Home Crystal structure of N-(2-(trifluoromethyl)phenyl)hexanamide, C13H16F3NO
Article Open Access

Crystal structure of N-(2-(trifluoromethyl)phenyl)hexanamide, C13H16F3NO

  • Eric C. Hosten ORCID logo and Richard Betz ORCID logo EMAIL logo
Published/Copyright: December 9, 2020

Abstract

C13H16F3NO, triclinic, P1 (no. 2), a = 4.7889(4) Å, b = 11.7867(10) Å, c = 12.5323(11) Å, α = 100.762(5)°, β = 100.232(4)°, γ = 100.683(4)°, V = 666.19(10) Å3, Z = 2, Rgt(F) = 0.0531, wRref(F2) = 0.1760, T = 200 K.

CCDC no: 2042543

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:Yellow rods
Size:0.52 × 0.17 × 0.15 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:0.11 mm−1
Diffractometer, scan mode:Bruker APEX-II, φ and ω
θmax, completeness:28.4°, 99%
N(hkl)measured, N(hkl)unique, Rint:11441, 3290, 0.026
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 2248
N(param)refined:168
Programs:Bruker [1], [2], SHELX [3], WinGX/ORTEP [4], Mercury [5], PLATON [6]
Table 2:

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

AtomxyzUiso*/Ueq
F10.5693 (4)0.99393 (11)0.67521 (13)0.0829 (5)
F20.3480 (3)0.83849 (11)0.71363 (11)0.0579 (4)
F30.7950 (3)0.90673 (13)0.78576 (10)0.0677 (4)
O11.0355 (3)0.57740 (13)0.71629 (12)0.0468 (4)
N10.6219 (3)0.64221 (13)0.67946 (12)0.0313 (3)
C10.5987 (4)0.88805 (16)0.69172 (16)0.0413 (4)
C20.7965 (3)0.58452 (15)0.73483 (14)0.0318 (4)
C30.6799 (4)0.52981 (16)0.82187 (15)0.0349 (4)
H3A0.4652680.5182760.8057530.042*
H3B0.7589160.5849900.8956020.042*
C40.7583 (4)0.41162 (15)0.82640 (14)0.0344 (4)
H4A0.9730600.4236670.8436300.041*
H4B0.6826520.3572100.7521200.041*
C50.6383 (4)0.35383 (17)0.91227 (16)0.0391 (4)
H5A0.7155350.4078460.9866750.047*
H5B0.4236500.3424880.8955020.047*
C60.7143 (5)0.23541 (19)0.91577 (19)0.0552 (5)
H6A0.9286510.2463730.9296090.066*
H6B0.6307830.1806300.8420750.066*
C70.6048 (7)0.1789 (3)1.0041 (3)0.0845 (9)
H7A0.3913620.1597900.9866580.127*
H7B0.6775780.2341941.0769560.127*
H7C0.6747830.1060461.0058680.127*
C110.6950 (3)0.69789 (14)0.59371 (13)0.0291 (4)
C120.6767 (3)0.81467 (15)0.59592 (14)0.0325 (4)
C130.7455 (4)0.86563 (17)0.50970 (16)0.0429 (4)
H130.7290280.9447760.5100250.051*
C140.8370 (5)0.80259 (19)0.42404 (17)0.0503 (5)
H140.8850080.8383440.3657640.060*
C150.8591 (4)0.68748 (18)0.42268 (16)0.0456 (5)
H150.9251290.6442360.3640200.055*
C160.7855 (4)0.63497 (16)0.50648 (15)0.0364 (4)
H160.7970210.5549940.5043120.044*
H10.463 (4)0.6438 (17)0.6963 (16)0.035 (5)*

Source of material

The compound was synthesized upon reacting ortho-trifluoromethylaniline with an equimolar amount of hexanoylchloride in toluene. Crystals were obtained upon free evaporation of the solvent at room temperature.

Experimental details

Carbon-bound H atoms were placed in calculated positions (C–H 0.95 Å for aromatic carbon atoms, C–H 0.99 Å for methylene groups) and were included in the refinement in the riding model approximation, with U(H) set to 1.2Ueq(C). The H atoms of the methyl group were allowed to rotate with a fixed angle around the C–C bond to best fit the experimental electron density (HFIX 137 in the SHELX program [3]), with U(H) set to 1.5Ueq(C). The nitrogen-bound H atom was refined freely.

