Home Physical Sciences Hydrogen bonded dimers in the crystal structure of 2-chloro-N-((3,5-dimethylphenyl)carbamoyl)-nicotinamide, C30H28Cl2N6O4
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Hydrogen bonded dimers in the crystal structure of 2-chloro-N-((3,5-dimethylphenyl)carbamoyl)-nicotinamide, C30H28Cl2N6O4

  • Yi-Ning Wang , Li-Jing Min , Liang Han , Xing-Hai Liu and Guo-Xiang Sun ORCID logo EMAIL logo
Published/Copyright: January 19, 2023

Abstract

C30H28Cl2N6O4, monoclinic, P21/n (no. 14), a = 15.812(5) Å, b = 8.820(3) Å, c = 22.615(7) Å, β = 109.814(10)°, V = 2967.2(16) Å3, Z = 8, Rgt(F) = 0.0489, wRref(F2) = 0.1302, T = 296(2) K.

CCDC no.: 2235122

Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal: Colourless block
Size: 0.46 × 0.36 × 0.32 mm
Wavelength: Mo Kα radiation (0.71073 Å)
μ: 0.27 mm−1
Scan mode: φ and ω
θmax, completeness: 24.9°, 98%
N(hkl)measured, N(hkl)unique, Rint: 14,494, 5080, 0.037
Criterion for Iobs, N(hkl)gt: Iobs > 2σ(Iobs), 3456
N(param)refined: 383
Programs: Olex2 [1], SHELX [2, 3]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

