Papilomavírus (PVs) são vírus amplamente estudados, sendo enfatizada sua capacidade de infectar os tecidos epitelial e mucoso em diversos animais, incluindo humanos, causando lesões benignas que podem, ocasionalmente, resultar em câncer. Dentre os gêneros que infectam animais, os Deltapapillomavirus têm uma importância veterinária, ecológica e histórica, pois são capazes de infectar seu hospedeiro natural e outros animais. Por isso, esse trabalho contempla todos os tipos virais pertencentes aos Delta-PVs, incluindo sua história. Dentre as proteínas traduzidas pelos PVs, três são consideradas proteínas oncogênicas: E5, E6 e E7. Determinar a estrutura de uma proteína é crucial para a elucidação da sua função, possibilitando aplicações nas áreas de engenharia de proteínas, anotação genômica e desenho racional de fármacos. A estrutura tridimensional da proteína E6 de cada tipo viral pertencente ao gênero Deltapapillomavirus foi determinada por modelagem molecular por homologia. A história evolutiva dessas proteínas foi avaliada com base na geração de árvores filogenéticas e suas propriedades físico-químicas foram analisadas. Além disso, devido ao seu alto grau de conservação, a E6 demonstrou ser útil como um marcador molecular. Apesar de serem consideradas raras, foram observadas lesões papilomatosas em carneiros em uma fazenda do estado de São Paulo. Foi realizado o diagnóstico molecular dessas lesões. Os resultados mostraram pela primeira vez no mundo que, apesar de serem ovinos, o agente causador da papilomatose era um papilomavírus bovino, o BPV2, um Delta-PV. Logo, além de discutir os Delta-PVs, esta tese demonstra na prática a habilidade desse gênero em romper a barreira espécie-específica. / Papillomaviruses (PVs) are widely studied viruses, emphasizing their ability to infect the epithelial and mucosal tissues in several animals, including humans, causing benign lesions that may occasionally result in cancer. Among the genera that infect animals, Deltapapillomaviruses have a veterinary, ecological and historical importance because they are capable of infecting their natural host and other animals. Therefore, this work contemplates all viral types belonging to the Delta-PVs, including their history. Among the proteins translated by the PVs, three of them are considered oncogenic proteins: E5, E6 and E7. Determining the structure of a protein is crucial to the elucidation of its function, allowing applications in the areas of protein engineering, genomic annotation and rational design of drugs. The three-dimensional structure of the E6 protein of each viral type belonging to the genus Deltapapillomavirus was determined by molecular modeling by homology. The evolutionary history of these proteins was evaluated based on the generation of phylogenetic trees and their physicochemical properties were analyzed. In addition, due to its high degree of conservation, E6 has been shown to be useful as a molecular marker. Despite being considered rare, papillomas lesions were observed in sheep on a farm in the state of São Paulo. The molecular diagnosis of these lesions was performed. The results showed for the first time in the world that, despite being ovines, the causative agent of papillomatosis was a bovine papillomavirus, BPV2, a Delta-PV. Thus, in addition to discussing Delta-PVs, this thesis demonstrates in practice the ability of this genre to break the species-specific barrier.

