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Prüßner T, Meinderink D, Zhu S, Orive AG, Kielar C, Huck M, Steinrück HG, Keller A, Grundmeier G. Molecular Adhesion of a Pilus-Derived Peptide Involved in Pseudomonas aeruginosa Biofilm Formation on Non-Polar ZnO-Surfaces. Chemistry 2024; 30:e202302464. [PMID: 37909474 DOI: 10.1002/chem.202302464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 10/30/2023] [Accepted: 10/30/2023] [Indexed: 11/03/2023]
Abstract
Bacterial colonization and biofilm formation on abiotic surfaces are initiated by the adhesion of peptides and proteins. Understanding the adhesion of such peptides and proteins at a molecular level thus represents an important step toward controlling and suppressing biofilm formation on technological and medical materials. This study investigates the molecular adhesion of a pilus-derived peptide that facilitates biofilm formation of Pseudomonas aeruginosa, a multidrug-resistant opportunistic pathogen frequently encountered in healthcare settings. Single-molecule force spectroscopy (SMFS) was performed on chemically etched ZnO11 2 ‾ 0 ${\left(11\bar{2}0\right)}$ surfaces to gather insights about peptide adsorption force and its kinetics. Metal-free click chemistry for the fabrication of peptide-terminated SMFS cantilevers was performed on amine-terminated gold cantilevers and verified by X-ray photoelectron spectroscopy (XPS) and polarization-modulated infrared reflection absorption spectroscopy (PM-IRRAS). Atomic force microscopy (AFM) and XPS analyses reveal stable topographies and surface chemistries of the substrates that are not affected by SMFS. Rupture events described by the worm-like chain model (WLC) up to 600 pN were detected for the non-polar ZnO surfaces. The dissociation barrier energy at zero force ΔG(0), the transition state distance xb and bound-unbound dissociation rate at zero force koff (0) for the single crystalline substrate indicate that coordination and hydrogen bonds dominate the peptide/surface interaction.
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Affiliation(s)
- Tim Prüßner
- Technical and Macromolecular Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
| | - Dennis Meinderink
- Technical and Macromolecular Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
| | - Siqi Zhu
- Technical and Macromolecular Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
| | - Alejandro G Orive
- Department of Chemistry, Materials and Nanotechnology Institute, University of La Laguna, Avda. Astrofisico Francisco Sánchez s/n, 38206, San Cristóbal de La Laguna, Spain
| | - Charlotte Kielar
- Insitute of Resource Ecology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328, Dresden, Germany
| | - Marten Huck
- Chemistry Department, Paderborn University, 33098, Paderborn, Germany
| | | | - Adrian Keller
- Technical and Macromolecular Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
| | - Guido Grundmeier
- Technical and Macromolecular Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
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2
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Ge X, Zhang W, Putnis CV, Wang L. Molecular mechanisms for the humic acid-enhanced formation of the ordered secondary structure of a conserved catalytic domain in phytase. Phys Chem Chem Phys 2022; 24:4493-4503. [PMID: 35113120 DOI: 10.1039/d2cp00054g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Changes in the secondary structure of phytase, particularly the conserved active catalytic domain (ACD, SRHGVRAPHD) are extremely important for the varied catalytic activity during hydrolyzing phytate in the presence of humic acid (HA). However, little is known about the molecular-scale mechanisms of how HA influences the secondary structure of ACD found in phytase. First, in situ surface-enhanced Raman spectroscopy (SERS) results show the secondary structure transformation of ACD from the unordered random coil to the ordered β-sheet structure after treatment with HA. Then, we use an atomic force microscopy (AFM)-based single-molecule force spectroscopy (SMFS) technique that can in situ directly probe the single-molecule interaction of ACD with HA and underlying changes in ACD secondary structure in the approach-retraction cycles in real time. Based on the SMFS results, we further detect the HA-enhanced formation of H-bonding between amide groups in the ACD backbone after noncovalently interacting with HA in the absence of phytate. Following the addition of phytate, the calculated contour length (Lc) and the free energies (ΔGb) of functional groups within ACD(-1/2) binding to mica/HA collectively demonstrate the formation of the organized intermediate structural state of ACD following its covalent binding to phytate. These spectroscopic and single-molecule determinations provide the molecular-scale understanding regarding the detailed mechanisms of HA-enhancement of the ordered β-sheet secondary structure of ACD through chemical functionalities in ACD noncovalently interacting with HA. Therefore, we suggest that similar studies of the interactions of other soil enzymes and plant nutrients may reveal predominant roles of dissolved organic matter (DOM) in controlling elemental cycling and fate for sustainable agriculture development.
