The adsorption configurations of methionine molecules on the Ge(100) surface have been studied by using DFT calculations, core-level photoemission spectroscopy (CLPES), and low-energy electron diffraction (LEED) to scrutinize the adsorption structure as a function of coverage. At first, we obtained two important and stable structures. One is the most stable structure between these structures described as an "O-H dissociated-N dative-S dative-bonded structure" and the other is a less stable adsorption structure of these indicating an "O-H dissociated-S dative-bonded structure" by using DFT calculations. We also performed CLPES to clarify our DFT calculation results. Through the spectral analysis of the S 2p, C 1s, N 1s, and O 1s core-level spectra, we acquired the reasonable results that also revealed quite different bonding configurations depending on the methionine coverage. At low coverage (ca. 0.30 ML), a single type of sulfur and charged nitrogen peaks, which indicate an "O-H dissociated-N dative-S dative-bonded structure", were observed. On the other hand, two types of sulfur peaks with thiol formation and two nitrogen peaks with neutralized and charged characteristics were monitored at a higher coverage (0.60 ML and above), which can be described as an "O-H dissociated-S dative-bonded structure". Hence, we can clearly demonstrate that our results obtained from CLPES spectra and DFT calculations are matched well with each other. Moreover, we additionally confirmed that the relative population of the two types of thiols and amines being included in methionine in between half monolayer induces a surface reorientation in the ordering from 2×1 to 1×1 employing LEED. This interesting variation of the methionine adsorbed on the Ge(100) surface by coverage dependence will be precisely discussed by using DFT calculations, CLPES, and LEED.
The discrepancy of geometric configuration between phenylalanine
and tyrosine adsorbed on Ge(100) surfaces was investigated using scanning
tunneling microscopy (STM) in conjunction with density functional
theory (DFT) calculations and core-level photoemission spectroscopy
(CLPES). The study focused on the role of nucleophilic group (hydroxyl
group) on phenyl ring of tyrosine, and we elucidated the difference
of the adsorption geometry between phenylalanine and tyrosine on Ge(100)
surfaces. We first confirmed that the “O–H dissociated–N
dative bonded structure” was the most favorable structure in
both molecules at low coverage by results of CLPES and DFT calculations.
Geometric differences for the adsorption configurations between phenylalanine
and tyrosine were observed: the phenyl ring of phenylalanine was aligned
axially with respect to the Ge(100) surface, whereas that of tyrosine
was tilted, as determined by DFT calculations. In sequence, we found
out the results of STM images to confirm DFT results. We determined
the different geometric configurations are attributed to the nucleophilic
hydroxyl group of tyrosine, which creates an uneven charge distribution.
We confirmed the coverage dependent variation of tautomers of 2-mercaptothiazoline (the thiolate and thione forms) adsorbed on the Ge(100) surface under UHV conditions by using HRXPS measurements in conjunction with the DFT calculation method, which was studied before only in aqueous systems. The C 1s, S 2p, and N 1s core-level spectra obtained using HRXPS revealed the simultaneous presence of two distinct adsorption structures in different proportions at both low (0.15 ML) and high (0.65 ML) coverages. Moreover, we modelled the adsorption structures and geometric configurations of the bond states of 2-mercaptothiazoline on the Ge(100) surface by using the DFT calculation method, and found that the S dative bonded structure is the most stable adsorption structure for the thione form of 2-mercaptothiazoline and that the S-H dissociated-N dative bonded structure is the most stable adsorption structure for the thiolate form.
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