research communications
RS)-(4-chlorophenyl)(pyridin-2-yl)methanol
of (aDepartment of Studies in Chemistry, Mangalore University, Mangalagangothri 574 199, India, bDepartment of Studies in Industrial Chemistry, Mangalore University, Mangalagangothri 574 199, India, cDepartment of Studies in Chemistry, University of Mysore, Manasagangotri, Mysuru 570 006, India, dDepartment of Biotechnology, Dayananda Sagar College of Engineering, Bengaluru 560 078, India, and eSchool of Chemistry, University of St Andrews, Fife KY16 9ST, Scotland
*Correspondence e-mail: yathirajan@hotmail.com
In the title 12H10ClNO, the dihedral angle between the benzene and pyridine rings is 74.34 (6)°. In the crystal, the molecules are linked by O—H⋯N hydrogen bonds, forming zigzag C(5) [001] chains in which alternating R- and S-configuration molecules are related by c-glide symmetry. In addition, inversion-related pairs of molecules are linked into dimers by pairs of weak C—Cl⋯π(pyridyl) interactions, which link the hydrogen-bonded chains into (100) sheets. Structural comparisons are drawn with a number of related compounds.
CKeywords: crystal structure; supramolecular structure; hydrogen bonds; halogen–pyridine interactions.
CCDC reference: 1440028
1. Chemical context
Simply substituted diphenylmethanols, RPh2COH, exhibit a very rich diversity of supramolecular arrangements, including isolated molecules, hydrogen-bonded dimers, trimers, tetramers and hexamers, as well as continuous hydrogen-bonded chains (Ferguson et al., 1992, 1994, 1995). The predominant mode of molecular association in these structures involves O—H⋯O hydrogen bonds, although O—H⋯π(arene) interactions are sometimes present. It is therefore of considerable interest to investigate the influence of an addition potential acceptor of hydrogen bonds as achieved, for example, by the replacement of one of the phenyl rings by an isosteric pyridyl substituent. Here we report the molecular and supramolecular structure of (RS)-4-chlorophenyl(pyridin-2-yl)methanol (I) (Fig. 1), which shows some striking structural differences from the simpler, non-chlorinated analogue phenyl(pyridin-2-yl)methanol, whose structure has been reported recently (Kim & Kang, 2014; Tsang et al., 2015).
2. Structural commentary
The molecules of compound (I) contain a stereogenic centre at atom C1 (Fig. 1) and the reference molecule was selected as one having the R-configuration at atom C1. The centrosymmetric confirms that compound (I) has crystallized as a racemic mixture.
Both of the rings are rotated out of the plane of the central C11–C1–C22 fragment, which makes dihedral angles of 70.69 (2) and 84.66 (9)° with the phenyl and pyridyl rings, respectively. The dihedral angle between the rings is 74.34 (6)°, and this value is very similar to the value of 71.42 (10)° reported (Kim & Kang, 2014) for the corresponding angle in the non-chlorinated analogue, compound (II). The general conformational similarity between the molecules of compounds (I) and (II) is shown by the torsional angles O—C—C—C and O—C—C—N (Table 1), where the corresponding angles for the R-enantiomer of (II) [the reference molecule was actually selected (Kim & Kang, 2014) as one having the S-configuration] are 49.0 (4) and −150.6 (2)°, respectively.
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However, one point of difference between the conformations in compounds (I) and (II) centres on the locations of the hydroxyl H atoms. In compound (I), this atom is antiperiplanar to atom C11 (Table 1), but the corresponding torsional angle for the R-enantiomer of (II) is −67 (2)°. This difference in hydroxyl group conformations is probably associated with the different patterns of hydrogen-bonded supramolecular aggregation in compounds (I) and (II), as discussed below.
3. Supramolecular interactions
The molecules of compound (I) are linked by O—H⋯N hydrogen bonds (Table 2), forming zigzag C(5) chains running parallel to the [001] direction. The chain containing the reference molecule at (x, y, z) consists of molecules which are related by the c-glide plane at y = , so that molecules of R-configuration and S-configuration alternate along the chain (Fig. 2). Two chains of this type, related to one another by inversion, pass through each unit cell.