Comment

The importance of amide-type bonding between amino and carboxyl groups for the structural appearance and its subsequent influence on the biological functionality of peptides in living organisms is well-established and has long entered fundamental textbooks of biochemistry. In continuation of our interest in the structures of carboxylic acids and their derivatives the title compound was synthesized and its structure determined. The structures of other amides determined by us are apparent in the literature [7], [8], [9], [10], [11].

The title structure shows the expected bonding pattern of an ortho-trifluoromethylanilide of hexanoic acid. The C=O and C–N bond lengths of 1.2222(19) Å and 1.351(2) Å, respectively, deviate from the expected value of a pure C=O double bond to longer and the expected value of a pure C–N single bond to shorter values in agreement with expected amide-type resonance along the C=O(NH) moiety. Both values are also in good agreement with values apparent for other carboxylic acid amides deposited with the Cambridge Structural Database [12]. The resonance appears to not extend to the aromatic system as well as the least-squares planes as defined by the carbon atoms of the aromatic system on the one hand and the non-hydrogen atoms of the hexanoic acid amide side chain on the other hand enclose and angle of 42.28(10)°. The pentyl chain adopts its ideal zig–zag conformation whose carbon atoms are almost co-planar.

In the crystal, classical hydrogen bonds of the N–H⋯O type as well as C–H⋯O contacts whose range falls by more than 0.1 Å below the sum of van-der-Waals radii are observed. The latter are supported by one of the hydrogen atoms of the methylene group in α-position to the carbonyl group. In terms of graph-set analysis [13], the descriptor for these contacts is C11(4)C11(4). In total, the molecules are connected to infinite chains along the crystallographic a axis. π–Stacking is not prominent in the title crystal structure as the shortest distance between two centers of gravity was measured at 4.7889(12) Å.


Corresponding author: Richard Betz, Department of Chemistry, Nelson Mandela University, Summerstrand Campus (South) University Way, Summerstrand, PO Box 77000, Port Elizabeth, 6031, South Africa, E-mail:

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

  2. Research funding: National Research Foundation.

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

References

1. Bruker. APEX2; Bruker AXS Inc.: Madison, Wisconsin, USA, 2012.Search in Google Scholar

2. Bruker. SADABS; Bruker AXS Inc.: Madison, Wisconsin, USA, 2008.Search in Google Scholar

3. Sheldrick, G. M. A short history of SHELX. Acta Crystallogr. 2008, A64, 112–122; https://doi.org/10.1107/s0108767307043930.Search in Google Scholar

4. Farrugia, L. J. WinGX and ORTEP for Windows: an update. J. Appl. Crystallogr. 2012, 45, 849–854; https://doi.org/10.1107/s0021889812029111.Search in Google Scholar

5. Macrae, C. F., Bruno, I. J., Chisholm, J. A., Edgington, P. R., McCabe, P., Pidcock, E., Rodriguez–Monge, L., Taylor, R., van de Streek, J., Wood, P. A. Mercury CSD 2.0 – new features for the visualization and investigation of crystal structures. J. Appl. Crystallogr. 2008, 41, 466–470; https://doi.org/10.1107/s0021889807067908.Search in Google Scholar

6. Spek, A. L. Structure validation in chemical crystallography. Acta Crystallogr. 2009, D65, 148–155; https://doi.org/10.1107/s090744490804362x.Search in Google Scholar

7. Betz, R., McCleland, C., Glover, S. 2-(4–Iodophenoxy)acetamide. Acta Crystallogr. 2011, E67, o1928; https://doi.org/10.1107/s1600536811025840.Search in Google Scholar

8. Islor, A. M., Jagadeesh, M. R., Suresh Kumar, H. M., Ananda Kumari, R., Gerber, T., Hosten, E., Betz, R. N1-(4–Methylphenyl)piperidine-1,4-dicarboxamide. Acta Crystallogr. 2012, E68, o3452; https://doi.org/10.1107/s1600536812047836.Search in Google Scholar

