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1.
Angew Chem Int Ed Engl ; 63(14): e202316496, 2024 04 02.
Artigo em Inglês | MEDLINE | ID: mdl-38348945

RESUMO

Brachyury is an oncogenic transcription factor whose overexpression drives chordoma growth. The downmodulation of brachyury in chordoma cells has demonstrated therapeutic potential, however, as a transcription factor it is classically deemed "undruggable". Given that direct pharmacological intervention against brachyury has proven difficult, attempts at intervention have instead targeted upstream kinases. Recently, afatinib, an FDA-approved kinase inhibitor, has been shown to modulate brachyury levels in multiple chordoma cell lines. Herein, we use afatinib as a lead to undertake a structure-based drug design approach, aided by mass-spectrometry and X-ray crystallography, to develop DHC-156, a small molecule that more selectively binds brachyury and downmodulates it as potently as afatinib. We eliminated kinase-inhibition from this novel scaffold while demonstrating that DHC-156 induces the post-translational downmodulation of brachyury that results in an irreversible impairment of chordoma tumor cell growth. In doing so, we demonstrate the feasibility of direct brachyury modulation, which may further be developed into more potent tool compounds and therapies.


Assuntos
Cordoma , Proteínas Fetais , Fatores de Transcrição , Humanos , Fatores de Transcrição/metabolismo , Cordoma/tratamento farmacológico , Cordoma/metabolismo , Cordoma/patologia , Afatinib , Proteínas com Domínio T/metabolismo
2.
Phys Rev Lett ; 131(5): 052503, 2023 Aug 04.
Artigo em Inglês | MEDLINE | ID: mdl-37595241

RESUMO

Potassium-40 is a widespread, naturally occurring isotope whose radioactivity impacts subatomic rare-event searches, nuclear structure theory, and estimated geological ages. A predicted electron-capture decay directly to the ground state of argon-40 has never been observed. The KDK (potassium decay) collaboration reports strong evidence of this rare decay mode. A blinded analysis reveals a nonzero ratio of intensities of ground-state electron-captures (I_{EC^{0}}) over excited-state ones (I_{EC^{*}}) of I_{EC^{0}}/I_{EC^{*}}=0.0095±[over stat]0.0022±[over sys]0.0010 (68% C.L.), with the null hypothesis rejected at 4σ. In terms of branching ratio, this signal yields I_{EC^{0}}=0.098%±[over stat]0.023%±[over sys]0.010%, roughly half of the commonly used prediction, with consequences for various fields [27L. Hariasz et al., companion paper, Phys. Rev. C 108, 014327 (2023)PRVCAN2469-998510.1103/PhysRevC.108.014327].

3.
J Phys Chem A ; 127(2): 450-456, 2023 Jan 19.
Artigo em Inglês | MEDLINE | ID: mdl-36606694

RESUMO

The competing pathways in the photodissociation of gaseous ethylketene at excitation wavelengths of 320.0, 340.0, and 355.1 nm were studied using photofragment translational energy spectroscopy. The primary dissociation channel was C═C bond fission producing ethylcarbene (CH3CH2CH; also known as propylidene) and CO. Product translational energy distributions are consistent with theoretical predictions that ground state ethylcarbene lies ∼34 kJ/mol higher in energy than its isomer dimethylcarbene (CH3CCH3). A second dissociation channel involved direct formation of propene prior to or concurrent with CO elimination. The measured product branching ratios indicate that the effective potential energy barrier for the direct propene channel lies below the energetic threshold for ethylcarbene formation. A minor C-C bond fission channel was also observed, leading to CH3 + CH2CHCO products. Comparisons are made to the results of our recent studies of methylketene and dimethylketene photodissociation.