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Affiliation(s)
- Xinfei Ge
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China.
| | - Wenjun Zhang
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China.
| | - Christine V Putnis
- Institut für Mineralogie, University of Münster, 48149 Münster, Germany.,School of Molecular and Life Science, Curtin University, Perth 6845, Australia
| | - Lijun Wang
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China.
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Alvisi N, Gutiérrez-Mejía FA, Lokker M, Lin YT, de Jong AM, van Delft F, de Vries R. Self-Assembly of Elastin-like Polypeptide Brushes on Silica Surfaces and Nanoparticles. Biomacromolecules 2021; 22:1966-1979. [PMID: 33871996 PMCID: PMC8154268 DOI: 10.1021/acs.biomac.1c00067] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Control over the placement and activity of biomolecules on solid surfaces is a key challenge in bionanotechnology. While covalent approaches excel in performance, physical attachment approaches excel in ease of processing, which is equally important in many applications. We show how the precision of recombinant protein engineering can be harnessed to design and produce protein-based diblock polymers with a silica-binding and highly hydrophilic elastin-like domain that self-assembles on silica surfaces and nanoparticles to form stable polypeptide brushes that can be used as a scaffold for later biofunctionalization. From atomic force microscopy-based single-molecule force spectroscopy, we find that individual silica-binding peptides have high unbinding rates. Nevertheless, from quartz crystal microbalance measurements, we find that the self-assembled polypeptide brushes cannot easily be rinsed off. From atomic force microscopy imaging and bulk dynamic light scattering, we find that the binding to silica induces fibrillar self-assembly of the peptides. Hence, we conclude that the unexpected stability of these self-assembled polypeptide brushes is at least in part due to peptide-peptide interactions of the silica-binding blocks at the silica surface.
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Affiliation(s)
- Nicolò Alvisi
- Physical Chemistry and Soft Matter, Wageningen University and Research, Stippeneng 4, Wageningen 6708 WE, The Netherlands
| | - Fabiola A Gutiérrez-Mejía
- Physical Chemistry and Soft Matter, Wageningen University and Research, Stippeneng 4, Wageningen 6708 WE, The Netherlands
| | - Meike Lokker
- Physical Chemistry and Soft Matter, Wageningen University and Research, Stippeneng 4, Wageningen 6708 WE, The Netherlands
| | - Yu-Ting Lin
- Department of Applied Physics and Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology, Eindhoven 5600 MB, The Netherlands
| | - Arthur M de Jong
- Department of Applied Physics and Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology, Eindhoven 5600 MB, The Netherlands
| | - Floris van Delft
- Laboratory of Organic Chemistry, Wageningen University and Research, Stippeneng 4, Wageningen 6708 WE, The Netherlands
| | - Renko de Vries
- Physical Chemistry and Soft Matter, Wageningen University and Research, Stippeneng 4, Wageningen 6708 WE, The Netherlands
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Zhai H, Zhang W, Wang L, Putnis CV. Dynamic force spectroscopy for quantifying single-molecule organo–mineral interactions. CrystEngComm 2021. [DOI: 10.1039/d0ce00949k] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Organo–mineral interactions have long been the focus in the fields of biomineralization and geomineralization, since such interactions not only modulate the dynamics of crystal nucleation and growth but may also change crystal phases, morphologies, and structures.