Domínio proteico é uma sequência de aminoácidos evolutivamente conservada e funcionalmente independente. Um dos aspectos mais importantes do estudo de uma proteína que contem múltiplos domínios é o entendimento da comunicação, entre os diferentes domínios, e seu papel biológico. Essa comunicação em maior parte é feita pela interação direta entre domínios. A interação poderia ser tratada como uma clássica interação proteína-proteína. Entretanto, proteínas multidomínio possuem restrições determinadas por suas regiões conectoras. Os conectores interdomínio impõem restrições e limitam espaço conformacional dos domínios. Apresentamos aqui o MAD, uma rotina capaz de obter modelos tridimensionais de alta resolução para proteínas, contendo qualquer número de domínios, a partir de sua sequencia primária. Os domínios conservados são identificados utilizando a base de domínios conservados (CDD) e seus limites são utilizados para definir as regiões conectoras. É criado um ensamble de possíveis dobramentos dos conectores e sua distribuição de distâncias C/N-terminais são utilizadas como restrição espacial na busca pela interação entre os domínios.Os modelos dos domínios são obtidos por uma modelagem comparativa. Foi implementada uma heurística, capaz de lidar com a natureza combinatorial dos múltiplos domínios e com a necessidade imposta pela limitação computacional de realizar o docking dos domínios em forma de pares. Todas combinações de domínios são submetidas as rotinas de docking. Aplica-se filtro de distância e energético, excluindo as conformações que apresentam distância C/N-terminal entre domínios maior do que o valor máximo observado no ensamble de conectores e seleciona as conformações energeticamente mais favoráveis. As conformações são submetidas a uma rotina de agrupamento hierárquico baseada em sua similaridade estrutural. Para a segunda fase as conformações selecionadas são pareadas com seu domínio complementar e ressubmetidas a rotina de docking até que todas as fases tenham sido completadas. Foi criado um conjunto de testes a partir do Protein Data Bank contendo 54 proteínas multidomínio para que a rotina de docking do MAD fosse comparada com outros softwares utilizados pela comunidade cientifica, mostrou-se superior ou equivalente aos métodos testados. A capacidade de utilizar dados experimentais foi demostrada através da proposição de um modelo da forma ativa da enzima tirosina fosfatase 2, nunca observado experimentalmente. A rotina de docking foi expandida paralelamente em uma aplicação standalone e utilizada na resolução de diversos problemas biológicos. Concluímos que a inovação metodológica proposta pelo MAD é de grande valia para a modelagem molecular e tem potencial de gerar uma nova perspectiva a respeito da interação de proteína multidomínio, visto que é possível analisar essas proteínas em sua plenitude e não como domínios separados. / Protein domain is an evolutionary conserved and functionally independent amino acid sequence. One of the most important aspects of the study of a protein that contains multiple domains is the understanding of communication between the different areas, and their biological role. This communication is made mostly by direct interaction between domains. The interaction could be treated as a classical protein-protein interaction. However, multidomain proteins have certain restrictions for its connector regions. The intra connectors impose restrictions and limit conformational space of the domains. We present the MAD, a routine able to get three-dimensional models of high-resolution protein, containing any number of domains, from its primary sequence. The conserved domains are identified using the basic conserved domains database (CDD) and its boundaries are used to define the connector regions. This creates a ensemble of possible folding of the connectors and distribution of distances C/N-terminals are used as spatial restriction in the search for interaction between domains.Os models of the domains are obtained by comparative modelling. A heuristic able to handle the combinatorial nature of the multiple areas and the need imposed by the computer to perform the limitation of the docking areas as pairs was implemented. All combinations of domains are referred to the docking routines. Distance and energy filters are applied, excluding conformations that have C/N-terminal domains distances larger than the maximum value observed in the connectors ensemble and selects the most favourable energy conformations. Conformations are subjected to hierarchical clustering routine based on their structural similarity. For the second phase, the selected conformations are paired with its complementary domain and resubmitted to the docking routine until all phases have been completed. A test set has been created from the Protein Data Bank containing 54 multidomain proteins so that the docking routine of MAD could be compared with other software used by the scientific community, it has been shown to be superior or equivalent to the tested methods. The ability to use experimental data was demonstrated by proposing a model of the active form of tyrosine phosphatase enzyme 2, never observed experimentally. The docking routine was expanded in a standalone application and used in solving various biological problems. We conclude that the methodological innovation proposed by the MAD is very useful for molecular modelling and has the potential to generate a new perspective on multidomain protein interaction as you can analyse these proteins in its entirety and not as separate domains.