4.
Mol Psychiatry ; 26(7): 2776-2804, 2021 07.
Artigo em Inglês | MEDLINE | ID: mdl-33828235

RESUMO

Mood disorders (depression, bipolar disorders) are prevalent and disabling. They are also highly co-morbid with other psychiatric disorders. Currently there are no objective measures, such as blood tests, used in clinical practice, and available treatments do not work in everybody. The development of blood tests, as well as matching of patients with existing and new treatments, in a precise, personalized and preventive fashion, would make a significant difference at an individual and societal level. Early pilot studies by us to discover blood biomarkers for mood state were promising [1], and validated by others [2]. Recent work by us has identified blood gene expression biomarkers that track suicidality, a tragic behavioral outcome of mood disorders, using powerful longitudinal within-subject designs, validated them in suicide completers, and tested them in independent cohorts for ability to assess state (suicidal ideation), and ability to predict trait (future hospitalizations for suicidality) [3-6]. These studies showed good reproducibility with subsequent independent genetic studies [7]. More recently, we have conducted such studies also for pain [8], for stress disorders [9], and for memory/Alzheimer's Disease [10]. We endeavored to use a similar comprehensive approach to identify more definitive biomarkers for mood disorders, that are transdiagnostic, by studying mood in psychiatric disorders patients. First, we used a longitudinal within-subject design and whole-genome gene expression approach to discover biomarkers which track mood state in subjects who had diametric changes in mood state from low to high, from visit to visit, as measured by a simple visual analog scale that we had previously developed (SMS-7). Second, we prioritized these biomarkers using a convergent functional genomics (CFG) approach encompassing in a comprehensive fashion prior published evidence in the field. Third, we validated the biomarkers in an independent cohort of subjects with clinically severe depression (as measured by Hamilton Depression Scale, (HAMD)) and with clinically severe mania (as measured by the Young Mania Rating Scale (YMRS)). Adding the scores from the first three steps into an overall convergent functional evidence (CFE) score, we ended up with 26 top candidate blood gene expression biomarkers that had a CFE score as good as or better than SLC6A4, an empirical finding which we used as a de facto positive control and cutoff. Notably, there was among them an enrichment in genes involved in circadian mechanisms. We further analyzed the biological pathways and networks for the top candidate biomarkers, showing that circadian, neurotrophic, and cell differentiation functions are involved, along with serotonergic and glutamatergic signaling, supporting a view of mood as reflecting energy, activity and growth. Fourth, we tested in independent cohorts of psychiatric patients the ability of each of these 26 top candidate biomarkers to assess state (mood (SMS-7), depression (HAMD), mania (YMRS)), and to predict clinical course (future hospitalizations for depression, future hospitalizations for mania). We conducted our analyses across all patients, as well as personalized by gender and diagnosis, showing increased accuracy with the personalized approach, particularly in women. Again, using SLC6A4 as the cutoff, twelve top biomarkers had the strongest overall evidence for tracking and predicting depression after all four steps: NRG1, DOCK10, GLS, PRPS1, TMEM161B, GLO1, FANCF, HNRNPDL, CD47, OLFM1, SMAD7, and SLC6A4. Of them, six had the strongest overall evidence for tracking and predicting both depression and mania, hence bipolar mood disorders. There were also two biomarkers (RLP3 and SLC6A4) with the strongest overall evidence for mania. These panels of biomarkers have practical implications for distinguishing between depression and bipolar disorder. Next, we evaluated the evidence for our top biomarkers being targets of existing psychiatric drugs, which permits matching patients to medications in a targeted fashion, and the measuring of response to treatment. We also used the biomarker signatures to bioinformatically identify new/repurposed candidate drugs. Top drugs of interest as potential new antidepressants were pindolol, ciprofibrate, pioglitazone and adiphenine, as well as the natural compounds asiaticoside and chlorogenic acid. The last 3 had also been identified by our previous suicidality studies. Finally, we provide an example of how a report to doctors would look for a patient with depression, based on the panel of top biomarkers (12 for depression and bipolar, one for mania), with an objective depression score, risk for future depression, and risk for bipolar switching, as well as personalized lists of targeted prioritized existing psychiatric medications and new potential medications. Overall, our studies provide objective assessments, targeted therapeutics, and monitoring of response to treatment, that enable precision medicine for mood disorders.


