Biomedical subjects

Craig J Medforth

Publications and source records attributed to Craig J Medforth.

13 recordsLinked to original sources

PubMed2007

Ab initio molecular dynamics study of manganese porphine hydration and interaction with nitric oxide.

The authors use ab initio molecular dynamics and the density functional theory+U (DFT+U) method to compute the hydration environment of the manganese ion in manganese (II) and manganese (III) porphines (MnP) dispersed in liquid water. These are intended as simple models for more complex water soluble porphyrins, which have important physiological and electrochemical applications. The manganese ion in Mn(II)P exhibits significant out-of-porphine plane displacement and binds strongly to a single H2O molecule in liquid water. The Mn in Mn(III)P is on average coplanar with the porphine plane and forms a stable complex with two H2O molecules. The residence times of these water molecules exceed 15 ps. The DFT+U method correctly predicts that water displaces NO from Mn(III)P-NO, but yields an ambiguous spin state for the MnP(II)-NO complex.

Journal Article↗

PubMed2006

Interfacial synthesis of dendritic platinum nanoshells templated on benzene nanodroplets stabilized in water by a photocatalytic lipoporphyrin.

Nanoscale metal shells have many potential uses and in some applications offer significant advantages over nanoparticles. The synthesis of platinum nanoshells using stabilized nanodroplets of benzene in water as growth templates is described; the nanodroplets are stabilized by a surfactant-like tin(IV)-porphyrin complex localized at the benzene-water interface. The porphyrin also acts as a photocatalyst that reduces the platinum complex and deposits metal onto the nanodroplets to form dendritic metal nanoshells. Below the solubility limit of benzene in water, the lipoporphyrin-stabilized nanodroplets have a reproducible number, size distribution, and surface area, which allows the thickness of the platinum shell walls to be controlled by changing the amount of platinum complex. Nanoscale platinum shells with magnetic interiors can be made by dispersing Fe3O4 nanoparticles in the benzene nanodroplets.

Journal Article↗

PubMed2006

Density functional theory and DFT+U study of transition metal porphines adsorbed on Au(111) surfaces and effects of applied electric fields.

We apply density functional theory (DFT) and the DFT+U technique to study the adsorption of transition metal porphine molecules on atomistically flat Au(111) surfaces. DFT calculations using the Perdew-Burke-Ernzerhof exchange correlation functional correctly predict the palladium porphine (PdP) low-spin ground state. PdP is found to adsorb preferentially on gold in a flat geometry, not in an edgewise geometry, in qualitative agreement with experiments on substituted porphyrins. It exhibits no covalent bonding to Au(111), and the binding energy is a small fraction of an electronvolt. The DFT+U technique, parametrized to B3LYP-predicted spin state ordering of the Mn d-electrons, is found to be crucial for reproducing the correct magnetic moment and geometry of the isolated manganese porphine (MnP) molecule. Adsorption of Mn(II)P on Au(111) substantially alters the Mn ion spin state. Its interaction with the gold substrate is stronger and more site-specific than that of PdP. The binding can be partially reversed by applying an electric potential, which leads to significant changes in the electronic and magnetic properties of adsorbed MnP and approximately 0.1 A changes in the Mn-nitrogen distances within the porphine macrocycle. We conjecture that this DFT+U approach may be a useful general method for modeling first-row transition metal ion complexes in a condensed-matter setting.

Journal Article↗

PubMed2005

Nonplanar heme deformations and excited state displacements in nickel porphyrins detected by Raman spectroscopy at soret excitation.

