Hydrogen-bond mediated transitional adlayer of glycine on Si(111)7×7 at room temperature

Zhang, L.; Chatterjee, Avisek; Ebrahimi, Maryam; Leung, K. T.

doi:10.1063/1.3106762

Cited by 32 publications

(80 citation statements)

References 37 publications

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“…Moreover, there is a weak N 1s peak at ∼401.0 eV, which can be assigned to N···H−O feature. 10,11,33 For exposures in the transitional layer regime (i.e., above 45 s), the C 1s spectra have been fitted with four components at 284.5, 285.6, 286.6, and 289.2 eV, which are assigned to −CH 2 −S−Si, −CH 2 −SH, −CH 2 −NH−Si, and −COOH, respectively. 17,20 Further exposure to 2400 s increases the N 1s intensity of the N···H−O feature for transitional layer ∼14 times with respect to that for the 45 s exposure (Figure 2a).…”

Section: ■ Results and Discussionmentioning

confidence: 99%

Biofunctionalization of Si(111)7×7 by “Renewable” l-Cysteine Transitional Layer

et al. 2014

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Surface functionalization of an inorganic surface with bio-organic molecules is often aimed at creating a "permanent" bio-organic surface with receptor functional groups. We show here that L-cysteine can be used to transform a highly reactive Si(111)7×7 surface to not just a permanent bio-organic surface but also a semipermanent (or renewable) and a temporary bio-organic surfaces by manipulating the exposure. In the early growth stage, the strong bonding between the first cysteine adlayer and the Si substrate through Si-N or Si-S linkages in unidentate or bidentate arrangement provides permanent biofunctionalization by this interfacial layer. This interfacial layer can be used to build a transitional layer (second adlayer) mediated by interlayer vertical hydrogen bonding between an amino group and a carboxylic acid group. Further exposure of cysteine eventually leads to a zwitterionic multilayer film involving electrostatic interactions between cation (-NH3(+)) and anion moieties (-COO(-)). The interlayer hydrogen bonding therefore provides temporary trapping of bio-organic molecules as the second transitional layer that is stable up to 175 °C. This transitional layer can be easily removed by annealing above this temperature and then regenerated with the same molecular layer or a different one by "renewing" the interlayer hydrogen bonds. We also illustrate coverage-dependent adsorption structures of cysteine, from bidentate to unidentate attachments and to self-assembled multimers, involving formation of intralayer horizontal N···H-O hydrogen bonds, by combining our X-ray photoemission data with the local density-of-state images obtained by scanning tunnelling microscopy.

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Section: ■ Results and Discussionmentioning

confidence: 99%

Biofunctionalization of Si(111)7×7 by “Renewable” l-Cysteine Transitional Layer

et al. 2014

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“…Scheme 1 shows the equilibrium geometries of the neutral and zwitterionic forms of the five benchmark proteinogenic biomolecules, which are obtained by DFT-D2 calculations. In our earlier study of glycine on Si(111)7×7, 34 we observed the existence of a transitional layer between the interfacial layer and zwitterionic layer for the first time. In our follow-up study of glycylglycine on the 7×7 surface, 35 we proposed a growth model involving sequential formation of the covalently bonded interfacial layer, the hydrogen-bond mediated transitional layer, and zwitterionic multilayers.…”