Assuntos
Transtornos do Humor , Farmacogenética , Medicina de Precisão , Reposicionamento de Medicamentos , Humanos , Transtornos do Humor/tratamento farmacológico , Transtornos do Humor/genética , Reprodutibilidade dos Testes , Medição de Risco
5.
Surg Endosc ; 36(11): 8509-8514, 2022 11.
Artigo em Inglês | MEDLINE | ID: mdl-36109359

RESUMO

BACKGROUND: Implementation of the Fundamentals of Laparoscopic Surgery (FLS) by the Society of American Gastrointestinal and Endoscopic Surgeons (SAGES) has served a need for educational structure for laparoscopic skill within General Surgery training since 2004. This study looks at how FLS affects resident self-efficacy (SE) with laparoscopic procedures. METHODS: We conducted a national survey, linked to the 2020 American Board of Surgery In-Training Examination (ABSITE), in which 9275 residents from 325 US General Surgery Training Programs participated. The online survey included multimodal questions that analyzed whether participants felt they could perform the most commonly-logged laparoscopic operations among residents [Laparoscopic Appendectomy (LA), Laparoscopic Cholecystectomy (LC), Laparoscopic Right Hemicolectomy (LRH), Diagnostic Laparoscopy (DL)] without faculty assistance. This used a 5-point scaled assessment, ranging from "not able to" to "definitely able to." Multivariate analyses determined if completion of FLS made a difference for resident self-efficacy, stratified by post-graduate year (PGY). RESULTS: At the time of the survey, 2300 reported completion of FLS. The percentage of FLS completion increased from PGY1 to PGY5 (4.2% n = 59 vs 85.8% n = 893). PGY1 residents who completed FLS, from 48 diverse institutions, demonstrated the most significant increases in SE (p < 0.05) with significantly higher perceived self-efficacy in LA (p = 0.001) and LRH (p = 0.012). PGY2 and PGY3 residents indicated increased SE in DL (p = 0.037, p = 0.015, respectively), based on FLS completion. These FLS effects were less evident in the more senior classes. CONCLUSIONS: Completion of FLS arguably has the greatest benefits for more junior residents, as it establishes a foundation of laparoscopic knowledge and skill, upon which further residency training can build. Successful completion of the curriculum and assessment offered by the Fundamentals of Laparoscopic Surgery leads to greater sense of ability in early trainees.


Assuntos
Cirurgia Geral , Internato e Residência , Laparoscopia , Humanos , Estados Unidos , Competência Clínica , Autoeficácia , Laparoscopia/educação , Currículo , Cirurgia Geral/educação
6.
J Phys Chem A ; 125(32): 6940-6948, 2021 Aug 19.
Artigo em Inglês | MEDLINE | ID: mdl-34369788

RESUMO

Highly reactive carbenes are usually produced by photolysis of ketenes, diazoalkanes, or diazirines. Sequential kinetic pathways for deactivation of nascent carbenes usually involve bimolecular reactions in competition with isomerization producing stable products such as alkenes. However, the direct photolytic production of stable products, effectively bypassing formation of free carbenes, has been postulated for over 50 years but remains very poorly understood. Often termed "rearrangement in the excited state" (RIES), examples include 1,2-hydrogen migration within photoexcited carbene precursors yielding alkenes and the Wolff rearrangement in photogenerated carbonyl-substituted carbenes producing ketenes. In this study, the two competing CO elimination channels from photoexcited gaseous dimethylketene, producing dimethylcarbene and propene, were studied as a function of electronic excitation energy, under collision-free conditions, by using photofragment translational energy spectroscopy with vacuum ultraviolet photoionization of the products. A significant fraction of the dimethylcarbene → propene isomerization exothermicity (∼300 kJ/mol) was released as propene + CO translational energy, indicating that propene is formed prior to or concurrent with CO elimination. An increase in the propene yield with increasing excitation energy suggests that the effective potential energy barrier for this channel lies ∼24 kJ/mol above the energetic threshold for dimethylcarbene formation via C═C bond fission. Possible mechanisms for direct propene elimination are discussed in light of the observed energy dependence for the competing pathways.