We have correlated the Raman intensities of out-of-plane modes of nickel porphyrins with the nonplanar deformations of specific symmetries, i.e., static normal coordinate deformations (SNCDs) expressed in terms of irreducible representations of the unperturbed D(4h) point group. The model porphyrins Ni(II) octaethyltetraphenylporphyrin (NiOETPP), Ni(II) tetra(isopropyl)porphyrin (NiT((i)Pr)P), Ni(II) tetra(tert-butyl)porphyrin (NiT((t)Bu)P), and Ni(II) meso-tetraphenylporphyrin (NiTPP) were chosen because they exhibit significant out-of-plane deformations of different symmetries. At B-band excitation, the Raman scattering of out-of-plane modes becomes activated mostly via the Franck-Condon mechanism. Some characteristic bands from out-of-plane modes in the spectra were identified as reliable predictors of the type and magnitude of out-of-plane deformation. The gamma(10)-gamma(13) bands are indicators of ruffling (B(1u)) deformations for porphyrins, as confirmed by data for NiTPP, NiT((i)Pr)P, and NiT((t)Bu)P, where the Raman intensity increases with the magnitude of the ruffling deformation. The gamma(15)-gamma(17) bands are indicators of saddling (B(2u)) deformations, as shown by data for NiOETPP, which is highly saddled. By comparing the relative intensities of these prominent Raman bands we estimated the vibronic coupling parameters using a self-consistent analysis, and showed that they reproduce the respective B-band absorption profiles. We also identified the deformations along the lowest wavenumber normal coordinates as the predominant reason for the Raman activity of out-of-plane modes. Our results suggest that some of the normal coordinates (gamma(10) and gamma(13)) may be used as tools to quantitatively probe the nonplanar deformations of metalloporphyrins with alkyl substituents at the meso-positions. Out-of-plane deformations also increase the vibronic coupling strength of some low frequency in-plane Raman modes, namely, nu(7) and nu(8). Generally, the Raman data suggest that the excited B-state is substantially more nonplanar than the ground state. The overall larger vibronic coupling of ruffled porphyrins yields substantially larger dipole strengths for the vibronic sidebands associated with the B-state transition, so that the relative absorptivity of the B(v) band can be used as a convenient tool to probe the nonplanarity of the porphyrin macrocycle.

Algorithms↗

PubMed2005

Energetics and structural consequences of axial ligand coordination in nonplanar nickel porphyrins.

The effects of ruffling on the axial ligation properties of a series of nickel(II) tetra(alkyl)porphyrins have been investigated with UV-visible absorption spectroscopy, resonance Raman spectroscopy, X-ray crystallography, classical molecular mechanics calculations, and normal-coordinate structural decomposition analysis. For the modestly nonplanar porphyrins, porphyrin ruffling is found to cause a decrease in binding affinity for pyrrolidine and piperidine, mainly caused by a decrease in the binding constant for addition of the first axial ligand; ligand binding is completely inhibited for the more nonplanar porphyrins. The lowered affinity, resulting from the large energies required to expand the core and flatten the porphyrin to accommodate the large high-spin nickel(II) ion, has implications for nickel porphyrin-based molecular devices and the function of heme proteins and methyl-coenzyme M reductase.

Crystallography, X-Ray↗

PubMed2004

Self-metallization of photocatalytic porphyrin nanotubes.

Porphyrin nanotubes represent a new class of nanostructures for which the molecular building blocks can be altered to control their structural and functional properties. Nanotubes containing tin(IV) porphyrins are photocatalytically active and can reduce metal ions from aqueous solution. The metal is deposited selectively onto tube surfaces, producing novel composite nanostructures that have potential applications as nanodevices. Two examples presented here are nanotubes with a continuous gold wire in the core and a gold ball at the end and nanotubes coated with platinum nanoparticles mainly on their outer surfaces. The latter are capable of photocatalytic reduction of water to hydrogen.

Journal Article↗

PubMed2004

Porphyrin nanotubes by ionic self-assembly.

Porphyrin nanotubes are made by ionic self-assembly of two oppositely charged synthetic porphyrin molecules. The diameter of the nanotubes can be altered by modifying the structure of one of the porphyrin tectons. The nanotubes are photocatalytically active, mechanically responsive to light, and are composed of J-aggregates that exhibit resonance light scattering.

Metalloporphyrins↗

PubMed2004

Synthesis of peptide-nanotube platinum-nanoparticle composites.

Nanotubes prepared by the self-assembly of D-Phe-D-Phe molecules are investigated by electron microscopy and Monte Carlo simulations; the nanotubes appear to be porous and are capable of forming novel peptide-nanotube platinum-nanoparticle composites.

Hydrophobic and Hydrophilic Interactions↗

PubMed2004

Controlled synthesis of 2-D and 3-D dendritic platinum nanostructures.