The contains neither C—H⋯π hydrogen bonds nor π–π stacking interactions. There is, however, a single short C—Cl⋯π contact with geometric parameters Cl⋯Cgi = 3.5280 (10) Å, C⋯Cgi = 5.1785 (19) Å and C—Cl⋯Cgi = 157.79 (7)° [symmetry code: (i) 1 − x, −y, −z] where Cg represents the centroid of the pyridine ring. This Cl⋯Cg distance is slightly shorter than the average distance, 3.6 Å, deduced (Imai et al., 2008) from database analysis in a study which concluded that such interactions were attractive, with interaction energies of ca 2 kcal mol−1, comparable to those typical of weak hydrogen bonds (Desiraju & Steiner, 1999). In compound (I), this interaction links inversion-related pairs of molecules into cyclic centrosymmetric dimers (Fig. 3).
of compound (I)The overall effect of the C—Cl⋯π interaction in (I) is to link the hydrogen-bonded chain containing molecules related by the c-glide plane at y = directly to the two chains that contain molecules related by the glide planes at y = − and y = , respectively, and propagation by translation of this interaction links the hydrogen-bonded chains along [001] into a sheet lying parallel to (100) (Fig. 4), but there are no direction-specific interactions between adjacent sheets.
4. Structural comparisons with related compounds
It is of interest briefly to compare the supramolecular assembly in compound (I), mediated by O—H⋯N hydrogen bonds and C—Cl⋯π interactions, with the assembly in some closely related compounds (II)–(VIII) (see Fig. 5), and particularly with compound (II), whose constitution differs from that of (I) only in lacking the chloro substituent.
The molecules of compound (II) are linked into C(5) chains by O—H⋯N hydrogen bonds (Kim & Kang, 2014; Tsang et al., 2015), as in compound (I), but in (II) helical chains are built from molecules related by 21 screw axes in Pna21, whereas in (I) zigzag chains are built from molecules related by glide planes. Hence in compound (II) each chain is homochiral, with equal numbers of chains built only from molecules having the R-configuration or only from molecules having the S-configuration: in (I), by contrast, each chain contains an alternation of the two enantiomers (cf. Fig. 2).
Similar homochiral C(5) chains are formed in each of the three isomeric carborane derivatives (III)–(V) (Tsang et al., 2015), regardless of whether they are crystallized as single enantiomers or as racemates. The structure of compound (VI), which is isomeric with (II) has been reported briefly (Shimada et al., 2003) but, unfortunately, no atomic coordinates have been deposited in the Cambridge Structural Database (Groom & Allen, 2014). The structure report on (VI) concerns enantiomerically pure forms, in P212121, so that the formation of homochiral helical chains of C(7) type, seems plausible.
Compound (VII), which differs from (I) and (II) in containing two unsubstituted phenyl rings but no pyridyl ring, crystallizes with Z′ = 2 in P22121 (Ferguson et al., 1995) and the molecules are linked by O—H⋯O hydrogen bonds to form C22(4) chains, but with no direction-specific interactions between adjacent chains. Compound (VIII) is the pentafluorophenyl analogue of (VII) and the molecules are again linked by O—H⋯O hydrogen bonds, but now forming cyclic R66(12) hexamers having exact (S6) symmetry (Ferguson et al., 1995).
5. Synthesis and crystallization
A sample of the title compound (I) was a gift from CAD Pharma, Bengaluru, India. Colourless blocks were grown by slow evaporation at room temperature of a solution in methanol, m.p. 478 K.