7.
Clin Exp Immunol ; 200(2): 185-198, 2020 05.
Artigo em Inglês | MEDLINE | ID: mdl-31951011

RESUMO

The humanized NOD/SCID/IL-2 receptor γ-chainnull (NSG) mouse model has been widely used for the study of HIV pathogenesis. Here, NSG mice with transgenic expression of human stem cell factor (SCF), granulocyte-macrophage colony-stimulating factor (GM-CSF) and interleukin (IL)-3 (NSG-SGM3) were injected with peripheral blood leukocytes (PBL mice) from two HIV-infected (HIV+ ) patients who were under anti-retroviral therapy (ART; referred as HIV+ mice) or one HIV-seronegative healthy volunteer (HIV- ). Such mice are either hu-PBL-NSG-SGM3 HIV+ or HIV- mice, depending on the source of PBL. The kinetics of HIV replication and T cell responses following engraftment were evaluated in peripheral blood and secondary lymphoid tissues. High HIV replication and low CD4 : CD8 ratios were observed in HIV+ mice in the absence of anti-retroviral therapy (ART). Consistent with high activation and skewed differentiation of T cells from the HIV-infected donor, HIV+ mice exhibited a higher T cell co-expression of human leukocyte antigen D-related (HLA-DR) and CD38 than HIV- mice, as well as a shifted differentiation to a CCR7- CD45RA+ terminal effector profile, even in the presence of ART. In addition, HIV replication and the activation/differentiation disturbances of T cells were associated with decreased plasma levels of IL-17A. Thus, this hu-PBL-NSG-SGM3 mouse model recapitulates some immune disturbances occurring in HIV-infected patients, underlying its potential use for studying pathogenic events during this infection.


Assuntos
Diferenciação Celular/imunologia , Infecções por HIV/imunologia , HIV-1/fisiologia , Interleucina-17/imunologia , Linfócitos T/imunologia , Replicação Viral/imunologia , Animais , Relação CD4-CD8 , Modelos Animais de Doenças , Infecções por HIV/patologia , Humanos , Camundongos , Camundongos Endogâmicos NOD , Camundongos SCID , Linfócitos T/patologia
8.
Phys Chem Chem Phys ; 22(46): 27338-27347, 2020 Dec 07.
Artigo em Inglês | MEDLINE | ID: mdl-33231219

RESUMO

The 266 nm photodissociation dynamics of 1-iodopropane and 2-iodopropane were studied using photofragment translational energy spectroscopy using vacuum ultraviolet (VUV) photoionization and electron impact ionization detection of products. The photochemistry of 1-iodopropane was found to be similar to that of iodomethane and iodoethane, with dominant production of I*(2P1/2), and no evidence (<0.21%) for HI + alkene formation. Significantly different behavior was observed for 2-iodopropane, with dominant production of ground state I(2P3/2), and a HI yield >10.5%. The anisotropy (ß) parameters for all channels approached the limiting value of 2.0, indicating that 1,2-HI elimination occurs on subpicosecond timescales, like direct C-I bond fission, following excitation to 3Q0. The HI translational energy and angular distributions were similar to those for I(2P3/2), suggesting that motion of the heavy I atom in HI is largely derived from the repulsive nature of the 1Q1 surface correlating to R + I with the light H atom picked up by ground state I late in the exit channel producing highly vibrationally excited HI.

9.
Osteoarthritis Cartilage ; 27(5): 771-780, 2019 05.
Artigo em Inglês | MEDLINE | ID: mdl-30660722

RESUMO

OBJECTIVE: To compare sagittal walking gait biomechanics between participants with knee osteoarthritis (KOA) who increased quadriceps strength following a lower-extremity strengthening intervention (responders) and those who did not increase strength following the same strengthening protocol (non-responders) both at baseline and following the lower extremity strengthening protocol. DESIGN: Fifty-three participants with radiographic KOA (47% female, 62.3 ± 7.1 years, BMI = 28.5 ± 3.9 kg/m2) were enrolled in 10 sessions of lower extremity strengthening over a 28-day period. Maximum isometric quadriceps strength and walking gait biomechanics were collected on the involved limb at baseline and 4-weeks following the strengthening intervention. Responders were classified as individuals who increased quadriceps strength greater than the upper limit of the 95% confidence interval (CI) for the minimal detectable change (MDC) in quadriceps strength (29 Nm) determined in a previous study. 2 × 2 functional analyses of variance were used to evaluate the effects of group (responders and non-responders) and time (baseline and 4-weeks) on time-normalized waveforms for knee flexion angle (KFA), vertical ground reaction force (vGRF), and internal knee extension moment (KEM). RESULTS: A significant group x time interaction for KFA demonstrated greater KFA in the first half of stance at baseline and greater knee extension in the second half of stance at 4-weeks in responders compared to non-responders. There was no significant group x time interaction for vGRF or internal KEM. CONCLUSIONS: Quadriceps strengthening may be used to stimulate small changes in KFA in individuals with KOA.