9. Saronjini, B. K., Narayana, B., Yathirajan, H. S., Gerber, T., Hosten, E., Betz, R. Redetermination of the crystal structure of N-acetyl glycine (2-acetamidoacetic acid), C4H7NO3. Z. Kristallogr. NCS 2013, 228, 245–246; https://doi.org/10.1524/ncrs.2013.0125.Search in Google Scholar

10. Odame, F., Hosten, E., Tshentu, Z. R., Betz, R. Crystal structure of N-(methoxy)methanethioylbenzamide, C9H9NO2S. Z. Kristallogr. NCS 2014, 229, 329–330; https://doi.org/10.1515/ncrs-2014-0169.Search in Google Scholar

11. Hosten, E., Betz, R. Redetermination of the crystal structure of N,N-diphenylacetamide, at 200 K, C14H13NO. Z. Kristallogr. NCS 2014, 229, 159–160; https://doi.org/10.1515/ncrs-2014-0089.Search in Google Scholar

12. Allen, F. H. The Cambridge Structural Database: a quarter of a million crystal structures and rising. Acta Crystallogr. 2002, B58, 380–388; https://doi.org/10.1107/s0108768102003890.Search in Google Scholar

13. Bernstein, J., Davis, R. E., Shimoni, L., Chang, N.-L. Patterns in hydrogen bonding: functionality and graph set analysis in crystals. Angew. Chem. Int. Ed. Engl. 1995, 34, 1555–1573; https://doi.org/10.1002/anie.199515551.Search in Google Scholar

Received: 2020-10-08
Accepted: 2020-11-08
Published Online: 2020-12-09
Published in Print: 2021-03-26