Seeding and autocatalytic reduction of platinum salts in aqueous surfactant solution using ascorbic acid as the reductant leads to remarkable dendritic metal nanostructures. In micellar surfactant solutions, spherical dendritic metal nanostructures are obtained, and the smallest of these nanodendrites resemble assemblies of joined nanoparticles and the nanodendrites are single crystals. With liposomes as the template, dendritic platinum sheets in the form of thin circular disks or solid foamlike nanomaterials can be made. Synthetic control over the morphology of these nanodendrites, nanosheets, and nanostructured foams is realized by using a tin-porphyrin photocatalyst to conveniently and effectively produce a large initial population of catalytic growth centers. The concentration of seed particles determines the ultimate average size and uniformity of these novel two- and three-dimensional platinum nanostructures.

Journal Article↗

PubMed2003

Photoinduced axial ligation and deligation dynamics of nonplanar nickel dodecaarylporphyrins.

The ground- and excited-state metal-ligand dynamics of nonplanar nickel(II) 2,3,5,7,8,10,12,13,15,17,18,20-dodecaphenylporphyrin (NiDPP) and two fluorinated analogues (NiF(20)DPP and NiF(28)DPP) have been investigated using static and time-resolved absorption spectroscopy in toluene and in ligating media that differ in basicity, aromaticity, and steric encumbrance. Because of the electronic and steric consequences of nonplanarity, NiDPP does not bind axial ligands in the ground state, but metal coordination does occur after photoexcitation with multistep dynamics that depend on the properties of the ligand. Following the structural relaxations that occur in all nickel porphyrins within approximately 10 ps, ligand binding to photoexcited NiDPP is progressively longer in pyridine, piperidine, and 3,5-lutidine (25-100 ps) but does not occur at all in 2,6-lutidine in which the ligating nitrogen is sterically encumbered. The transient intermediate that is formed, which nominally could be either a five- or six-coordinate species, also has a ligand-dependent lifetime (200-550 ps). Decay of this intermediate occurs partially via ligand release to re-form the uncoordinated species, in competition with binding of the second axial ligand and/or conformational/electronic relaxations (of a six-coordinate intermediate) to give the ground state of the bis-ligated photoproduct. The finding that the photoproduct channel principally depends on ligand characteristics along with the time-evolving spectra suggests that the transient intermediate may involve a five-coordinate species. In contrast to NiDPP, the fluorinated analogues NiF(20)DPP and NiF(28)DPP do coordinate axial ligands in the ground state but eject them after photoexcitation. Collectively, these results demonstrate the sensitivity with which the electronic and structural characteristics of the macrocycle, substituents, and solvent (ligands) can govern the photophysical and photochemical properties of nonplanar porphyrins and open new avenues for exploring photoinduced ligand association and dissociation behavior.

Alkanes↗

PubMed2003

Unusual aryl-porphyrin rotational barriers in peripherally crowded porphyrins.

Previous studies of 5,10,15,20-tetraarylporphyrins have shown that the barrier for meso aryl-porphyrin rotation (DeltaG++(ROT)) varies as a function of the core substituent M and is lower for a small metal (M = Ni) compared to a large metal (M = Zn) and for a dication (M = 4H(2+)) versus a free base porphyrin (M = 2H). This has been attributed to changes in the nonplanar distortion of the porphyrin ring and the deformability of the macrocycle caused by the core substituent. In the present work, X-ray crystallography, molecular mechanics (MM) calculations, and variable temperature (VT) (1)H NMR spectroscopy are used to examine the relationship between the aryl-porphyrin rotational barrier and the core substituent M in some novel 2,3,5,7,8,10,12,13,15,17,18,20-dodecaarylporphyrins (DArPs), and specifically in some 5,10,15,20-tetraaryl-2,3,7,8,12,13,17,18-octaphenylporphyrins (TArOPPs), where steric crowding of the peripheral groups always results in a very nonplanar macrocycle. X-ray structures of DArPs indicate differences in the nonplanar conformation of the macrocycle as a function of M, with saddle conformations being observed for M = Zn, 2H or M = 4H(2+) and saddle and/or ruffle conformations for M = Ni. VT NMR studies show that the effect of protonation in the TArOPPs is to increase DeltaG++(ROT), which is the opposite of the effect seen for the TArPs, and MM calculations also predict a strikingly high barrier for the TArOPPs when M = 4H(2+). These and other findings suggest that the aryl-porphyrin rotational barriers in the DArPs are closely linked to the deformability of the macrocycle along a nonplanar distortion mode which moves the substituent being rotated out of the porphyrin plane.

