无序示例-氰基和乙酰基共占据无序(无序理解) 案例来源:CCDC[1] 2414599. DOI[2]:10.5517/ccdc.csd.cc2m1l9l. 案例结构如图1所示(由ChemBioDraw[3]绘制)。 ▲图1 案例结构 其晶体结构不对称ASU(asymmetric unit)如图2所示(由Olex2[4]呈现),包含一个完整的对乙酰基苯腈分子以及半个对乙酰基苯腈分子,后者中氧、甲基和氮做了无序处理,氧和甲基属于PART 1,氮属于PART 2,占有率均为0.5。 ▲图2 案例结构ASU 进行对操作后,表观上看PART 1和PART 2结构如图3‒4所示,好像分别是对乙酰基苯腈和1,4-二乙酰苯混合物与对乙酰基苯腈和对苯二腈混合物。 ▲图3 无序第一组分(PART 1) ▲图4 无序第二组分(PART 2) 实际上这是纯化合物对乙酰基苯腈的晶体结构,并不是混合物的晶体结构,按照图3‒4所示来理解是错误的,ASU中的半个对乙酰基苯腈穿过对称元素(反演中心),如图5所示(参阅视频“Mercury[5]基操-查看对称元素:https://www.bilibili.com/video/BV1U44y1U7ZF”)。 ▲图5 对称元素查看 因为穿过对称元素,所以ASU中为半个对乙酰基苯腈分子,这就使得氰基和乙酰基成为共占据无序,而苯环本位碳重合,氰基碳和羰基碳重合,因此只需要对羰基氧、甲基和氰基氮做无序处理即可,占有率则由对称元素确定为0.5,所以上述无序应正确理解为如图6所示结构。 ▲图6 案例结构无序正确理解 相关视频: 单晶结构解析练习396(数据还原-无序处理):https://www.bilibili.com/video/BV197cjebESV 数据下载: 提取码: uxj3 参考文献 [1] (a) Allen, F. H.The Cambridge Structural Database: A Quarter of a Million Crystal Structuresand Rising. Acta Cryst. 2002, B58, 380–388. DOI:10.1107/S0108768102003890. (b) Groom, C. R.; Bruno, I. J.; Lightfoot, M.P.; Ward, S. C. The Cambridge Structural Database. Acta Cryst. 2016, B72, 171–179. DOI:10.1107/S2052520616003954. (c) Mitchell, J.; Robertson, J. H.; Raithby,P. R. Cambridge Crystallographic Data Centre (CCDC). Comprehensive Coordination Chemistry III 2021, 413–437. DOI: 10.1016/B978-0-12-409547-2.14829-2. [2] (a) InternationalOrganization for Standardization (2012). ISO 26324:2012. Information and Documentation – Digital Object Identifier System. http://www.iso.org/iso/catalogue_detail.htm?csnumber=43506. (b) McDonald J. D.;Levine-Clark, M. Encyclopedia of Libraryand Information Sciences. Fourth Edition, CRC Press, 2017. DOI: 10.1081/e-elis4. (c) Liu, J. Digital ObjectIdentifier (DOI) and DOI Services: An Overview. Libri 2021, 71, 349‒360. DOI:10.1515/libri-2020-0018. (d) International Organization forStandardization (2022). ISO 26324:2022. Informationand Documentation – Digital Object Identifier System. https://www.iso.org/standard/81599.html[3] (a) Klein, F. M.CS ChemDraw Pro,1 Version 3.1 for Windows. J. Chem. Inf. Comput. Sci. 1995, 35, 166–167. DOI: 10.1021/ci00023a026. (b)Cousins, K. R. ChemDraw 6.0 Ultra CambridgeSoft Corporation, 100 Cambridge ParkDrive, Cambridge, MA 02140. http://www.camsoft.com. Commercial Price: $1395.Academic Price: $699. J. Am. Chem. Soc. 2000, 122, 10257–10258. DOI: 10.1021/ja0047572.(c) Buntrock, R. E. ChemOffice Ultra 7.0. J. Chem. Inf. Comput. Sci. 2002, 42, 1505–1506. DOI: 10.1021/ci025575p. (d) Li, Z.; Wan, H.; Shi, Y.;Ouyang, P. Personal Experience with Four Kinds of Chemical Structure DrawingSoftware: Review on ChemDraw, ChemWindow, ISIS/Draw, and ChemSketch. J. Chem. Inf. Comput. Sci. 2004, 44, 1886–1890. DOI: 10.1021/ci049794h.(e) Mendelsohn, L. D. ChemDraw8 Ultra, Windows and Macintosh Versions. J. Chem. Inf. Comput. Sci. 2004, 44, 2225–2226. DOI: 10.1021/ci040123t. (f) Cousins, K. R. ChemDrawUltra 9.0. CambridgeSoft, 100 CambridgePark Drive, Cambridge, MA 02140. www.cambridgesoft.com. See Web site for pricing options. J. Am. Chem. Soc. 2005, 127, 4115–4116. DOI:10.1021/ja0410237. (g) Zielesny, A. Chemistry Software PackageChemOffice Ultra 2005. J. Chem. Inf.Model. 2005, 45, 1474–1477. DOI:10.1021/ci050273j. (h) Mills, N. ChemDraw Ultra 10.0 CambridgeSoft, 100CambridgePark Drive, Cambridge, MA 02140. www.cambridgesoft.com. CommercialPrice: $1910 for download, $2150 for CD-ROM; Academic Price: $710 fordownload, $800 for CD-ROM. J. Am. Chem. Soc. 2006, 128, 13649–13650. DOI: 10.1021/ja0697875. (i) Kerwin, S. M.ChemBioOffice Ultra 2010 Suite. J. Am. Chem. Soc. 2010, 132, 2466–2467. DOI: 10.1021/ja1005306. (j) Milne, G. W. A. SoftwareReview of ChemBioDraw 12.0. J. Chem. Inf.Model. 2010, 50, 2053. DOI:10.1021/ci100385n. (k) Narayanaswamy, V. K.; Rissdörfer, M.; Odhav, B.Review on CambridgeSoft ChemBioDraw Ultra 13.0v. Int. J. Theor. Appl. Sci. 2013, 5, 43–49. [4] Dolomanov, O. V.;Bourhis, L. J.; Gildea, R. J.; Howard, J. A. K.; Puschmann, H. OLEX2: A Complete Structure Solution,Refinement and Analysis Program. J. Appl. Cryst. 2009, 42, 339–341. DOI: 10.1107/S0021889808042726. [5] Macrae, C. F.,Edgington, P. R., McCabe, P., Pidcock, E., Shields, G. P., Taylor, R., Towler,M. & van de Streek, J. Mercury:Visualization and Analysis of Crystal Structures J. Appl. Cryst. 2006, 39, 453–457. DOI:10.1107/S002188980600731X. 声明:本文仅代表个人观点,笔者学识有限,资料整理过程中可能存在疏漏错误,请不吝指正。 如需PDF文档,请从以下链接下载: 通过网盘分享的文件:无序示例-氰基和乙酰基共占据无序(无序理解).pdf
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