Assuntos
Marcha/fisiologia , Força Muscular/fisiologia , Osteoartrite do Joelho/reabilitação , Músculo Quadríceps/fisiopatologia , Treinamento Resistido/métodos , Adulto , Idoso , Fenômenos Biomecânicos/fisiologia , Avaliação da Deficiência , Feminino , Humanos , Articulação do Joelho/fisiopatologia , Masculino , Pessoa de Meia-Idade , Osteoartrite do Joelho/fisiopatologia , Medição da Dor/métodos , Amplitude de Movimento Articular/fisiologia , Suporte de Carga/fisiologia
10.
Microsc Microanal ; 29(29 Suppl 1): 2123-2124, 2023 Jul 22.
Artigo em Inglês | MEDLINE | ID: mdl-37612903
11.
Biochemistry ; 56(41): 5512-5525, 2017 10 17.
Artigo em Inglês | MEDLINE | ID: mdl-28929747

RESUMO

Carboxylesterase (CBE)-mediated metabolic resistance to organophosphate and carbamate insecticides is a major problem for the control of insect disease vectors, such as the mosquito. The most common mechanism involves overexpression of CBEs that bind to the insecticide with high affinity, thereby sequestering them before they can interact with their target. However, the absence of any structure for an insecticide-sequestering CBE limits our understanding of the molecular basis for this process. We present the first structure of a CBE involved in sequestration, Cqestß21, from the mosquito disease vector Culex quinquefasciatus. Lysine methylation was used to obtain the crystal structure of Cqestß21, which adopts a canonical α/ß-hydrolase fold that has high similarity to the target of organophosphate and carbamate insecticides, acetylcholinesterase. Sequence similarity networks of the insect carboxyl/cholinesterase family demonstrate that CBEs associated with metabolic insecticide resistance across many species share a level of similarity that distinguishes them from a variety of other classes. This is further emphasized by the structural similarities and differences in the binding pocket and active site residues of Cqestß21 and other insect carboxyl/cholinesterases. Stopped-flow and steady-state inhibition studies support a major role for Cqestß21 in organophosphate resistance and a minor role in carbamate resistance. Comparison with another isoform associated with insecticide resistance, Cqestß1, showed both enzymes have similar affinity to insecticides, despite 16 amino acid differences between the two proteins. This provides a molecular understanding of pesticide sequestration by insect CBEs and could facilitate the design of CBE-specific inhibitors to circumvent this resistance mechanism in the future.


Assuntos
Carboxilesterase/metabolismo , Culex/enzimologia , Proteínas de Insetos/metabolismo , Inseticidas/metabolismo , Modelos Moleculares , Substituição de Aminoácidos , Animais , Sítios de Ligação , Carbamatos/química , Carbamatos/metabolismo , Carboxilesterase/química , Carboxilesterase/genética , Domínio Catalítico , Cristalografia por Raios X , Proteínas de Insetos/química , Proteínas de Insetos/genética , Inseticidas/química , Cinética , Ligantes , Conformação Molecular , Mutação , Organofosfatos/química , Organofosfatos/metabolismo , Filogenia , Conformação Proteica , Dobramento de Proteína , Proteínas Recombinantes/química , Proteínas Recombinantes/metabolismo , Especificidade da Espécie , Umbeliferonas/química , Umbeliferonas/metabolismo
12.
Osteoarthritis Cartilage ; 25(6): 907-913, 2017 06.
Artigo em Inglês | MEDLINE | ID: mdl-28043940