Submitted by Sandra Pereira (srpereira@ufrrj.br) on 2017-08-29T13:03:42Z No. of bitstreams: 1 2009 - Suzana Vieira da Silva.pdf: 1145565 bytes, checksum: cb8b708d2e722a6ccc8d9c091be5270f (MD5) / Made available in DSpace on 2017-08-29T13:03:42Z (GMT). No. of bitstreams: 1 2009 - Suzana Vieira da Silva.pdf: 1145565 bytes, checksum: cb8b708d2e722a6ccc8d9c091be5270f (MD5) Previous issue date: 2009-06-12 / Coordena??o de Aperfei?oamento de Pessoal de N?vel Superior. CAPES / The Evil of Alzheimer is a disease neurodegenerativa that reaches to the cognitive functions among them the memory, attention and learning. The main strategy used for his/her treatment is addressed in the search of improving the hipofun??o colin?rgica, inhibiting the enzyme acetylcholinesterase, so that the acetylcholine can stay more available in the rift sin?ptica for the accomplishments of the sinapses, since this enzyme has the hidrolisar function the acetylcholine. The nature offers an enormous variety of substances used as f?rmacos and the sea sponges has been demonstrating be rich in these substances. They were extracted of the sponge Plakortis angulospiculatus three polyketides that through the method Ellman demonstrated activity anticolinester?sica. Through techniques of Molecular Modelling, calculations semiempiricos were accomplished using the method PM3 to analyze the geometric interactions and energies involved in the compound polyketidesacetylcholinesterase with the objective of analyzing a possible use of these as f?rmacos for the Evil of Alzheimer. As if he/she didn't know the state in that the ranch would be (with Ser200 and neutral His440 or no) in the moment of the interaction, calculations were accomplished for the three polyketides in both ranches. Studies with inhibitors already known tacrina and huprina X (both neutral one and protonadas) they were also accomplished at both ranches in order to comparison. Resulted obtained he in this work showed the reliability of the employed method, likewise as values of favorable entalpia for the formation of all the compounds independent pollyketide-acetylcholinesterase of the ranch. It was observed by the energy values a preference when the same ones if they found in the ranch protonado diferencialmente of the inhibitors tacrina and huprina X that independent of his/her state (protonados or no) they showed better interaction for the neutral ranch. The calculations accomplished for the tacrina demonstrated that even after optimization the main interactions described already by the literature stayed and that possibly she meets protonada inside of the seen ranch the values of energy found for this structure. The huprina X that is a hybrid of the tacrina with the huperzina A it showed HER likewise the most significant interactions as the more favorable energy values, what is in agreement with the high constant of inhibition of 26pM found in the literature for human's acetilcolinesterase. Before the obtained data we can end that the polyketides in spite of they obtain favorable energy values the formation of the compound polyketide-acetylcholinesterase these values are not competitive with the energy values found for the inhibitors tacrina and huprina X. however, in the production of a f?rmaco they are not taken into account just energy interactions and as the tacrina it already demonstrated to possess high hepatic toxicity, besides adverse reactions as nausea and vomit, the polyketides for they be natural substance were able to in this case be competitive if they demonstrated to possess softer adverse reactions. / O Mal de Alzheimer ? uma doen?a neurodegenerativa que atinge ?s fun??es cognitivas entre elas a mem?ria, aten??o e aprendizagem. A principal estrat?gia utilizada para seu tratamento est? direcionado na busca de melhorar a hipofun??o colin?rgica, inibindo a enzima acetilcolinesterase, para que a acetilcolina possa permanecer mais dispon?vel na fenda sin?ptica para as realiza??es das sinapses, j? que esta enzima tem a fun??o de hidrolisar a acetilcolina. A natureza oferece uma enorme variedade de subst?ncias utilizadas como f?rmacos e as esponjas marinhas tem demonstrado serem ricas nestas subst?ncias. Foram extra?dos da esponja Plakortis angulospiculatus tr?s policet?deos que atrav?s do m?todo Ellman demonstraram atividade anticolinester?sica. Atrav?s de t?cnicas de Modelagem Molecular, foram realizados c?lculos semiempiricos utilizando o m?todo PM3 para analisar as intera??es geom?tricas e energias envolvidas no complexo policet?deos-acetilcolinesterase com o objetivo de analisar uma poss?vel utiliza??o destes como f?rmacos