6. Refinement
Crystal data, data collection and structure . All H atoms were located in difference maps. The H atoms bonded to C atoms were then treated as riding atoms in geometrically idealized position with C—H distances of 0.93 Å (aromatic and heteroaromatic) or 0.98 Å (aliphatic CH) and with Uiso(H) = 1.2Ueq(C). For the hydroxyl H atom H1A, the atomic coordinates were refined with Uiso(H) = 1.5Ueq(O), giving an O—H distance of 0.84 (2) Å. The analysis of variance reported a large value of K, 3.187, for the group of 252 very weak reflections having Fc/Fc(max) in the range 0.000 < Fc/Fc(max) < 0.005.
details are summarized in Table 3Supporting information
CCDC reference: 1440028
10.1107/S2056989015023154/hb7553sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S2056989015023154/hb7553Isup2.hkl
Supporting information file. DOI: 10.1107/S2056989015023154/hb7553Isup3.cml
Data collection: APEX2 (Bruker, 2012); cell
SAINT-Plus (Bruker, 2012); data reduction: SAINT-Plus (Bruker, 2012); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL2014 (Sheldrick, 2015) and PLATON (Spek, 2009).C12H10ClNO | F(000) = 456 |
Mr = 219.66 | Dx = 1.340 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
a = 8.4309 (6) Å | Cell parameters from 2785 reflections |
b = 16.1488 (11) Å | θ = 2.5–28.6° |
c = 8.6878 (6) Å | µ = 0.32 mm−1 |
β = 112.994 (2)° | T = 295 K |
V = 1088.85 (13) Å3 | Block, colourless |
Z = 4 | 0.40 × 0.30 × 0.20 mm |
Bruker APEXII CCD diffractometer | 2510 independent reflections |
Radiation source: fine-focus sealed tube | 1860 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.030 |
φ and ω scans | θmax = 27.6°, θmin = 2.5° |
Absorption correction: multi-scan (SADABS; Sheldrick, 2003) | h = −9→10 |
Tmin = 0.719, Tmax = 0.938 | k = −21→15 |
11481 measured reflections | l = −11→11 |
Refinement on F2 | 0 restraints |
Least-squares matrix: full | Hydrogen site location: mixed |
R[F2 > 2σ(F2)] = 0.045 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.118 | w = 1/[σ2(Fo2) + (0.0513P)2 + 0.2352P] where P = (Fo2 + 2Fc2)/3 |
S = 1.06 | (Δ/σ)max < 0.001 |
2510 reflections | Δρmax = 0.21 e Å−3 |
139 parameters | Δρmin = −0.39 e Å−3 |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes. |
x | y | z | Uiso*/Ueq | ||
C1 | 0.66425 (18) | 0.19218 (9) | 0.43123 (18) | 0.0367 (3) | |
H1 | 0.6340 | 0.2499 | 0.3976 | 0.044* | |
O1 | 0.65282 (15) | 0.17831 (8) | 0.58744 (14) | 0.0475 (3) | |
H1A | 0.725 (3) | 0.2105 (14) | 0.655 (3) | 0.071* | |
C11 | 0.53625 (18) | 0.13554 (9) | 0.30436 (19) | 0.0358 (3) | |