RESUMO

OBJECTIVE: To determine the magnitude of medial femoral cartilage deformation using ultrasonography (US) following walking and running in healthy individuals. DESIGN: Twenty-five healthy participants with no history of osteoarthritis or knee injury volunteered for this study. Medial femoral cartilage thickness was assessed using US before and after three separate 30-min loading conditions: (1) walking at a self-selected speed, (2) running at a self-selected speed, and (3) sitting on a treatment table (i.e., control). Cartilage deformation was calculated as the percent change score from pre to post loading in each loading condition. The magnitude of cartilage deformation was compared between the three loading conditions. RESULTS: There was no difference in baseline cartilage thickness between the three sessions (F1,24 = 0.18, P = 0.68). Cartilage deformation was different between the loading conditions (F1,24 = 47.54, P < 0.001). The walking (%Δ = -6.7, t24 = 6.90, P < 0.001, d = -1.92) and running (%Δ = -8.9, t24 = 8.14, P < 0.001, d = -1.85) conditions resulted in greater cartilage deformation when compared to the control condition (%Δ = +3.4). There was no difference in cartilage deformation between the running and walking conditions (t24 = 1.10, P = 0.28, d = 0.33). US measured medial femoral cartilage thickness demonstrated reliability and precision within a single session (ICC2,k = 0.966, SEM = 0.07 mm) and between additional sessions separated by seven (ICC2,k = 0.964, SEM = 0.08 mm) and 16 days (ICC2,k = 0.919, SEM = 0.11 mm). CONCLUSIONS: US demonstrated to be a reliable and sensitive imaging modality at quantifying medial femoral cartilage deformation in healthy individuals. Both walking and running conditions created greater cartilage deformation when compared to the control conditions, but no difference was observed between the walking and running conditions.


Assuntos
Cartilagem Articular/diagnóstico por imagem , Articulação do Joelho/diagnóstico por imagem , Corrida/fisiologia , Caminhada/fisiologia , Suporte de Carga/fisiologia , Cartilagem Articular/patologia , Cartilagem Articular/fisiologia , Feminino , Voluntários Saudáveis , Humanos , Articulação do Joelho/fisiologia , Masculino , Tamanho do Órgão , Ultrassonografia , Adulto Jovem
13.
Colorectal Dis ; 2017 Nov 14.
Artigo em Inglês | MEDLINE | ID: mdl-29136319

RESUMO

We read with interest the article by Albayati et al published recently.1 There is a sparsity of long term data in use of biological mesh in laparoscopy rectopexy for the treatment of rectal prolapse. We appreciate the efforts made by Albayati et al in this study and note the homogeneous population in terms of gender, age and BMI. This article is protected by copyright. All rights reserved.

14.
J Musculoskelet Neuronal Interact ; 16(1): 45-57, 2016 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-26944823

RESUMO

OBJECTIVE: To investigate whether osteocytic connexin 43 (Cx43) is required for the bone response to intermittent PTH administration, and whether the connexin is involved in maintaining the bone matrix. METHODS: Human PTH(1-34) was injected to adult male mice expressing (Cx43(fl/fl)) or not osteocytic Cx43 (Cx43(fl/fl);DMP1-8kb-Cre) daily (100 µg/kg/d) for 14 days. RESULTS: Cx43(fl/fl);DMP1-8kb-Cre mice have no difference in body weight and BMD from 1 to 4 months of age. Intermittent PTH administration increased BMD and BV/TV and induced a similar increase in type I collagen, alkaline phosphatase, runx2, osteocalcin, and bone sialoprotein expression in mice from both genotypes. On the other hand, osteocytic deletion of Cx43 did not alter mRNA levels of glycosaminoglycans, proteoglycans, collagens and osteoblast-related genes. In addition, expression of collagens assessed by immunohistochemistry was not affected by deleting osteocytic Cx43. However, PTH administration increased type II collagen only in Cx43(fl/fl) control mice, whereas hormone increased type I collagen expression only in Cx43(fl/fl);DMP1-8kb-Cre mice. Furthermore, PTH increased maturity of collagen fibers in control, but not in Cx43-deficient mice. CONCLUSION: Expression of Cx43 in osteocytes is dispensable for bone anabolism induced by intermittent PTH administration; but it can modulate, at least in part, the effect of PTH on the bone matrix environment.


