Biomedical subjects

K W Hipps

Publications and source records attributed to K W Hipps.

9 recordsLinked to original sources

PubMed2006

A scanning tunneling microscopy study of self-assembled nickel(II) octaethylporphyrin deposited from solutions on HOPG.

The adsorption of nickel(II) octaethylporphyrin (NiOEP) from benzene and chloroform solutions on highly ordered pyrolytic graphite (HOPG) was investigated with a scanning tunneling microscope (STM) operated in ambient conditions. STM images show that NiOEP self-assembles on the graphite surface and that the molecules lie flat and form 2D lattices with spacings of 1.58 +/- 0.03 nm by 1.46 +/- 0.06 nm with a lattice angle of 69 degrees +/- 4 degrees averaged over both solvents. We were unable to eliminate the possibility that one unit cell distance is twice the above-reported distance. The corresponding molecular packing density, 4.5 +/- 0.3 x 10(13) molecules/cm(2), was essentially the same for benzene and chloroform solution deposition. These results differ somewhat from the structure revealed by high-resolution STM images of NiOEP on Au (111). The lack of apparent height (image intensity) in the constant current STM image of the alkane region of alkane-substituted metal porphyrins is attributed to a combination of changes in alkane configuration relative to the ring and associated changes in electronic coupling with HOMO and LUMO.

Journal Article↗

PubMed2005

Supramolecular structures of coronene and alkane acids at the Au(111)-solution interface: a scanning tunneling microscopy study.

Scanning tunneling microscopy (STM) is utilized to study the solution-solid interface formed between Au(111) and solutions of coronene in hexanoic, heptanoic, and octanoic acids. In all three cases adsorbed coronene is observed and lays flat on the metal surface. Heptanoic and hexanoic acid solutions produce a hexagonal symmetry monolayer. For the heptanoic and hexanoic cases, dipole-image dipole interactions and H bonding stabilize a surface structure in which 12 acid molecules surround each coronene and produce a coronene spacing of 1.45 nm. In the case of octanoic acid as solvent, the incorporation of the solvent into the monolayer is not as strongly favored. The coronene spacing can range from close-packed (1.2 nm) with no solvent presumed present in the monolayer, to 1.50 nm with up to 12 solvent molecules surrounding each coronene. The close-packed regions have hexagonal symmetry, as do those with the largest (1.5 nm) spacing. Heptanoic acid solutions give the clearest STM images and are associated with the most stable two-component monolayer. The present paper demonstrates that non-covalent interactions at the solution-metal interface can lead to complex multicomponent monolayer structures.

Journal Article↗

PubMed2004

Scanning tunneling microscopy study of the structure and orbital-mediated tunneling spectra of cobalt(II) phthalocyanine and cobalt(II) tetraphenylporphyrin on au(111): mixed composition films.

Binary thin films of cobalt(II) phthalocyanine (CoPc) and cobalt(II) tetraphenylporphyrin (CoTPP) were prepared at submonolayer coverage on Au(111)/mica substrates byvapor deposition. All sample preparation and analysis were done under an ultrahigh vacuum. Scanning tunneling microscopy (STM) constant-current images of CoPc/CoTPP mixtures showed two close-packed surface structures, with different compositional percentages and some disorder. CoPc was also observed exclusively in one-dimensional chains and as single, isolated molecules below 220 K. Occupied and unoccupied orbital energy levels were identified by STM and tunnel-diode-based orbital-mediated tunneling spectroscopy. Occupied energy levels were also confirmed by ultraviolet photoelectron spectroscopy. The transient oxidation of the Co d(z2) orbital is identified in STM dI/dV(V) curves just negative of the 0 V sample bias for both molecules. Nearly identical constant-current contours are observed over the central Co2+ ions of CoTPP and CoPc, indicating that the attenuation of the d(z)2 orbital-mediated tunneling current induced by the structure of TPP relative to Pc is at most a factor of about 10. The orbital-mediated tunneling spectra of CoTPP and CoPc are distinctly different and allow these structurally similar species to be differentially identified.

Journal Article↗

PubMed2002

A self-organized 2-dimensional bifunctional structure formed by supramolecular design.

The production of a novel two-dimensional bimolecular surface structure using weak noncovalent interactions is demonstrated and observed by scanning tunneling microscopy. This work follows the three-dimensional (3D) ideas of crystal engineering and applies the concepts of supramolecular synthons to molecular systems constrained to 2D by physisorption on a conducting surface. We demonstrate a well-ordered planar structure that self-assembles through the influence of fluorine-phenyl interactions. This study provides a concrete example of the "bottom up" construction of nanostructures and of the systematic design of self-organized layers. To our knowledge, this is the first in a new class of fully 2D materials based both upon weak intermolecular interactions and upon image charges and weak interactions associated with adsorption on metal surfaces.

Journal Article↗

PubMed2001

Molecular electronics. It's all about contacts.

A key requirement in molecular electronics studies is the ability to measure the conductivity of a single molecule. But as Hipps explains in his Perspective, such measurements are often more about contacts than about molecular conductivity. Depending on the experimental setup, DNA behaves like a semiconductor, insulator, or metal. Cui et al. have designed a method that overcomes some of these problems, opening the door to systematic, reliable, and reproducible studies of the molecule-contact interface.

Chemical Phenomena↗

PubMed2001

Scanning tunneling microscopy, orbital-mediated tunneling spectroscopy, and ultraviolet photoelectron spectroscopy of metal(II) tetraphenylporphyrins deposited from vapor.