para o Mal de Alzheimer. Como n?o se conhecia o estado em que o s?tio se encontraria (com a Ser200 e His440 neutros ou n?o) no momento da intera??o, foram realizados c?lculos para os tr?s policet?deos em ambos os s?tios. Estudos com inibidores j? conhecidos tacrina e huprina X (ambas neutra e protonadas) tamb?m foram realizados em ambos os s?tios a fim de compara??o. O resultados obtidos neste trabalho mostraram a confiabilidade do m?todo empregado, assim tamb?m como valores de entalpia favor?veis para a forma??o de todos os complexos policet?deo-acetilcolinesterase independente do s?tio. Observou-se pelos valores energ?ticos uma prefer?ncia quando os mesmos se encontravam no s?tio protonado diferencialmente dos inibidores tacrina e huprina X que independente do seu estado (protonados ou n?o) mostraram melhor intera??o pelo s?tio neutro. Os c?lculos realizados para a tacrina demonstraram que mesmo ap?s otimiza??o as principais intera??es j? descritas pela literatura se mantiveram e que possivelmente ela se encontra protonada dentro do s?tio visto os valores de energia encontrados para esta estrutura. A huprina X que ? um h?brido da tacrina com a huperzina A mostrou as intera??es mais significativas assim tamb?m como os valores energ?ticos mais favor?veis, o que est? de acordo com a alta constante de inibi??o de 26pM encontrados na literatura para a acetilcolinesterase de humano. Diante dos dados obtidos podemos concluir que os policet?deos apesar de obterem valores energ?ticos favor?veis a forma??o do complexo policet?deo-acetilcolinesterase estes valores n?o s?o competitivos com os valores energ?ticos encontrados para os inibidores tacrina e huprina X. No entanto, na fabrica??o de um f?rmaco n?o s?o levados em conta apenas intera??es energ?ticas e como a tacrina j? demonstrou possuir alta toxicidade hep?tica, al?m de rea??es adversas como n?usea e v?mito, os policet?deos por serem subst?ncia naturais poderiam neste caso ser competitivos se demonstrassem possuir rea??es adversas mais brandas.

Admixtures like reactants and byproducts are solublenon-crystallizing compounds that can be present in industrialsolutions and affect crystallization of the main substance.This thesis provides experimental and molecular modellingresults on the influence of admixtures on crystal nucleation ofvanillin (VAN). Seven admixtures: acetovanillone (AVA),ethylvanillin (EVA), guaiacol (GUA), guaethol (GUE), 4-hydroxy-acetophenone (HAP), 4-hydroxy-benzaldehyde (HBA), andvanillic acid (VAC) have been used in this study. Classicalnucleation theory is used as the basis to establish arelationship between experimental induction time andsupersaturation, nucleation temperature, and interfacialenergy. A novel multicell device is designed, constructed, andused to increase the experimental efficiency in thedetermination of induction times by using 15 nucleation cellsof small volumes simultaneously. In spite of the largevariation observed in the experiments, the solid-liquidinterfacial energy for each VAN-admixture system can beestimated with an acceptable statistical confidence. At 1 mole% admixture concentration, the interfacial energy is increasedin the presence of GUA, GUE, and HBA, while it becomes lower inthe presence of the other admixtures. As the admixtureconcentration increases from 1 to 10 mole %, the interfacialenergy also increases. The interfacial energies obtained are inthe range 7-10 mJ m-2. Influence of admixtures on metastable zone widthand crystal aspect ratio of VAN is also presented. Theexperimental results show that the admixtures studied arepotential modifiers of the nucleation of VAN. Molecularmodelling by the program Cerius2 is used to identify the likelycrystal growth faces. Two approaches, the surface adsorptionand the lattice integration method, are applied to estimatequantitatively the admixture-crystal interaction energy on thedominating crystal faces of VAN,i.e., {0 0 1} and {1 0 0}. However, a simple and clearcorrelation between the experimental values of interfacialenergy and the calculated interaction energies cannot beidentified. A qualitative structural analysis reveals a certainrelationship between the molecular structure of admixtures andtheir effect on nucleation. The determination of the influenceof admixtures on nucleation is still a challenge. However, themolecular and crystal structural approach used in this thesiscan lead to an improved fundamental understanding ofcrystallization processes. Keywords: Crystallization,nucleation, vanillin, admixtures, additives, impurities,induction time, interfacial energy, molecular modelling,interaction energy.