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Affiliation(s)
- Hang Zhai
- College of Resources and Environment
- Huazhong Agricultural University
- Wuhan 430070
- China
- Department of Plant and Environmental Sciences
| | - Wenjun Zhang
- College of Resources and Environment
- Huazhong Agricultural University
- Wuhan 430070
- China
| | - Lijun Wang
- College of Resources and Environment
- Huazhong Agricultural University
- Wuhan 430070
- China
| | - Christine V. Putnis
- Institut für Mineralogie
- University of Münster
- 48149 Münster
- Germany
- School of Molecular and Life Science
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Sand KK, Jelavić S, Dobberschütz S, Ashby PD, Marshall MJ, Dideriksen K, Stipp SLS, Kerisit SN, Friddle RW, DeYoreo JJ. Mechanistic insight into biopolymer induced iron oxide mineralization through quantification of molecular bonding. NANOSCALE ADVANCES 2020; 2:3323-3333. [PMID: 36134299 PMCID: PMC9417541 DOI: 10.1039/d0na00138d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/19/2020] [Accepted: 06/12/2020] [Indexed: 06/16/2023]
Abstract
Microbial production of iron (oxyhydr)oxides on polysaccharide rich biopolymers occurs on such a vast scale that it impacts the global iron cycle and has been responsible for major biogeochemical events. Yet the physiochemical controls these biopolymers exert on iron (oxyhydr)oxide formation are poorly understood. Here we used dynamic force spectroscopy to directly probe binding between complex, model and natural microbial polysaccharides and common iron (oxyhydr)oxides. Applying nucleation theory to our results demonstrates that if there is a strong attractive interaction between biopolymers and iron (oxyhydr)oxides, the biopolymers decrease the nucleation barriers, thus promoting mineral nucleation. These results are also supported by nucleation studies and density functional theory. Spectroscopic and thermogravimetric data provide insight into the subsequent growth dynamics and show that the degree and strength of water association with the polymers can explain the influence on iron (oxyhydr)oxide transformation rates. Combined, our results provide a mechanistic basis for understanding how polymer-mineral-water interactions alter iron (oxyhydr)oxides nucleation and growth dynamics and pave the way for an improved understanding of the consequences of polymer induced mineralization in natural systems.
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Affiliation(s)
- K K Sand
- Physical Sciences Division, Pacific Northwest National Laboratory Richland WA USA
- Molecular Foundry, Lawrence Berkeley National Laboratory Berkeley CA USA
| | - S Jelavić
- Nano-Science Center, Department of Chemistry, University of Copenhagen Denmark
| | - S Dobberschütz
- Nano-Science Center, Department of Chemistry, University of Copenhagen Denmark
| | - P D Ashby
- Molecular Foundry, Lawrence Berkeley National Laboratory Berkeley CA USA
| | - M J Marshall
- Biologic Sciences Division, Pacific Northwest National Laboratory Richland WA USA
| | - K Dideriksen
- Nano-Science Center, Department of Chemistry, University of Copenhagen Denmark
| | - S L S Stipp
- Nano-Science Center, Department of Chemistry, University of Copenhagen Denmark
| | - S N Kerisit
- Physical Sciences Division, Pacific Northwest National Laboratory Richland WA USA
| | - R W Friddle
- Sandia National Laboratories Livermore California 94550 USA
| | - J J DeYoreo
- Physical Sciences Division, Pacific Northwest National Laboratory Richland WA USA
- Department of Material Science and Engineering, University of Washington Seattle WA USA
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Fibrinogen binding is affected by amino acid substitutions in C-terminal repeat region of fibronectin binding protein A. Sci Rep 2019; 9:11619. [PMID: 31406152 PMCID: PMC6690874 DOI: 10.1038/s41598-019-48031-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2018] [Accepted: 07/29/2019] [Indexed: 11/14/2022] Open
Abstract
Fibronectin-binding protein A (FnBPA), a protein displayed on the outer surface of Staphylococcus aureus, has a structured A-domain that binds fibrinogen (Fg) and a disordered repeat-region that binds fibronectin (Fn). Amino acid substitutions in Fn-binding repeats (FnBRs) have previously been linked to cardiovascular infection in humans. Here we used microtiter and atomic force microscopy (AFM) to investigate adhesion by variants of full-length FnBPA covalently anchored in the outer cell wall of Lactococcus lactis, a Gram-positive surrogate that otherwise lacks adhesins to mammalian ligands. Fn adhesion increased in five of seven FnBPA variants under static conditions. The bond targeting Fn increased its strength with load under mechanical dissociation. Substitutions extended bond lifetime (1/koff) up to 2.1 times for FnBPA-Fn. Weaker adhesion was observed for Fg in all FnBPA variants tested with microtiter. However, mechanical dissociation with AFM showed significantly increased tensile strength for Fg interacting with the E652D/H782Q variant. This is consistent with a force-induced mechanism and suggests that the dock, lock, and latch (DLL) mechanism is favored for Fg-binding under mechanical stress. Collectively, these experiments reveal that FnBPA exhibits bimodal, ligand-dependent adhesive behavior. Amino acid substitutions in the repeat-region of FnBPA impact binding to both ligands. This was unexpected for Fg since all variants have the same A-domain sequence, and the Fg-binding site is distant from the repeat region. This indicates that FnBRs may fold back on the A-domain in a way that impacts the DLL binding mechanism for Fg.
