that the iron coordination mode in MEMO1 is very similar to that of iron-containing extradiol dioxygenases, which also display a similar structural fold. We conclude that MEMO1 is an iron-binding protein that modulates iron homeostasis in cancer cells.

    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics
    Isabelle Petit-Hartlein, Annelise Vermot ... Franck Fieschi
    Research Article

    NADPH oxidases (NOX) are transmembrane proteins, widely spread in eukaryotes and prokaryotes, that produce reactive oxygen species (ROS). Eukaryotes use the ROS products for innate immune defense and signaling in critical (patho)physiological processes. Despite the recent structures of human NOX isoforms, the activation of electron transfer remains incompletely understood. SpNOX, a homolog from Streptococcus pneumoniae, can serves as a robust model for exploring electron transfers in the NOX family thanks to its constitutive activity. Crystal structures of SpNOX full-length and dehydrogenase (DH) domain constructs are revealed here. The isolated DH domain acts as a flavin reductase, and both constructs use either NADPH or NADH as substrate. Our findings suggest that hydride transfer from NAD(P)H to FAD is the rate-limiting step in electron transfer. We identify significance of F397 in nicotinamide access to flavin isoalloxazine and confirm flavin binding contributions from both DH and Transmembrane (TM) domains. Comparison with related enzymes suggests that distal access to heme may influence the final electron acceptor, while the relative position of DH and TM does not necessarily correlate with activity, contrary to previous suggestions. It rather suggests requirement of an internal rearrangement, within the DH domain, to switch from a resting to an active state. Thus, SpNOX appears to be a good model of active NOX2, which allows us to propose an explanation for NOX2’s requirement for activation.