C12 | 0.5356 (2) | 0.05176 (10) | 0.3383 (2) | 0.0458 (4) | |
H12 | 0.6128 | 0.0313 | 0.4400 | 0.055* | |
C13 | 0.4232 (2) | −0.00168 (11) | 0.2247 (2) | 0.0533 (5) | |
H13 | 0.4239 | −0.0578 | 0.2492 | 0.064* | |
C14 | 0.3099 (2) | 0.02875 (12) | 0.0747 (2) | 0.0548 (5) | |
Cl14 | 0.16964 (9) | −0.03856 (4) | −0.07147 (8) | 0.0922 (3) | |
C15 | 0.3058 (3) | 0.11173 (14) | 0.0391 (2) | 0.0668 (6) | |
H15 | 0.2270 | 0.1321 | −0.0619 | 0.080* | |
C16 | 0.4198 (2) | 0.16462 (11) | 0.1546 (2) | 0.0538 (5) | |
H16 | 0.4175 | 0.2208 | 0.1304 | 0.065* | |
N21 | 0.88793 (16) | 0.21277 (8) | 0.32519 (16) | 0.0414 (3) | |
C22 | 0.84457 (18) | 0.17470 (9) | 0.43935 (18) | 0.0339 (3) | |
C23 | 0.9548 (2) | 0.12092 (11) | 0.5561 (2) | 0.0461 (4) | |
H23 | 0.9219 | 0.0959 | 0.6353 | 0.055* | |
C24 | 1.1140 (2) | 0.10498 (12) | 0.5534 (2) | 0.0537 (5) | |
H24 | 1.1899 | 0.0688 | 0.6304 | 0.064* | |
C25 | 1.1589 (2) | 0.14314 (12) | 0.4359 (3) | 0.0570 (5) | |
H25 | 1.2658 | 0.1335 | 0.4314 | 0.068* | |
C26 | 1.0431 (2) | 0.19599 (11) | 0.3247 (2) | 0.0523 (4) | |
H26 | 1.0741 | 0.2216 | 0.2446 | 0.063* |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0359 (8) | 0.0344 (8) | 0.0421 (8) | 0.0029 (6) | 0.0178 (7) | 0.0000 (6) |
O1 | 0.0520 (7) | 0.0526 (7) | 0.0455 (7) | −0.0078 (6) | 0.0272 (6) | −0.0106 (5) |
C11 | 0.0323 (7) | 0.0373 (8) | 0.0411 (8) | 0.0010 (6) | 0.0177 (6) | −0.0001 (6) |
C12 | 0.0452 (9) | 0.0401 (9) | 0.0485 (9) | 0.0034 (7) | 0.0142 (7) | 0.0020 (7) |
C13 | 0.0589 (11) | 0.0406 (9) | 0.0629 (12) | −0.0057 (9) | 0.0265 (10) | −0.0055 (8) |
C14 | 0.0524 (10) | 0.0617 (12) | 0.0497 (10) | −0.0168 (9) | 0.0194 (8) | −0.0134 (9) |
Cl14 | 0.0971 (5) | 0.0942 (5) | 0.0724 (4) | −0.0416 (4) | 0.0190 (3) | −0.0316 (3) |
C15 | 0.0667 (12) | 0.0685 (13) | 0.0465 (10) | −0.0118 (11) | 0.0019 (9) | 0.0068 (10) |
C16 | 0.0554 (10) | 0.0464 (10) | 0.0502 (10) | −0.0044 (8) | 0.0105 (8) | 0.0095 (8) |
N21 | 0.0390 (7) | 0.0417 (7) | 0.0450 (8) | −0.0018 (6) | 0.0182 (6) | 0.0005 (6) |
C22 | 0.0341 (7) | 0.0318 (7) | 0.0351 (8) | −0.0016 (6) | 0.0128 (6) | −0.0041 (6) |
C23 | 0.0452 (9) | 0.0492 (9) | 0.0430 (9) | 0.0064 (8) | 0.0162 (7) | 0.0031 (8) |
C24 | 0.0418 (9) | 0.0553 (11) | 0.0563 (11) | 0.0135 (8) | 0.0108 (8) | −0.0005 (9) |
C25 | 0.0357 (8) | 0.0633 (12) | 0.0748 (13) | 0.0032 (9) | 0.0245 (9) | −0.0093 (10) |
C26 | 0.0459 (9) | 0.0566 (11) | 0.0637 (11) | −0.0050 (9) | 0.0315 (9) | −0.0009 (9) |
C1—O1 | 1.4154 (18) | C15—C16 | 1.381 (3) |
C1—C11 | 1.512 (2) | C15—H15 | 0.9300 |
C1—C22 | 1.5206 (19) | C16—H16 | 0.9300 |