<p>In this dissertation a novel approach to protein-ligand docking is presented. First an existing method to predict putative active sites is employed. These predictions are then used to cut down the search space of an algorithm that uses the fast Fourier transform to calculate the geometrical and electrostatic complementarity between a protein and a small organic ligand. A simplified hydrophobicity score is also calculated for each active site. The docking method could be applied either to dock ligands in a known active site or to rank several putative active sites according to their biological feasibility. The method was evaluated on a set of 310 protein-ligand complexes. The results show that with respect to docking the method with its initial parameter settings is too coarse grained. The results also show that with respect to ranking of putative active sites the method works quite well.</p>

<p>Admixtures like reactants and byproducts are solublenon-crystallizing compounds that can be present in industrialsolutions and affect crystallization of the main substance.This thesis provides experimental and molecular modellingresults on the influence of admixtures on crystal nucleation ofvanillin (VAN). Seven admixtures: acetovanillone (AVA),ethylvanillin (EVA), guaiacol (GUA), guaethol (GUE), 4-hydroxy-acetophenone (HAP), 4-hydroxy-benzaldehyde (HBA), andvanillic acid (VAC) have been used in this study. Classicalnucleation theory is used as the basis to establish arelationship between experimental induction time andsupersaturation, nucleation temperature, and interfacialenergy. A novel multicell device is designed, constructed, andused to increase the experimental efficiency in thedetermination of induction times by using 15 nucleation cellsof small volumes simultaneously. In spite of the largevariation observed in the experiments, the solid-liquidinterfacial energy for each VAN-admixture system can beestimated with an acceptable statistical confidence. At 1 mole% admixture concentration, the interfacial energy is increasedin the presence of GUA, GUE, and HBA, while it becomes lower inthe presence of the other admixtures. As the admixtureconcentration increases from 1 to 10 mole %, the interfacialenergy also increases. The interfacial energies obtained are inthe range 7-10 mJ m^-2. Influence of admixtures on metastable zone widthand crystal aspect ratio of VAN is also presented. Theexperimental results show that the admixtures studied arepotential modifiers of the nucleation of VAN. Molecularmodelling by the program Cerius2 is used to identify the likelycrystal growth faces. Two approaches, the surface adsorptionand the lattice integration method, are applied to estimatequantitatively the admixture-crystal interaction energy on thedominating crystal faces of VAN,<i>i.e</i>., {0 0 1} and {1 0 0}. However, a simple and clearcorrelation between the experimental values of interfacialenergy and the calculated interaction energies cannot beidentified. A qualitative structural analysis reveals a certainrelationship between the molecular structure of admixtures andtheir effect on nucleation. The determination of the influenceof admixtures on nucleation is still a challenge. However, themolecular and crystal structural approach used in this thesiscan lead to an improved fundamental understanding ofcrystallization processes. Keywords: Crystallization,nucleation, vanillin, admixtures, additives, impurities,induction time, interfacial energy, molecular modelling,interaction energy.</p>

The well-defined ruthenium-carbene complexes reported by Grubbs and co-workers were the first ruthenium catalysts to show good activity and selectivity in metathesis of acyclic and cyclic olefins. Unfortunately the use of the Grubbs type catalysts is limited to the small scale synthesis of polymers and essential organic reactions, due to cost and instability of the catalyst at elevated temperatures. Some of the most successful Grubbs-type catalysts included hemilabile ligands. By releasing a free coordination site (the so-called "on-demand-open-site") for an incoming nucleophile, hemilabile ligands have the ability to increase the thermal stability and activity of a catalytic system, by stabilization of the transition metal centre. Previous studies indicated that the incorporation of a sterically hindered N and 0 chelating ligand increased the stability, activity and selectivity of Grubbs type complexes and increasing the electron density of the complex can influence the stability of a complex and therefore the catalytic performance. In this study alicyclic, bidentate N and 0 chelating ligands (16-19) were modelled in order to evaluate the hemilability of these ligands. The modelling was used as a comer stone from which the synthesis was conducted. Molecular modelling showed that of the four ligands identified only two (16 and 18) could potentially be hemilabile. 17 would rather form a transaunular ether compound. The modelling results were incondusive for ligand 19 and further investigation is necessary for this compound… / Thesis (M.Sc. (Chemistry))--North-West University, Potchefstroom Campus, 2010.