Atom x y z Uiso*/Ueq
Cl1 0.67240 (5) 0.89441 (11) 0.24748 (3) 0.0639 (3)
Cl2 1.17439 (5) 0.77837 (10) 0.27744 (4) 0.0674 (3)
O1 0.75151(12) 1.1594(2) 0.33730(8) 0.0549(5)
O2 0.87126(13) 1.0876(2) 0.52751(8) 0.0600(6)
O3 1.20302(14) 1.1511(3) 0.30342(9) 0.0697(7)
O4 1.31905(12) 1.1259(2) 0.49646(8) 0.0563(5)
N1 0.51513(15) 0.8876(3) 0.25865(10) 0.0464(6)
N2 0.76001(14) 1.0659(3) 0.43296(9) 0.0435(6)
H2 0.7307 1.0135 0.4516 0.052*
N3 0.89058(14) 1.2011(3) 0.44263(10) 0.0476(6)
H3 0.8633 1.2158 0.4031 0.057*
N4 1.00358(15) 0.7815(3) 0.26193(11) 0.0522(6)
N5 1.20918(13) 1.0893(2) 0.40251(9) 0.0397(5)
H5 1.1777 1.0490 0.4228 0.048*
N6 1.33791(13) 1.2241(2) 0.40855(9) 0.0418(5)
H6 1.3098 1.2378 0.3691 0.050*
C1 0.45535(18) 0.9165(3) 0.28682(14) 0.0489(7)
H1 0.3966 0.8831 0.2675 0.059*
C2 0.47549(18) 0.9925(3) 0.34257(14) 0.0463(7)
H2A 0.4316 1.0097 0.3607 0.056*
C3 0.56229(17) 1.0431(3) 0.37130(12) 0.0411(6)
H3A 0.5779 1.0933 0.4097 0.049*
C4 0.62630(16) 1.0192(3) 0.34290(11) 0.0348(6)
C5 0.59760(17) 0.9395(3) 0.28655(11) 0.0387(6)
C6 0.71822(16) 1.0869(3) 0.36979(11) 0.0385(6)
C7 0.84544(17) 1.1194(3) 0.47166(12) 0.0423(7)
C8 0.97751(16) 1.2676(3) 0.46777(12) 0.0377(6)
C9 1.00287(17) 1.3593(3) 0.42690(12) 0.0398(6)
H9 0.9629 1.3758 0.3865 0.048*
C10 1.08697(18) 1.4269(3) 0.44539(13) 0.0464(7)
C11 1.14428(18) 1.4028(3) 0.50660(13) 0.0496(7)
H11 1.2009 1.4475 0.5198 0.060*
C12 1.11945(17) 1.3143(3) 0.54838(13) 0.0468(7)
C13 1.03556(17) 1.2441(3) 0.52849(12) 0.0442(7)
H13 1.0187 1.1820 0.5558 0.053*
C14 1.1144(2) 1.5259(4) 0.40051(15) 0.0754(10)
H14A 1.0685 1.5230 0.3598 0.113*
H14B 1.1699 1.4894 0.3974 0.113*
H14C 1.1222 1.6283 0.4158 0.113*
C15 1.1815(2) 1.2960(4) 0.61547(14) 0.0727(10)
H15A 1.1746 1.3811 0.6399 0.109*
H15B 1.2426 1.2909 0.6164 0.109*
H15C 1.1667 1.2044 0.6327 0.109*
C16 0.92887(19) 0.8433(3) 0.26681(13) 0.0537(8)
H16 0.8751 0.7905 0.2500 0.064*
C17 0.92738(19) 0.9797(4) 0.29517(14) 0.0530(8)
H17 0.8740 1.0183 0.2978 0.064*
C18 1.00653(18) 1.0581(3) 0.31967(13) 0.0494(7)
H18 1.0074 1.1507 0.3395 0.059*
C19 1.08465(16) 0.9996(3) 0.31489(11) 0.0372(6)
C20 1.07809(17) 0.8612(3) 0.28507(12) 0.0409(6)
C21 1.17117(17) 1.0874(3) 0.33863(12) 0.0410(6)
C22 1.29282(16) 1.1483(3) 0.43970(12) 0.0388(6)
C23 1.42637(16) 1.2849(3) 0.43241(11) 0.0365(6)
C24 1.44973(18) 1.3883(3) 0.39445(12) 0.0429(7)
H24 1.4076 1.4163 0.3561 0.051*
C25 1.53580 (19) 1.4508 (3) 0.41314 (13) 0.0468 (7)
C26 1.59695 (19) 1.4066 (3) 0.47022 (13) 0.0493 (7)
H26 1.6543 1.4484 0.4833 0.059*
C27 1.57555(17) 1.3024(3) 0.50852(13) 0.0454(7)
C28 1.48885(17) 1.2413(3) 0.48930(12) 0.0415(6)
H28 1.4732 1.1716 0.5147 0.050*
C29 1.5605(2) 1.5667(4) 0.37252(16) 0.0737(10)
H29A 1.6062 1.5257 0.3580 0.111*
H29B 1.5827 1.6566 0.3967 0.111*
H29C 1.5083 1.5913 0.3371 0.111*
C30 1.64402(19) 1.2578(4) 0.57073(15) 0.0651(9)
H30A 1.6369 1.3206 0.6034 0.098*
H30B 1.7034 1.2710 0.5690 0.098*
H30C 1.6354 1.1535 0.5794 0.098*

Source of materials

According to our previous work [4, 5], to a solution of 2-chloronicotinoyl isocyanate (0.18 g, 1 mmol) in toluene (10 mL), 3,5-dimethylaniline (0.13 g, 1.1 mmol) was added dropwise. The mixture was stirred at room temperature overnight. The solvent was evaporated to give white solid. The solid was recrystallized from ethanol as colorless crystals.

Experimental details

Uiso values of H atoms were set to 1.2Ueq of the parent atoms. Using Olex2 [1], the structure was solved with the ShelXS [2] structure solution program and refined with the ShelXL [3] refinement package.

Comment

Niacinamide compounds may possess excellent biological activity, such as antibacterial activity [6], herbicidal activity [7]. Meanwhile, the acyl urea group is an important active motif in many bioactive compounds [8], because it has two amide groups and forms intramolecular and intermolecular hydrogen bonds with the molecules.