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Rios-Carvajal T, Pedersen NR, Bovet N, Stipp SLS, Hassenkam T. Specific Ion Effects on the Interaction of Hydrophobic and Hydrophilic Self-Assembled Monolayers. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:10254-10261. [PMID: 30085678 DOI: 10.1021/acs.langmuir.8b01720] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Interactions between mineral surfaces and organic molecules are fundamental to life processes. The presence of cations in natural environments can change the behavior of organic compounds and thus alter the mineral-organic interfaces. We investigated the influence of Na+, Mg2+, Ca2+, Sr2+, and Ba2+ on the interaction between two models, self-assembled monolayers, that were tailored to have hydrophobic -CH3 or hydrophilic -COO(H) terminations. Atomic force microscopy in chemical force mapping mode, where the tips were functionalized with the same terminations, was used to measure adhesion forces between the tip and substrate surfaces, to gather fundamental information about the role of these cations in the behavior of organic compounds and the surfaces where they adsorb. Adhesion force between hydrophobic surfaces in 0.5 M NaCl solutions that contained 0.012 M divalent cations did not change, regardless of the ionic potential, that is, the charge per unit radius, of the cation. For systems where one or the other surface was functionalized with carboxylate, -COO(H), mostly in its deprotonated form, -COO-, a reproducible change in the adhesion force was observed for each of the ions. The trend of increasing adhesion force followed the pattern: Na+ ≈ Mg2+ < Sr2+ < Ca2+ < Ba2+, suggesting that ionic potential, thus hydrated radius, controls the interaction. The presence of a -CH3 surface in the asymmetric system leads to lower adhesion forces than in the hydrophilic system, whereas the ionic trend remains the same. Although specific ion effects are felt in both systems, the lower adhesion force in the asymmetric system, compared with the hydrophilic system, implies that the -CH3 surface plays an important role.
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Affiliation(s)
- T Rios-Carvajal
- Nano-Science Center, Department of Chemistry , University of Copenhagen , 2100 Copenhagen , Denmark
| | - N R Pedersen
- Nano-Science Center, Department of Chemistry , University of Copenhagen , 2100 Copenhagen , Denmark
| | - N Bovet
- Nano-Science Center, Department of Chemistry , University of Copenhagen , 2100 Copenhagen , Denmark
| | - S L S Stipp
- Nano-Science Center, Department of Chemistry , University of Copenhagen , 2100 Copenhagen , Denmark
| | - T Hassenkam
- Nano-Science Center, Department of Chemistry , University of Copenhagen , 2100 Copenhagen , Denmark
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8
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Spoerri PM, Kato HE, Pfreundschuh M, Mari SA, Serdiuk T, Thoma J, Sapra KT, Zhang C, Kobilka BK, Müller DJ. Structural Properties of the Human Protease-Activated Receptor 1 Changing by a Strong Antagonist. Structure 2018; 26:829-838.e4. [DOI: 10.1016/j.str.2018.03.020] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2018] [Revised: 02/16/2018] [Accepted: 03/29/2018] [Indexed: 12/12/2022]
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