© 2020 Eric C. Hosten and Richard Betz, published by De Gruyter, Berlin/Boston

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

Articles in the same Issue

  1. Frontmatter
  2. New Crystal Structures
  3. The crystal structure of 4-hydroxybenzene-1,3-diaminium dichloride, C6H10Cl2N2O
  4. The crystal structure of 3-chloropropylammonium chloride, C3H9Cl2N
  5. The crystal structure of 1-chloro-2-(dimethylamino)ethane hydrochloride, C4H11Cl2N
  6. Crystal structure of N-(2-(trifluoromethyl)phenyl)hexanamide, C13H16F3NO
  7. Redetermination of the crystal structure of para-toluidine, C7H9
  8. The crystal structure of bis(1,3-dihydroxy-2-methylpropan-2-aminium) carbonate, C9H24N2O7
  9. The crystal structure of 4-chloro-1-methylpiperidin-1-ium chloride, C6H13Cl2N
  10. Crystal structure of (Z)-3-(6-bromo-1H-indol-3-yl)-1,3-diphenylprop-2-en-1-one, C23H16BrNO
  11. The crystal structure of ethyl 2-amino-4-(3,5-difluorophenyl)-7,7-dimethyl-5-oxo-5,6,7,8-tetrahydro-4H-chromene-3-carboxylate, C20H21F2NO4
  12. Crystal structure of 6,6'‐((1E,1'E)‐(propane‐1,3‐diylbis(azaneylylidene))bis(methaneylylidene))bis(3‐bromophenol), C34H32Br4N4O4
  13. The crystal structure of (E)-2-(2-((2-picolinoylhydrazono)methyl)phenoxy)acetic acid dihydrate, C15H17N3O6
  14. Crystal structure of (E)-4-bromo-N′-(3-chloro-2-hydroxybenzylidene)benzohydrazide, C14H10BrClN2O2
  15. Crystal structure of N,N′-bis(4-bromosalicylidene) ethylene-1,2-diaminopropan, C34H32Br4N4O4
  16. Crystal structure of 4-bromo-N′-[(3-bromo-2-hydroxyphenyl)methylidene]benzohydrazide methanol solvate, C15H14Br2N2O3
  17. The crystal structure of 1,2-bis(1H-benzo[d]imidazol-2-yl)ethane-1,2-diol — N-(2-aminophenyl)-3-(1H-benzo[d]imidazol-2-yl)-2,3-dihydroxypropanamide (1/1), C32H30N8O5
  18. The crystal structure of para-trifluoromethyl-aniline hemihydrate, C14H14F6N2O
  19. Redetermination of the crystal structure of 2-amino-2-methyl-propane-1,3-diole, C4H11NO2
  20. The crystal structure of methacholine chloride, C8H18ClNO2
  21. Crystal structure of 5,7,7-trimethyl-4,6,7,8-tetrahydrocyclopenta[g]isochromen-1(3H)-one, C15H18O2
  22. Crystal structure of poly[diammine-bis(μ4-4-hydroxypyridine-3-sulfonato-κ5N:O, O′:O′′:O′′)(μ2-pyrazinyl-κ2N:N′)tetrasilver(I)], C7H8Ag2N3O4S
  23. Crystal structure of ethyl (E)-5-(((3′,6′-bis(ethylamino)-3-oxospiro[isoindoline-1,9′-xanthen]-2-yl)imino)methyl)-2,4-dimethyl-1H-pyrrole-3-carboxylate — ethanol (1/1), C38H45N5O5
  24. Crystal structure of 4-bromo-N′-[(3-chloro-2-hydroxyphenyl)methylidene]benzohydrazide, C14H7Br2N2O2
  25. Redetermination of the crystal structure of 3,3,3-triphenylpropanoic acid, C21H18O2 – Deposition of hydrogen atomic coordinates
  26. Structure redetermination of dextromethorphan hydrobromide monohydrate, C18H28BrNO2 – localization of hydrogen atoms
  27. Crystal structure of tris(azido-κ1N)-(N-(2-aminoethyl)-N-methyl-1,3-propanediamine-κ3N,N′,N′′)cobalt(III), C7H19CoN12
  28. Crystal structure of tetraaqua-bis(1H-indazole-6-carboxylate-κN)cadmium (II), C16H18CdN4O8
  29. Crystal structure of dichloride-bis(1-propylimidazole-κ1N)zinc(II), C12H20Cl2N4Zn
  30. Crystal structure of (E)-resveratrol 3-O-β-D-xylopyranoside, C19H22O8
  31. Crystal structure of 3,3′-(1,2-phenylene-bis(methylene))bis(1-vinyl- 1H-imidazol-3-ium) bis(hexafluoro phosphate)(V), C18H20F12N4P2
  32. Crystal structure of diaqua[bis(benzimidazol-2-yl-methyl)amine-κ3N,N′,N″]-phthalato-κ1O-nickel(II)-methanol (1/2), C26H31N5NiO8
  33. Crystal structure of 6,7-difluoro-1-methyl-3-(trifluoromethyl)quinoxalin-2(1H)-one, C10H5F5N2O
  34. Crystal structure of dichlorido-bis(1-hexyl-1H-benzotriazole-k1N)zinc(II), C24H34N6Cl2Zn
