氨基酸-E-olefin与氨基酸-乙骨干H键干扰:评估O-O排斥用于提取H键能量
Yanwen Fu1, Jianmin Gao, Jan Bieschke
1Department of Chemistry and The Skaggs Institute of Chemical Biology, The Scripps Research Institute, BCC 506, La Jolla, California 92037, USA.
Journal of the American Chemical Society
|December 15, 2006
概括
研究人员使用胺基突变量化了蛋白质β片中的氧-氧排斥. 这项研究估计了氧-氧排斥能量,并计算了蛋白质β片中的内在键自由能量.
科学领域:
- 蛋白质结构和折叠方式
- 生物物理化学 生物物理化学
- 分子动力学分子动力学
背景情况:
- 键对于蛋白质结构和稳定性至关重要.
- 量化特定相互作用的能量贡献,如氧-氧排斥,是具有挑战性的.
- Pin WW 域作为研究蛋白质折叠的模型系统.
研究的目的:
- 为了估计氧-氧排斥能 (DeltaGO-Orep) 在β-sheet上下文.
- 为了确定Pin WW域中特定残留物 (F23-R14) 之间的内在键自由能量.
- 开发和应用新的突变方法来扰乱键.
主要方法:
- 采用胺转和胺转E烯骨干突变策略.
- 利用工程蛋白质突变物的热力学折叠能量测量.
- 使用相关模型化合物计算转移自由能量差异.
主要成果:
- 估计的氧-氧排斥能量 (DeltaGO-Orep) 为0.3kcal/mol,在β表中确定.
- 计算出F23-R14固有的键自由能量为1.3 kcal/mol.
- 突变方法有效地扰乱了目标键.
结论:
- 氧-氧排斥对蛋白质β-sheets的能量景观作出了重大贡献.
- 蛋白质中的内在键强度可以使用这些生物物理技术准确地确定.
- 这项工作为控制蛋白质折叠和稳定性的基本力量提供了宝贵的见解.
相关概念视频
Ethers to Alkyl Halides: Acidic Cleavage
Ethers are generally unreactive and unsuitable for direct nucleophilic substitution reactions since the alkoxy groups are strong bases and, therefore, poor leaving groups. However, ethers readily undergo acidic-cleavage reactions. Ethers can be converted to alkyl halides when heated with strong acids such as HBr and HI in a sequence of two substitution reactions.
E2 Reaction: Kinetics and Mechanism
SN2 substitutions and E2 eliminations of alkyl halides proceed via a concerted pathway. While the nucleophile attacks the alpha carbon in SN2 reactions, it functions as a strong base and abstracts a beta hydrogen in the E2 mechanism. The rate-limiting transition state in E2 elimination reactions is characterized by partially broken carbon–hydrogen and carbon–halogen bonds and a partially formed pi bond between the alpha and beta carbons. The beta hydrogen and halide are eliminated...
E2 Reaction: Stereochemistry and Regiochemistry
Elimination reactions of alkyl halides can yield one or more alkenes depending on the specific regiochemical and stereochemical considerations. While the regiochemistry of the reaction governs the location of the double bond in the product, the stereochemical requirements often influence the geometry.
When a substrate with two different β hydrogens undergoes an E2 elimination, the presence of a strong base can yield two regioisomeric alkenes. The more-substituted alkene is the major product and...
When a substrate with two different β hydrogens undergoes an E2 elimination, the presence of a strong base can yield two regioisomeric alkenes. The more-substituted alkene is the major product and...
Esters to Carboxylic Acids: Acid-Catalyzed Hydrolysis
Hydrolysis of esters under acidic conditions proceeds through a nucleophilic acyl substitution. In the presence of excess water, the reaction proceeds in a reversible manner, forming carboxylic acids and alcohols.
During hydrolysis, the ester is first activated towards nucleophilic attack through the protonation of the carboxyl oxygen atom by the acid catalyst. The protonation makes the ester carbonyl carbon more electrophilic. In the next step, water acts as a nucleophile and adds to the...
During hydrolysis, the ester is first activated towards nucleophilic attack through the protonation of the carboxyl oxygen atom by the acid catalyst. The protonation makes the ester carbonyl carbon more electrophilic. In the next step, water acts as a nucleophile and adds to the...
Reactivity of Enolate Ions
Enolate ions are formed by the acid–base reaction of a carbonyl compound with a base. This leads to deprotonation of the α hydrogen atom, leading to a resonance-stabilized enolate ion where one of the contributing structures is an oxyanion, which imparts additional stability. Therefore, the proton on the α carbon is more acidic in nature than that of other sp3-hybridized C–H bonds but less acidic than those in O–H bonds where the negative charge in the conjugate base is localized on the oxygen...
Amines to Alkenes: Hofmann Elimination
Alkenes can be obtained from amines via an E2 elimination. The amine is first converted into a good leaving group, such as a quaternary ammonium salt. This is accomplished by treating the amine with an excess of alkyl halide, which results in a halide salt. Next, the halide salt is transformed into a hydroxide salt that functions as a base to enable elimination.
Under thermal conditions, the hydroxide can abstract a proton from the β carbon; this generates an alkene with the simultaneous...
Under thermal conditions, the hydroxide can abstract a proton from the β carbon; this generates an alkene with the simultaneous...