The well-defined ruthenium-carbene complexes reported by Grubbs and co-workers were the first ruthenium catalysts to show good activity and selectivity in metathesis of acyclic and cyclic olefins. Unfortunately the use of the Grubbs type catalysts is limited to the small scale synthesis of polymers and essential organic reactions, due to cost and instability of the catalyst at elevated temperatures. Some of the most successful Grubbs-type catalysts included hemilabile ligands. By releasing a free coordination site (the so-called "on-demand-open-site") for an incoming nucleophile, hemilabile ligands have the ability to increase the thermal stability and activity of a catalytic system, by stabilization of the transition metal centre. Previous studies indicated that the incorporation of a sterically hindered N and 0 chelating ligand increased the stability, activity and selectivity of Grubbs type complexes and increasing the electron density of the complex can influence the stability of a complex and therefore the catalytic performance. In this study alicyclic, bidentate N and 0 chelating ligands (16-19) were modelled in order to evaluate the hemilability of these ligands. The modelling was used as a comer stone from which the synthesis was conducted. Molecular modelling showed that of the four ligands identified only two (16 and 18) could potentially be hemilabile. 17 would rather form a transaunular ether compound. The modelling results were incondusive for ligand 19 and further investigation is necessary for this compound… / Thesis (M.Sc. (Chemistry))--North-West University, Potchefstroom Campus, 2010.

Benzotriazole (BTAH) has been used as a corrosion inhibitor for copper and copper-, based alloys for more than 40 years. It has been successfully employed for the, prevention of both atmospheric corrosion and particularly for the protection of, copper under immersed conditions. Whilst BTAH is an excellent inhibitor in alkaline, solution its efficiency drops off markedly as the pH decreases. It was hypothesized, that a possible way to increase surface adsorption and subsequent better inhibition, over a wide pH range might be through the preparation of derivatives, particularly, carboxybenzotriazoles and alkyl esters of these compounds. In this work the following techniques: weight loss measurements, potentiodynamic, polarisation, SERS spectroscopy, electrochemical impedance spectroscopy and, coulometry were employed to investigate the inhibition efficiency of 4- and 5-, carboxybenzotriazole and their alkyl ester for copper corrosion. Molecular modelling, was also investigated as a tool for inhibitor design. Studies on 4- and 5- carboxybenzotriazole (CBT) showed that the inhibition, efficiency for copper corrosion in aerated acidic sulphate solution of each isomer was, pH, concentration and time dependant. At lower pH the 5-isomer is the better, inhibitor and this behaviour continues at higher pH. The anti-tarnishing test showed, that whilst both isomers exhibited these properties, 5-CBT was once again the, superior inhibitor. It was found that a commercial mixture of the octyl esters of 4- and 5-, carboxybenzotriazole inhibits copper corrosion in sulphate environments open to air., The inhibition efficiency of the ester mixture at the lx10-4 M level (pH - 0) is 98%, which compares very favourably with that for BTAH (- 50%). With respect to other, alkyl esters of 4- and 5-carboxybezotriazole, hexyl, butyl and methyl, it was found, that all of these inlibited copper corrosion in sulphate environments open to air. In, each case the inhibition efficiency is concentration, pH and time dependent. Both, coupon tests and EIS measurements indicate that inhibition efficiency depends on the, length of the alkyl chain. At pH - 0 the inhibition efficiency decreased in the order, octyl &gthexyl &gtbutyl &gtmethyl. At