C1—H1 | 0.9800 | N21—C22 | 1.3335 (19) |
O1—H1A | 0.84 (2) | N21—C26 | 1.338 (2) |
C11—C16 | 1.371 (2) | C22—C23 | 1.382 (2) |
C11—C12 | 1.385 (2) | C23—C24 | 1.376 (2) |
C12—C13 | 1.373 (2) | C23—H23 | 0.9300 |
C12—H12 | 0.9300 | C24—C25 | 1.367 (3) |
C13—C14 | 1.371 (3) | C24—H24 | 0.9300 |
C13—H13 | 0.9300 | C25—C26 | 1.370 (3) |
C14—C15 | 1.373 (3) | C25—H25 | 0.9300 |
C14—Cl14 | 1.7376 (18) | C26—H26 | 0.9300 |
O1—C1—C11 | 107.86 (12) | C16—C15—H15 | 120.3 |
O1—C1—C22 | 111.56 (12) | C11—C16—C15 | 121.00 (17) |
C11—C1—C22 | 109.72 (11) | C11—C16—H16 | 119.5 |
O1—C1—H1 | 109.2 | C15—C16—H16 | 119.5 |
C11—C1—H1 | 109.2 | C22—N21—C26 | 117.48 (14) |
C22—C1—H1 | 109.2 | N21—C22—C23 | 122.29 (13) |
C1—O1—H1A | 105.9 (15) | N21—C22—C1 | 116.07 (13) |
C16—C11—C12 | 118.40 (15) | C23—C22—C1 | 121.63 (13) |
C16—C11—C1 | 121.82 (14) | C24—C23—C22 | 119.09 (16) |
C12—C11—C1 | 119.78 (14) | C24—C23—H23 | 120.5 |
C13—C12—C11 | 121.32 (16) | C22—C23—H23 | 120.5 |
C13—C12—H12 | 119.3 | C25—C24—C23 | 119.03 (17) |
C11—C12—H12 | 119.3 | C25—C24—H24 | 120.5 |
C14—C13—C12 | 119.13 (17) | C23—C24—H24 | 120.5 |
C14—C13—H13 | 120.4 | C24—C25—C26 | 118.56 (15) |
C12—C13—H13 | 120.4 | C24—C25—H25 | 120.7 |
C13—C14—C15 | 120.73 (17) | C26—C25—H25 | 120.7 |
C13—C14—Cl14 | 119.54 (15) | N21—C26—C25 | 123.55 (16) |
C15—C14—Cl14 | 119.73 (15) | N21—C26—H26 | 118.2 |
C14—C15—C16 | 119.40 (18) | C25—C26—H26 | 118.2 |
C14—C15—H15 | 120.3 | ||
O1—C1—C11—C16 | 129.16 (15) | C26—N21—C22—C23 | 1.2 (2) |
C22—C1—C11—C16 | −109.13 (16) | C26—N21—C22—C1 | −177.31 (14) |
O1—C1—C11—C12 | −51.14 (17) | O1—C1—C22—N21 | −156.41 (13) |
C22—C1—C11—C12 | 70.57 (17) | C11—C1—C22—N21 | 84.12 (16) |
C16—C11—C12—C13 | 0.9 (2) | O1—C1—C22—C23 | 25.1 (2) |
C1—C11—C12—C13 | −178.84 (14) | C11—C1—C22—C23 | −94.42 (16) |
C11—C12—C13—C14 | 0.2 (3) | N21—C22—C23—C24 | −1.0 (2) |
C12—C13—C14—C15 | −1.3 (3) | C1—C22—C23—C24 | 177.48 (15) |
C12—C13—C14—Cl14 | 178.90 (13) | C22—C23—C24—C25 | 0.3 (3) |
C13—C14—C15—C16 | 1.4 (3) | C23—C24—C25—C26 | 0.0 (3) |
Cl14—C14—C15—C16 | −178.83 (15) | C22—N21—C26—C25 | −0.9 (3) |
C12—C11—C16—C15 | −0.8 (3) | C24—C25—C26—N21 | 0.3 (3) |
C1—C11—C16—C15 | 178.90 (16) | C11—C1—O1—H1A | −180.0 (17) |
C14—C15—C16—C11 | −0.3 (3) |
D—H···A | D—H | H···A | D···A | D—H···A |
O1—H1A···N21i | 0.84 (2) | 2.01 (2) | 2.8444 (18) | 176 (2) |
Symmetry code: (i) x, −y+1/2, z+1/2. |
Acknowledgements
BN thanks the UGC (India) for financial assistance. The X-ray data were collected at SAIF, IIT, Madras, India.
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