Assuntos
Densidade Óssea/efeitos dos fármacos , Osso e Ossos/metabolismo , Conexina 43/metabolismo , Osteogênese/efeitos dos fármacos , Hormônio Paratireóideo/farmacologia , Absorciometria de Fóton , Animais , Osso e Ossos/efeitos dos fármacos , Humanos , Imuno-Histoquímica , Masculino , Camundongos , Camundongos Mutantes , Osteoblastos/metabolismo , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Microtomografia por Raio-X
15.
Appl Environ Microbiol ; 81(7): 2612-24, 2015 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-25636851

RESUMO

The amidohydrolase superfamily has remarkable functional diversity, with considerable structural and functional annotation of known sequences. In microbes, the recent evolution of several members of this family to catalyze the breakdown of environmental xenobiotics is not well understood. An evolutionary transition from binuclear to mononuclear metal ion coordination at the active sites of these enzymes could produce large functional changes such as those observed in nature, but there are few clear examples available to support this hypothesis. To investigate the role of binuclear-mononuclear active-site transitions in the evolution of new function in this superfamily, we have characterized two recently evolved enzymes that catalyze the hydrolysis of the synthetic herbicides molinate (MolA) and phenylurea (PuhB). In this work, the crystal structures, mutagenesis, metal ion analysis, and enzyme kinetics of both MolA and PuhB establish that these enzymes utilize a mononuclear active site. However, bioinformatics and structural comparisons reveal that the closest putative ancestor of these enzymes had a binuclear active site, indicating that a binuclear-mononuclear transition has occurred. These proteins may represent examples of evolution modifying the characteristics of existing catalysts to satisfy new requirements, specifically, metal ion rearrangement leading to large leaps in activity that would not otherwise be possible.


Assuntos
Amidoidrolases/química , Amidoidrolases/metabolismo , Azepinas/metabolismo , Bactérias/enzimologia , Bactérias/genética , Diurona/metabolismo , Herbicidas/metabolismo , Tiocarbamatos/metabolismo , Amidoidrolases/genética , Biotransformação , Domínio Catalítico , Coenzimas/análise , Biologia Computacional , Cristalografia por Raios X , Análise Mutacional de DNA , Evolução Molecular , Hidrólise , Cinética , Metais/análise , Modelos Moleculares , Conformação Proteica
16.
Langmuir ; 30(43): 12743-7, 2014 Nov 04.
Artigo em Inglês | MEDLINE | ID: mdl-25285478

RESUMO

Replacing sodium with cesium as the counterion for dodecyl sulfate in aqueous solution results in stronger complexation and charge shielding, which should lead to larger micelles and ultimately to a cylindrical structure (cf. spheres for sodium dodecyl sulfate), but small angle X-ray scattering (SAXS) and small angle neutron scattering patterns previously have been interpreted with ellipsoidal micelle models. We directly image CsDS micelles via cryo-transmission electron microscopy and report large core-shell spherical micelles at low concentrations (≤2 wt %) and cylindrical micelles at higher concentrations (5.0 and 8.1 wt %). These structures are shown to be consistent with SAXS patterns modeled using established form factors. These findings highlight the importance of combining real and reciprocal space imaging techniques in the characterization of self-assembled soft materials.

17.
Phys Chem Chem Phys ; 15(35): 14566-80, 2013 Sep 21.
Artigo em Inglês | MEDLINE | ID: mdl-23896984

RESUMO

This article describes recent progress on the development and application of pulsed high-intensity (~0.1 mJ per pulse) vacuum-ultraviolet (VUV) radiation produced by commercial tabletop lasers for studies of gas phase chemical reaction dynamics involving polyatomic free radicals. Our approach employs near-triply resonant four-wave mixing of unfocussed nanosecond dye lasers in an atomic gas as an alternative to the use of synchrotron light sources for sensitive universal soft photoionization detection of reaction products using a rotatable source crossed molecular beams apparatus with fixed detector. We illustrate this approach in studies of the reactions of phenyl radicals with molecular oxygen and with propene. Future prospects for the use of tabletop laser-based VUV sources for studies of chemical reaction dynamics are discussed.