  35. The crystal structre of 2-(4-bromophenyl)-2,3-dihydro-1H-naphtho[1,8-de][1,3,2]diazaborinine, C16H12BBrN2
  36. Crystal structure of diethyl 3,9-bis(4-fluorophenyl)-6,12-diphenyl-3,9-diazapentacyclo[6.4.0.02,7.04,11]dodecane-1,5-dicarboxylate, C40H36F2N2O4
  37. Crystal structure of (E)-7-methoxy-2-((5-methoxypyridin-3-yl)methylene)-3,4- dihydronaphthalen-1(2H)-one, C18H17NO3
  38. Crystal structure of (E)-2-chloro-6-(((1,3-dihydroxy-2-(oxidomethyl)propan-2-yl)imino)methyl)phenolate-κ3N,O,O’)manganese(IV), C22H24Cl2MnN2O8
  39. The crystal structure of α-(meta-methoxyphenoxy)-ortho-tolylic acid, C15H14O4
  40. The crystal structure of N-(2-chloroethyl)-N,N-diethylammonium chloride, C6H15Cl2N
  41. The crystal structure of tris(2,3,4,6,7,8,9,10-octahydro-1H-pyrimido[1,2-a]azepin-5-ium) trihydrodecavanadate(V), C27H54N6O28V10
  42. Crystal structure of 1,3-bis(octyl)benzimidazolium perchlorate C23H39ClN2O4
  43. Crystal structure of tetrakis[(Z)-(2-(1-(furan-2-yl)-2-methylpropylidene)-1-phenylhydrazin-1-ido-κ2N,N′)] zirconium(IV), C56H60N8O4Zr
  44. The crystal structure of 2-(naphthalen-2-yloxy)-4-phenyl-6-(prop-2-yn-1-yloxy)-1,3,5-triazine, C22H15N3O2
  45. The crystal structure of trimethylsulfonium tris(trifluoromethylsulfonyl)methanide, C7H9F9O6S4
  46. Crystal structure of 4-bromo-N′-[3,5-dichloro-2-hydroxyphenyl)methylidene]benzohydrazide methanol solvate, C15H13BrCl2N2O3
  47. The crystal structure of 4-(4-bromophenyl)-2-(3-(4-bromophenyl)-5-(4-fluorophenyl)-4,5-dihydro-1H-pyrazol-1-yl)thiazole, C24H16Br2FN3S
  48. The crystal structure of N-(adamantan-1-yl)-piperidine-1-carbothioamide, C16H26N2S
  49. The crystal structure of 1-phenyl-N-(4,5,6,7-tetrabromo-1,3-dioxoisoindolin-2-yl)-5-(thiophen-2-yl)-1H-pyrazole-3-carboxamide-dimethylformamide (1/1) C22H10Br4N4O3S
  50. The crystal structure of benzeneseleninic acid anhydride, C12H10O3Se2
  51. The crystal structure of diphenyalmine hydrochloride antimony trichloride co-crystallizate, C12H12Cl4NSb – Localization of hydrogen atoms
  52. The crystal structure of para-nitrobenzylbromide, C7H6BrNO2 – A second polymorph and correction of 3D coordinates
  53. Crystal structure of catena-poly[(5H-pyrrolo[3,2-b:4,5-b′]dipyridine-κ2N,N′)-(μ4-hexaoxidodivanadato)dizinc(II)],C10H9N3O6V2Zn
  54. Crystal structure of N,N′-(2-hydroxypropane-1,3-diyl)bis(pyridine-2-aldimine)-κ5N,N′,N′′,N′′′,O]-tris(nitrato-κ2O,O′) cerium(III), C15H16CeN7O10
  55. Synthesis and crystal structure of oktakis(dimethylsulphoxide-κ1O)gadolinium(III) [tetrabromido-μ2-bromido-μ2-sulfido-di-μ3-sulfido-μ4-sulfido-tetracopper(I)-tungsten(VI)], C16H48O8S12Br5Cu4GdW
  56. Crystal structure of {tris((1H-benzo[d]imidazol-2- yl)methyl)amine-κ4N,N′,N′′,N′′′}-(succinato-κ2O,O′)nickel(II) – methanol (1/4), C32H41N7NiO8
  57. Crystal structure of catena-poly[trans-tetraaqua(μ2-1,1′-(biphenyl-4,4′-diyl)bis(1H-imidazol)-k2N:N′)cobalt(II)] dinitrate – 1,1′-(biphenyl-4,4′-diyl)bis(1H-imidazol) – water (1/3/2), C72H68CoN18O12
  58. Crystal structure of bis(μ2-2-oxido-2-phenylacetate-κ3O:O,O′)-bis(1-isopropoxy-2-oxo-2-phenylethan-1-olato-κ2O,O′)-bis(propan-2-olato-κ1O)dititanium(IV), C44H52O14Ti2
  59. The crystal structure of 5-carboxy-2-(hydroxymethyl)-1H-imidazol-3-ium-4-carboxylate, C6H8N2O6
  60. The crystal structure of 2,6-dibromo-4-fluoroaniline, C6H4Br2FN
  61. The crystal structure of 4-chloro-N-(2-phenoxyphenyl)benzamide, C19H14ClNO2
  62. The crystal structure of 2-methyl-β-naphthothiazole, C12H9NS
Downloaded on 6.11.2025 from https://www.degruyterbrill.com/document/doi/10.1515/ncrs-2020-0530/html
Scroll to top button