The two crystallograpically independent molecules, forming the asymmetric unit, are shown in the figure. The bond angles and bond lengths of pyridine rings and benzene rings are all in the normal ranges [9, 10]. As both molecules are similar we discuss only one of them in more detail. For the other molecule all data are included in the cif file. The two torsion angles of O1–C6–N2–C7 and O2–C7–N2–C6 were −0.4(4)°, and −179.7(3)° respectively, which indicated the two carbonyl groups are opposite. The torsion angle of O1–C6–C4–C3 is −129.3(3)°, which showed the acyl is nearly vertical with pyridine ring. While the torsion angles of C9–C8–N3–C7 and C8–N3–C7–O2 were −173.8(3)°, 1.2(5)°, respectively, which indicated that acyl urea group and benzene ring are nearly in the same plane. The results are according with the reported reference [11]. The dimer title compound also has intramolecular and intermolecular hydrogen bonds via N–H⋯O and C–H⋯O interations.


Corresponding author: Guo-Xiang Sun, School of Chemistry and Chemical Engineering, Yancheng Institute of Technology, Jiangsu, Yancheng, 224051, China, E-mail:

Funding source: Yancheng Institute of Technology

  1. Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.

  2. Research funding: Talent Introduction Funding of Yancheng Institute of Technology (XJ201719), Zhejiang Provincial Natural Science Foundation of China (Nos. LY19C140002, LY19B020009), the chemical company for research (KYY-HX-20210140, KYY-HX-20190720).

  3. Conflict of interest statement: The authors declare no conflicts of interest regarding this article.

References

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Received: 2022-11-16
Accepted: 2023-01-10
Published Online: 2023-01-19
Published in Print: 2023-04-25

© 2022 the author(s), published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 International License.

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  67. The crystal structure of N′1,N′2-bis((E)-3-(tert-butyl)-2-hydroxybenzylidene)oxalohydrazide, C24H30N4O4
  68. The crystal structure of trimethyl 2,2′,2′′-(benzene-1,3,5-triyltris(oxy))triacetate, C15H18O9
  69. Crystal structure of bis(N,N-dimethylformamide-κO)-bis(pyridine-2-carboxylato-κ2N,O)-bis(μ2-pyridine-2-carboxylato-κ2N,O)-dinickel(II), C30H30N6Ni2O10
  70. Crystal structure of bis(μ2-1-pyrenecarboxylato-κ3O,O′:O′)-bis(1-pyrenecarboxylato-κ2O,O′)-(benzimidazole-κ1N)dicadmium(II), C82H48Cd2N4O8
  71. One-pot synthesis and crystal structure of diethyl 2,6-dimethyl-4-(1-(2-nitrophenyl)-1H-1,2,3-triazol-4-yl)-1,4-dihydropyridine-3,5-dicarboxylate, C21H23N5O6
  72. The crystal structure of 1-(2-fluorobenzoyl)-5-methoxy-2-methyl-1H-indole-3-carbonitrile, C18H13FN2O2
  73. Crystal structure of bis(trimethylphenylammonium) aqua-oxido-octathiotritungstate, (Me3PhN)2[W3OS8(H2O)]
  74. The crystal structure of trichlorido[N-[(2-oxyphenyl)methylidene]phenylglycinemethylester-κ3O,N,O′]-tin(IV) – methylene chloride (1/1), C16H14Cl3NO3Sn·CH2Cl2
  75. The crystal structure of furan-2,5-diylbis((4-chlorophenyl)methanol), C18H14Cl2O3
  76. The crystal structure of hexalithium decavanadate hexadecahydrate, H32Li6O44V10
  77. Crystal structure of ethyl 4-{[5-(adamantan-1-yl)-2-sulfanylidene-2,3-dihydro-1,3,4-oxadiazol-3-yl]methyl}piperazine-1-carboxylate, C20H30N4O3S
  78. Crystal structure of aqua(μ2-2,2′,2″-((nitrilo)tris(ethane-2,1-diyl(nitrilo)methylylidene))tris (6-ethoxyphenolato))(pentane-2,4-dionato-κ2O,O′)-dinickel(II), C38H48N4Ni2O9
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