Section: ■ Introductionmentioning

confidence: 87%

Surface-Mediated Hydrogen Bonding of Proteinogenic α-Amino Acids on Silicon

2016

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Understanding the adsorption, film growth mechanisms, and hydrogen bonding interactions of biological molecules on semiconductor surfaces has attracted much recent attention because of their applications in biosensors, biocompatible materials, and biomolecule-based electronic devices. One of the most challenging questions when studying the behavior of biomolecules on a metal or semiconductor surface is "What are the driving forces and film growth mechanisms for biomolecular adsorption on these surfaces?" Despite a large volume of work on self-assembly of amino acids on single-crystal metal surfaces, semiconductor surfaces offer more direct surface-mediated interactions and processes with biomolecules. This is due to their directional surface dangling bonds that could significantly perturb hydrogen bonding arrangements. For all the proteinogenic biomolecules studied to date, our group has observed that they generally follow a "universal" three-stage growth process on Si(111)7×7 surface. This is supported by corroborating data obtained from a three-pronged approach of combining chemical-state information provided by X-ray photoelectron spectroscopy (XPS) and the site-specific local density-of-state images obtained by scanning tunneling microscopy (STM) with large-scale quantum mechanical modeling based on the density functional theory with van der Waals corrections (DFT-D2). Indeed, this three-stage growth process on the 7×7 surface has been observed for small benchmark biomolecules, including glycine (the simplest nonchiral amino acid), alanine (the simplest chiral amino acid), cysteine (the smallest amino acid with a thiol group), and glycylglycine (the smallest (di)peptide of glycine). Its universality is further validated here for the other sulfur-containing proteinogenic amino acid, methionine. We use methionine as an example of prototypical proteinogenic amino acids to illustrate this surface-mediated process. This type of growth begins with the formation of a covalent-bond driven interfacial layer (first adlayer), followed by that of a transitional layer driven by interlayer and intralayer hydrogen bonding (second adlayer), and then finally the zwitterionic multilayers (with intralayer hydrogen bonding). The important role of surface-mediated hydrogen bonding as the key for this universal three-stage growth process is demonstrated. This finding provides new insight into biomolecule-semiconductor surface interactions often found in biosensors and biomolecular electronic devices. We also establish the trends in the H-bond length among different types of the hydrogen bonding for dimolecular structures in the gas phase and on the Si(111)7×7 surface, the latter of which could be validated by their STM images. Finally, five simple rules of thumb are developed to summarize the adsorption properties of these proteinogenic biomolecules as mediated by hydrogen bonding, and they are expected to provide a helpful guide to future studies of larger biomolecules and their potential applications.

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“…The N 1s (Fig. 6 c) peak located at 400.4 eV could be assigned to neutral amino group -NH2 or N-H bond of amide bond present in the protein moiety [ 24,25,26 ].From the survey scan (Fig.6d) and spectrum of Ag 3d (Fig. 6 e) the binding energies of Ag 3d5/2 and Ag 3d3/2 are found to be at 368 and 374 eV, respectively[ 27,28,29,30 ].Therefore, it is concluded that the proteins were responsible for the bio-reduction of AgNO3 into AgNPs.…”

Section: Xps Of the Silver Nanoparticlesmentioning

confidence: 99%

Phytofabrication of silver nanoparticles using Myriostachya wightiana as a novel bioresource, and evaluation of their biological activities

Vadlapudi

Amanchy

2017

Braz. arch. biol. technol.

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Nanobiotechnology deals with the properties of nanomaterials and their potential uses. Here we report for the first time novel, cost-effective and eco-friendly method for the rapid green synthesis of silver nanoparticles (AgNPs) using leaf extracts of Myriostachya wightiana. The growth of silver nanoparticles was monitored by UV-vis spectroscopy complemented by Zeta potential, dynamic light scattering technique (DLS), Fouriertransform infrared spectroscopy (FTIR), Transmission electron microscope (TEM) and X-ray diffraction (XRD).The surface plasmon resonance (SPR)

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Hydrogen-bond mediated transitional adlayer of glycine on Si(111)7×7 at room temperature

Cited by 32 publications

References 37 publications

Biofunctionalization of Si(111)7×7 by “Renewable” l-Cysteine Transitional Layer

Biofunctionalization of Si(111)7×7 by “Renewable” l-Cysteine Transitional Layer

Surface-Mediated Hydrogen Bonding of Proteinogenic α-Amino Acids on Silicon

Phytofabrication of silver nanoparticles using Myriostachya wightiana as a novel bioresource, and evaluation of their biological activities

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