18.
J Phys Chem A ; 117(51): 13967-75, 2013 Dec 27.
Artigo em Inglês | MEDLINE | ID: mdl-24325333

RESUMO

The reactions of phenyl radicals with propene have been studied at collision energies of 84 and 108 kJ/mol using the crossed molecular beams technique. The branching ratios between methyl radical elimination forming C8H8 and H-atom elimination forming C9H10 were found to be 10 ± 1:1 at 84 kJ/mol and 3 ± 1:1 at 108 kJ/mol. By using "soft" 9.9 eV vacuum ultraviolet photoionization for product detection, we were able to observe both product channels with negligible fragmentation of C9H10 to C8H8(+). Our finding that CH3 elimination is dominant is consistent with conclusions from a recent study employing a pyrolysis molecular beam reactor using photoionization detection. However, our C8H8/C9H10 branching ratios are significantly larger than inferred from previous CMB experiments and RRKM calculations. For comparison, we have also studied the reactions of phenyl radicals with trans-2-butene at Ecoll = 97 kJ/mol. In this case, the symmetry of trans-2-butene makes both alkene addition sites chemically equivalent. The intermediate formed in the reaction with trans-2-butene is similar to the 2-carbon addition intermediate in the reaction with propene. We observed only methyl elimination in the reaction with trans-2-butene, with no evidence for H-atom elimination, consistent with conclusions that C-C bond fission is the most favorable channel in these systems. Analogies between phenyl radical reactions with propene and trans-2-butene are used to provide insight into the mechanisms in the propene reaction.

19.
J Phys Chem A ; 116(14): 3508-13, 2012 Apr 12.
Artigo em Inglês | MEDLINE | ID: mdl-22468784

RESUMO

The reactions of neutral ground-state yttrium (Y) atoms with 1,3- and 1,4-cyclohexadiene (CHD) were studied using crossed molecular beams. Formation of YC(6)H(6) + H(2) and YH(2) + C(6)H(6) was observed for both isomers at collision energies (E(coll)) of 31.3 and 13.0 kcal/mol. Measured product branching ratios at E(coll) = 31.3 kcal/mol indicated that YH(2) + C(6)H(6) was the dominant channel, accounting for >97% of the products. An additional minor product channel, YC(4)H(4) + C(2)H(4), was observed for 1,3-CHD at the higher E(coll). The reaction threshold for YC(4)H(4) formation was determined to be 29.5 ± 2.0 kcal/mol based on fits to the data.

20.
J Phys Chem A ; 116(21): 5039-44, 2012 May 31.
Artigo em Inglês | MEDLINE | ID: mdl-22563649

RESUMO

The photodissociation dynamics of CpCo(CO)(2) was studied in a molecular beam using photofragment translational energy spectroscopy with 157 nm photoionization detection of the metallic products. At 532 and 355 nm excitation, the dominant one-photon channel involved loss of a single CO ligand producing CpCoCO. The product angular distributions were isotropic, and a large fraction of excess energy appeared as product vibrational excitation. Production of CpCO + 2CO resulted from two-photon absorption processes. The two-photon dissociation of mixtures containing CpCo(CO)(2) and H(2) at the orifice of a pulsed nozzle was used to produce a novel 16-electron unsaturated species, CpCoH(2). Transition metal ligand exchange reactions, CpCoH(2) + L → CpCoL + H(2) (L = propyne, propene, or ammonia), were studied under single-collision conditions for the first time. In all cases, ligand exchange occurred via 18-electron association complexes with lifetimes comparable to their rotational periods. Although ligand exchange reactions were not detected from CpCoH(2) collisions with methane or propane (L = CH(4) or C(3)H(8)), a molecular beam containing CpCoCH(4) was produced by photolysis of mixtures containing CpCo(CO)(2) and CH(4).

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