請(qǐng)教氫鍵問題?金幣不是問題可再加,幫幫忙啊
2個(gè)月前投了個(gè)Journal of Molecular Structure,今返回讓大修。氫鍵處有些問題。在文章中我寫的氫鍵表(Platon計(jì)算)如下:
D-H…A d(D-H) d(H…A) d(D…A) <(DHA)
C(22)-H(22)…O(2)i 0.93 2.52 3.428(9) 165.9
C(11)-H(11)…N(3) 0.98 2.38 2.968(5) 117.8
C(28)-H(28A)…pi(benzene ring) 2.786
請(qǐng)問1我這個(gè)晶體中是否存在的這三個(gè)作用力呢?請(qǐng)準(zhǔn)確回答。是不是不存在?我自己都不敢確定。我該怎么回答審稿人的問題啊。本人非晶體專業(yè),麻煩各位朋友了,金幣不夠可再加,先謝謝大家 (最后統(tǒng)一發(fā)放)
審稿人關(guān)于氫鍵提出的問題如下:
(1)Characterization of non-covalent interactions. Authors should also provide more arguments on why they think that CH…N bond with almost 3 Å length is a strong one ("There is a strong intramolecular hydrogen bond, C(11)-H(11)…N(3) forming a six-membered ring."). This interaction is commonly believed to be a weak one. This would be also interesting if authors can do some computational investigation to estimate the energy of this bond in order to classify its strength. To evaluate CH…N and CH…<pi> non-covalent interaction authors might consider using Natural Bonds Orbitals (NBO) [4] and/or Atoms in Molecule (AIM) [5] approaches. Author suggested that C-H…<pi> interaction plays stabilization role. Authors should provide bond length criteria for this type of bond. They might use the results of recent analysis of 1154 proteins from PDB bank [6] work to support their statement about this type of interaction.
(2)Amide bond C-N. "The corresponding distances of C(23)-N(2) at the optimized geometry in two molecules are 1.378 Å, 1.382 Å respectively which are also shorter than the normally experimental C-N single bond length". This sentence is misleading since C-N bond in non-aromatic amides is aprox. 1.325-1.346 Å [7] and it is shorter due to n?<pi>* delocalization from nitrogen to C=O bond.
我的晶體所說有數(shù)據(jù)在下面的即得網(wǎng)盤里:
https://good.gd/1284907.htm
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你做的是有機(jī)上的東西吧
最好能把CIF 或RES文件傳上來 才容易看清楚
審稿人的大概意思我理解為
1. C(11)-H(11)…N(3) 鍵太短,只有3A,你看下晶體結(jié)構(gòu)是否有別的作用力的推動(dòng)或者干擾
2. C(23)-N(2)鍵太短 也是需要你做出解釋
因?yàn)榫唧w的結(jié)構(gòu)看不到 只能說這么多了,一般來說 原子半徑或者原子之間的距離,在解結(jié)構(gòu)的時(shí)候都有一定的范圍
你最好去問下當(dāng)時(shí)結(jié)晶體的人,看看是怎么說的
晶體的所有文件都在我的帖子最下面的網(wǎng)盤里啊,麻煩高手幫幫我?br>,
我覺得編輯的意思是CH...N氫鍵不算很強(qiáng)吧 雖然距離很近 但是角度很大 另外那個(gè)計(jì)算我卻是不很清楚 等待...
我把CH...N氫鍵寫成強(qiáng)健了,那我該怎么修改呢,把這個(gè)氫鍵直接刪掉還是我改寫成是弱氫鍵呢,因?yàn)闅滏I角差的太多了呢?
你解釋下兩個(gè)問題就可以了,由什么造成的。我投了篇,直接接受了,一個(gè)月的樣子,樓主好運(yùn)!