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修复自然甘氨酸的NMR数据
Kirill Kazantsev1, Philip Toukach2
1Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky prospect 47, 119991 Moscow, Russia.
International journal of biological macromolecules
|November 9, 2024
概括
改善甘氨酸结构阐明需要准确的NMR数据. 这项研究通过识别和纠正272个报告中的NMR信号错误来增强碳水化合物结构数据库 (CSDB),提高了未来研究的数据质量.
科学领域:
- 葡萄糖生物学和化学光谱学
- 计算化学和数据科学计算化学和数据科学
背景情况:
- 准确的核磁共振 (NMR) 信号分配对于阐明甘氨酸结构至关重要.
- 核磁共振数据的质量直接影响了糖甘核磁共振模拟和机器学习模型的准确性.
- 现有的甘氨酸数据库可能包含影响数据可靠性的不一致性.
研究的目的:
- 提高碳水化合物结构数据库 (CSDB) 中的数据质量.
- 系统地识别和纠正已公布的C NMR化学转移数据中的错误.
- 提高CSDB用于糖生物学研究和计算分析的可靠性.
主要方法:
- 在CSDB中实施系统搜索NMR数据的不一致性.
- 在实验和模拟C NMR化学转移之间进行了大量比较.
- 对差异进行手动分析以识别和纠正NMR错误.
主要成果:
- 在272个结构阐明报告中识别并修复了NMR数据错误.
- 纠正了CSDB中公布的C NMR化学转移中的不一致性.
- 显著提高了CSDB的整体数据质量和可靠性.
结论:
- 系统的数据整理和错误纠正对于保持高质量的科学数据库至关重要.
- 修复CSDB增强了其用于准确的甘氨酸结构确定和计算研究的实用性.
- 数据库中改善的NMR数据质量支持了糖生物学和相关领域的进步.
相关概念视频
¹H NMR of Labile Protons: Temporal Resolution
Protons bonded to heteroatoms such as nitrogen and oxygen exhibit a range of chemical shift values. This is due to the varying degree of hydrogen bonding between the proton and the heteroatom in other molecules. The extent of hydrogen bonding affects the electron density around the proton, thereby giving different chemical shift values for the protons in the proton NMR spectrum.
The –OH proton in alcohols typically appears in the range of δ 2 to 5 ppm but can vary depending on the specific...
The –OH proton in alcohols typically appears in the range of δ 2 to 5 ppm but can vary depending on the specific...
¹³C NMR: Distortionless Enhancement by Polarization Transfer (DEPT)
When proton-coupled carbon-13 spectra are simplified by a broadband proton decoupling technique, structural information about the coupled protons is lost. Distortionless enhancement by polarization transfer (DEPT) is a technique that provides information on the number of hydrogens attached to each carbon in a molecule. While the DEPT experiment utilizes complex pulse sequences, the pulse delay and flip angle are specifically manipulated. The resulting signals have different phases depending on...
NMR Spectroscopy and Mass Spectrometry of Aldehydes and Ketones
In aldehydes, the hydrogen atom connected to the carbonyl carbon helps distinguish aldehydes from other carbonyl compounds using ¹H NMR spectroscopy. The closeness of aldehydic hydrogen to the electrophilic carbonyl carbon highly deshields the hydrogen atom causing its signal to appear around 10 ppm in the ¹H NMR spectra. α hydrogens split the aldehydic proton signal, which helps identify the number of α hydrogens in the molecule. For instance, one α hydrogen creates a doublet for an aldehydic...
NMR and Mass Spectroscopy of Carboxylic Acids
In ¹H NMR spectroscopy, acidic protons (–COOH) of carboxylic acids are highly deshielded and absorb far downfield, at around 9–12 ppm. The chemical shift value depends on the concentration and solvent used.
While α protons of carboxylic acids absorb at 2–2.5 ppm, β protons absorb further upfield.
Carboxylic acids are easily identified by dissolving them in deuterium oxide, which results in a rapid exchange of the acidic protons with deuterium. This leads to the disappearance of the acidic...
While α protons of carboxylic acids absorb at 2–2.5 ppm, β protons absorb further upfield.
Carboxylic acids are easily identified by dissolving them in deuterium oxide, which results in a rapid exchange of the acidic protons with deuterium. This leads to the disappearance of the acidic...
NMR Spectrometers: Resolution and Error Correction
When magnetic nuclei in a sample achieve resonance and undergo relaxation, the signal detected in NMR is an approximately exponential free induction decay. Fourier transform of an exponential decay yields a Lorentzian peak in the frequency domain. Lorentzian peaks in an NMR spectrum are defined by their amplitude, full width at half maximum, and position, where the peak width is governed by the spin-spin relaxation time alone. In real experiments, however, the applied magnetic field is rendered...
NMR Spectroscopy Of Amines
In proton NMR spectroscopy, primary amines and secondary amines showcase their N–H protons as a broad signal in the chemical shift range between δ 0.5 and 5 ppm. The exact position in this range depends on several factors, including sample concentration, hydrogen bonding, and the type of solvent used. Since amine protons undergo fast proton exchange in solution, the protons are labile and therefore do not participate in any splitting with adjacent protons. Thus, the observed peak is broad and...