Thin films of vapor-deposited Ni(II) and Co(II) complexes of tetraphenylporphyrin (NiTPP and CoTPP) were studied supported on gold and embedded in Al-Al(2)O(3)-MTPP-Pb tunnel diodes, where M = Ni or Co. Thin films deposited onto polycrystalline gold were analyzed by ultraviolet photoelectron spectroscopy (UPS) using He I radiation. Scanning tunneling microscopy (STM) and orbital-mediated tunneling spectroscopy (STM-OMTS) were performed on submonolayer films of CoTPP and NiTPP supported on Au(111). Inelastic electron tunneling spectroscopy (IETS) and OMTS were measured in conventional tunnel diode structures. The highest occupied pi molecular orbital of the porphyrin ring was seen in both STM-OMTS and UPS at about 6.4 eV below the vacuum level. The lowest unoccupied pi molecular orbital of the porphyrin ring was observed by STM-OMTS and by IETS-OMTS to be located near 3.4 eV below the vacuum level. The OMTS spectra of CoTPP had a band near 5.2 eV (below the vacuum level) that was attributed to transient oxidation of the central Co(II) ion. That is, it is due to electron OMT via the half-filled d(z)(2) orbital present in Co(II) of CoTPP. The NiTPP OMTS spectra show no such band, consistent with the known difficulty of oxidation of the Ni(II) ion. The STM-based OMTS allowed these two porphyrin complexes to be easily distinguished. The present work is the first report of the observation of STM-OMTS, tunnel junction OMTS, and UPS of the same compounds. Scanning tunneling microscope-based orbital-mediated tunneling provides more information than UPS or tunnel junction-based OMTS and does so with molecular-scale resolution.

Journal Article↗

PubMed2001

Intrinsically disordered protein.

Proteins can exist in a trinity of structures: the ordered state, the molten globule, and the random coil. The five following examples suggest that native protein structure can correspond to any of the three states (not just the ordered state) and that protein function can arise from any of the three states and their transitions. (1) In a process that likely mimics infection, fd phage converts from the ordered into the disordered molten globular state. (2) Nucleosome hyperacetylation is crucial to DNA replication and transcription; this chemical modification greatly increases the net negative charge of the nucleosome core particle. We propose that the increased charge imbalance promotes its conversion to a much less rigid form. (3) Clusterin contains an ordered domain and also a native molten globular region. The molten globular domain likely functions as a proteinaceous detergent for cell remodeling and removal of apoptotic debris. (4) In a critical signaling event, a helix in calcineurin becomes bound and surrounded by calmodulin, thereby turning on calcineurin's serine/threonine phosphatase activity. Locating the calcineurin helix within a region of disorder is essential for enabling calmodulin to surround its target upon binding. (5) Calsequestrin regulates calcium levels in the sarcoplasmic reticulum by binding approximately 50 ions/molecule. Disordered polyanion tails at the carboxy terminus bind many of these calcium ions, perhaps without adopting a unique structure. In addition to these examples, we will discuss 16 more proteins with native disorder. These disordered regions include molecular recognition domains, protein folding inhibitors, flexible linkers, entropic springs, entropic clocks, and entropic bristles. Motivated by such examples of intrinsic disorder, we are studying the relationships between amino acid sequence and order/disorder, and from this information we are predicting intrinsic order/disorder from amino acid sequence. The sequence-structure relationships indicate that disorder is an encoded property, and the predictions strongly suggest that proteins in nature are much richer in intrinsic disorder than are those in the Protein Data Bank. Recent predictions on 29 genomes indicate that proteins from eucaryotes apparently have more intrinsic disorder than those from either bacteria or archaea, with typically > 30% of eucaryotic proteins having disordered regions of length > or = 50 consecutive residues.

Models, Molecular↗

PubMed1998

Effects of relative humidity and applied force on atomic force microscopy images of the filamentous phage fd.

The filamentous phage fd was studied by both contact- and tapping-mode atomic force microscopy under conditions of controlled variations in relative humidity and changes in the applied tip force. By spin-coating freshly cleaved mica with phage containing solutions having very low salt content followed by rapid humidity control, stable and reliable sample preparation was achieved. The apparent height of the phage varied by about 10-fold with a quadratic dependence on the stabilized relative humidity, extrapolating to 73% of the accepted X-ray diffraction-based height at 0% relative humidity. The variation in measured height with relative humidity largely reconciles previous widely varying atomic force microscopy estimates of this dimension for the filamentous phage. Our finding that contact-mode images of phage are more difficult to analyze than those acquired in tapping mode are consistent with previously published results on other biological specimens such as DNA.

Humidity↗

PubMedDate not supplied

Scanning tunneling microscopy of 1, 2, and 3 layers of electroactive compounds.

Bilayer and trilayer organic films grown on Au(111) were studied by scanning tunneling microscopy (STM). Studies were carried out under UHV conditions with the sample cooled to either 80 or 100K. Cobalt(II)phthalocyanine [CoPc] was deposited from vapor onto Au(111), followed by vanadyl phthalocyanine, VOPc. CoPc coverages studied were 0.5 and 1 monolayer, while VOPc coverages were about 0.5 monolayer. Constant current images were acquired at high tunneling gap resistance, of the order of 30GOmega. Two different physical structures were observed for VOPc on CoPc, and each had a characteristic I(V) curve indicating significantly different unoccupied state density. It is also demonstrated that the transmission factor for two layers of VOPc is not simply the product of the transmission factors for each layer.

Journal Article↗