higher pH (- 8) the order is reversed. At the 1x104, M level (pH - 0) the inhibition efficiency of each of the alkyl esters is equal to or, better than that for BTAH. At higher pH (- 8) the inhibition efficiency in each case is, reduced in comparison to BTAH. but is still good enough for practical use ( 2 75%)., The inhibitive behaviour of the alkyl esters at low pH can be attributed to, chemisorption through an azole nitrogen of the protonated alkyl esters. The, hydrocarbon chain is also physically adsorbed and the increase in physical adsorption, as the chain is lengthened accounts for the improved inhibition efficiency. Dry films formed by immersing copper in solutions of alkyl esters of, carboxybenzotriazole also inhibit copper corrosion in both strongly acidic (pH - 0), and near neutral (pH - S) sulphate corrodents. The inhibition efficiency depends on, the solvents used to dissolve the esters, solution temperature and immersion time., Aqueous coating solutions furnish the most protective films. Films formed by, CBTAH-BU, CBTAH-HE and CBTAH-OE are more protective than that formed by, BTAH. The inhibition efficiency of the alkyl ester film increases as the alkyl chain is, made longer. Molecular modeling showed that the optimum crude binding energy (Eblnd), between each protonated ester molecule and the surface varied linearly with the alkyl, chain length. The resulting linear correlation between IE% and E bind for compounds, that are structurally similar suggested that the crude binding energy of a single, molecule with copper may be used to predict the inhibition performance of other, compounds constituting a series.

The biosynthesis of the steroid precursor molecule lanosterol is a remarkable process in which the enzyme-bound substrate 2,3-S-oxidosqualene forms four new carbocyclic rings by a cascade of cation-alkene addition reactions, followed by a series of 1,2-methyl and hydride shifts. The work presented in this thesis is a computational study of the reactions of compounds designed to model the oxidosqualene-lanosterol cyclisation in order to establish details of the mechanism of this amazing cyclisation. The initiation of oxidosqualene cyclisation has been modelled by the intermolecular reaction of protonated oxirane and methylpropene. The SN2-like ring opening of the protonated epoxide is strongly exothermic with a low barrier to reaction; the geometry of the gas phase reaction has been found to be significantly affected by hyperconjugative stabilisations and low energy steric interactions. The energy profile and geometry of this reaction can now be compared to analogous intramolecular reactions such as the formation of the lanosterol A-ring. The competing five- and six-membered cyclisations of a series of substituted A-ring model compounds was investigated. It has been found that the facile cleavage of the protonated epoxide causes the reaction to behave more as an electrophilic addition than as a nucleophilic ring-opening substitution. This behaviour accounts for the general preference of protonated epoxides to react at the more substituted carbon atom, while epoxides in neutral or basic media react at the least sterically hindered carbon. With consideration for Baldwin's rules for ring closure, it is seen that the series of model compounds generally favours six-membered ring formation endo at the epoxide. The formation of the lanosterol B-ring was studied using a bicyclic model system. Previous computational studies had predicted the B-ring to close with readily with an activation energy of less than 1 kcal mol-1, however the present study has found a significant barrier to cyclisation of ca. 5-7 kcal mol-1 in this gas-phase model at the HF/6-31G(d) level of theory. This barrier is thought to arise from the closure of the B-ring in a sterically hindered twist-boat conformation.