Crystallography, X-Ray↗

PubMed2003

Origin of the red shifts in the optical absorption bands of nonplanar tetraalkylporphyrins.

The view that the large red shifts seen in the UV-visible absorption bands of peripherally crowded nonplanar porphyrins are the result of nonplanar deformations of the macrocycle has recently been challenged by the suggestion that the red shifts arise from substituent-induced changes in the macrocycle bond lengths and bond angles, termed in-plane nuclear reorganization (IPNR). We have analyzed the contributions to the UV-visible band shifts in a series of nickel or zinc meso-tetraalkylporphyrins to establish the origins of the red shifts in these ruffled porphyrins. Structures were obtained using a molecular mechanics force field optimized for porphyrins, and the nonplanar deformations were quantified by using normal-coordinate structural decomposition (NSD). Transition energies were calculated by the INDO/S semiempirical method. These computational studies demonstrate conclusively that the large Soret band red shifts ( approximately 40 nm) seen for very nonplanar meso-tetra(tert-butyl)porphyrin compared to meso-tetra(methyl)porphyrin are primarily the result of nonplanar deformations and not IPNR. Strikingly, nonplanar deformations along the high-frequency 2B(1u) and 3B(1u) normal coordinates of the macrocycle are shown to contribute significantly to the observed red shifts, even though these deformations are an order of magnitude smaller than the observed ruffling (1B(1u)) deformation. Other structural and electronic influences on the UV-visible band shifts are discussed and problems with the recent studies are examined (e.g., the systematic underestimation of the 2B(1u) and 3B(1u) modes in artificially constrained porphyrin structures that leads to a mistaken attribution of the red shift to IPNR). The effect of nonplanar deformations on the UV-visible absorption bands is then probed experimentally with a series of novel bridled nickel chiroporphyrins. In these compounds, the substituent effect is essentially invariant and the amount of nonplanar deformation decreases as the length of the straps connecting adjacent meso-cyclopropyl substituents decreases (the opposite of the effect observed for conventional strapped porphyrins). Several spectroscopic markers for nonplanarity (UV-visible bands, resonance Raman lines, and (1)H NMR resonances) are found to correlate with time-averaged deformations obtained from an NSD analysis of molecular dynamics snapshot structures. These results suggest that UV-visible band shifts of tetrapyrroles in proteins are potentially useful indicators of changes in nonplanarity provided other structural and electronic factors can be eliminated.

Journal Article↗

PubMed2002

Influence of electronic and structural effects on the oxidative behavior of nickel porphyrins.

With the aim of better understanding the electronic and structural factors which govern electron-transfer processes in porphyrins, the electrochemistry of 29 nickel(II) porphyrins has been examined in dichloromethane containing either 0.1 M tetra-n-butylammonium perchlorate (TBAP) or tetra-n-butylammonium hexafluorophosphate (TBAPF(6)) as supporting electrolyte. Half-wave potentials for the first oxidation and first reduction are only weakly dependent on the supporting electrolyte, but E(1/2) for the second oxidation varies considerably with the type of supporting electrolyte. E(1/2) values for the first reduction to give a porphyrin pi-anion radical are effected in large part by the electronic properties of the porphyrin macrocycle substituents, while half-wave potentials for the first oxidation to give a pi-cation radical are affected by the substituents as well as by nonplanar deformations of the porphyrin macrocycle. The potential difference between the first and second oxidations (Delta/Ox(2) - Ox(1)/) is highly variable among the 29 investigated compounds and ranges from 0 mV (two overlapped oxidations) to 460 mV depending on the macrocycle substituents and the anion of the supporting electrolyte. The magnitude of Delta/Ox(2) - Ox(1)/ is generally smaller for compounds with very electron-withdrawing substituents and when TBAP is used as the supporting electrolyte. This behavior is best explained in terms of differences in the binding strengths of anions from the supporting electrolyte (ClO(4)(-) or PF(6)(-)) to the doubly oxidized species. A closer analysis suggests two factors which are important in modulating Delta/Ox(2) - Ox(1)/ and thus the binding affinity of the anion to the porphyrin dication. One is the type of pi-cation radical (a proxy for the charge distribution in the dication), and the other is the conformation of the porphyrin macrocycle (either planar or nonplanar). These findings imply that the redox behavior of porphyrins can be selectively tuned to display separate or overlapped oxidation processes.

Binding Sites↗