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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2008 May 10;64(Pt 6):o1053. doi: 10.1107/S160053680800812X

(E)-4-[(4-Amino-5-bromo­pyridin-3-yl)­iminometh­yl]phenol

Mingjian Cai a, Mingjie Zhang a,*, Yongliang Hu a
PMCID: PMC2961383  PMID: 21202572

Abstract

In the mol­ecule of the title compound, C12H10BrN3O, the pyridine and benzene rings are oriented at a dihedral angle of 34.93 (3)°. Intra­molecular N—H⋯N and N—H⋯Br hydrogen bonds result in the formation of two non-planar five-membered rings. In the crystal structure, inter­molecular O—H⋯N and N—H⋯O hydrogen bonds link the mol­ecules to form a three-dimensional network.

Related literature

For general background, see: Liu et al. (2002).graphic file with name e-64-o1053-scheme1.jpg

Experimental

Crystal data

  • C12H10BrN3O

  • M r = 292.14

  • Monoclinic, Inline graphic

  • a = 4.9607 (10) Å

  • b = 15.586 (3) Å

  • c = 14.906 (3) Å

  • β = 95.65 (3)°

  • V = 1146.9 (4) Å3

  • Z = 4

  • Mo Kα radiation

  • μ = 3.57 mm−1

  • T = 113 (2) K

  • 0.10 × 0.08 × 0.06 mm

Data collection

  • Rigaku Saturn diffractometer

  • Absorption correction: multi-scan (Blessing, 1995) T min = 0.717, T max = 0.814

  • 14191 measured reflections

  • 2739 independent reflections

  • 2123 reflections with I > 2σ(I)

  • R int = 0.053

Refinement

  • R[F 2 > 2σ(F 2)] = 0.040

  • wR(F 2) = 0.100

  • S = 1.02

  • 2739 reflections

  • 163 parameters

  • 2 restraints

  • H atoms treated by a mixture of independent and constrained refinement

  • Δρmax = 0.53 e Å−3

  • Δρmin = −0.59 e Å−3

Data collection: CrystalClear (Rigaku/MSC, 2005); cell refinement: CrystalClear; data reduction: CrystalClear; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL and PLATON (Spek, 2003).

Supplementary Material

Crystal structure: contains datablocks global, I. DOI: 10.1107/S160053680800812X/hk2438sup1.cif

e-64-o1053-sup1.cif (16.5KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S160053680800812X/hk2438Isup2.hkl

e-64-o1053-Isup2.hkl (134.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report

Table 1. Hydrogen-bond geometry (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A
O1—H1⋯N1i 0.82 1.88 2.688 (3) 167
N3—H3A⋯Br1 0.877 (18) 2.72 (3) 3.125 (4) 110.0 (19)
N3—H3A⋯O1ii 0.877 (18) 2.54 (2) 2.967 (5) 111.0 (19)
N3—H3B⋯N2 0.889 (16) 2.28 (3) 2.700 (5) 109 (2)

Symmetry codes: (i) Inline graphic; (ii) Inline graphic.

supplementary crystallographic information

Comment

Schiff bases, as substrates, are important organic intermediates. Their recent applications in asymmetric catalytic hydrogenation, asymmetric chemical reduction and oxidation and asymmetric alkylidation of carbon atom, as well as reactions with Lawessen regent are very active (Liu et al., 2002). We have recently synthesized the novel title compound, (I), and report herein its crystal structure.

In the molecule of the title compound, (I), (Fig. 1) the bond lengths and angles are within normal ranges. Rings A (N1/C1–C5) and B (C7–C12) are, of course, planar and the dihedral angle between them is A/B = 34.93 (3)°. The intramolecular N—H···N and N—H···Br hydrogen bonds (Table 1) result in the formation of two non-planar five-membered rings; C (N2/C4/C5/N3/H3B) and D (Br1/C1/C5/N3/H3A).

In the crystal structure, intermolecular O—H···N and N—H···O hydrogen bonds (Table 1) link the molecules to form a three-dimensional network (Fig. 2), in which they may be effective in the stabilization of the structure.

Experimental

5-bromopyridine-3,4-diamine (1.88 g, 10 mmol) was added to a solution of 4-hydroxybenzaldehyde (1.22 g, 10 mmol)in MeOH (50 ml). The solution was refluxed for 10 h, and then dried over magnesium sulfate, filtered and the volatiles were removed under reduced pressure. The crude product was further purified and recystallized from MeOH affording yellow crystals of (I) (yield; 70%).

Refinement

H atoms (for NH2) were located in a difference synthesis and refined isotropically [N—H = 0.876 (10) and 0.889 (10) Å; Uiso(H) = 0.028 (8) and 0.027 (8) Å2]. The remaining H atoms were positioned geometrically, with O—H = 0.82 Å (for OH) and C—H = 0.93 Å for aromatic H, respectively, and constrained to ride on their parent atoms with Uiso(H) = xUeq(C,O), where x = 1.5 for OH H and x = 1.2 for aromatic H atoms.

Figures

Fig. 1.

Fig. 1.

The molecular structure of the title molecule, with the atom-numbering scheme. Displacement ellipsoids are drawn at the 35% probability level.

Fig. 2.

Fig. 2.

A partial packing diagram of (I). Hydrogen bonds are shown as dashed lines.

Crystal data

C12H10BrN3O F000 = 584
Mr = 292.14 Dx = 1.692 Mg m3
Monoclinic, P21/n Mo Kα radiation λ = 0.71073 Å
Hall symbol: -P 2yn Cell parameters from 3259 reflections
a = 4.9607 (10) Å θ = 1.9–27.8º
b = 15.586 (3) Å µ = 3.57 mm1
c = 14.906 (3) Å T = 113 (2) K
β = 95.65 (3)º Plate, yellow
V = 1146.9 (4) Å3 0.10 × 0.08 × 0.06 mm
Z = 4

Data collection

Rigaku Saturn diffractometer 2739 independent reflections
Radiation source: rotating anode 2123 reflections with I > 2σ(I)
Monochromator: confocal Rint = 0.053
T = 113(2) K θmax = 27.9º
ω scans θmin = 2.6º
Absorption correction: multi-scan(Blessing, 1995) h = −6→6
Tmin = 0.717, Tmax = 0.814 k = −20→20
14191 measured reflections l = −19→19

Refinement

Refinement on F2 Secondary atom site location: difference Fourier map
Least-squares matrix: full Hydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.040 H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.100   w = 1/[σ2(Fo2) + (0.0558P)2 + 0.0115P] where P = (Fo2 + 2Fc2)/3
S = 1.02 (Δ/σ)max = 0.001
2739 reflections Δρmax = 0.53 e Å3
163 parameters Δρmin = −0.59 e Å3
2 restraints Extinction correction: none
Primary atom site location: structure-invariant direct methods

Special details

Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes.
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > 2sigma(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger.

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

x y z Uiso*/Ueq
Br1 0.22060 (6) 0.579793 (19) 0.40491 (2) 0.03830 (14)
O1 1.2134 (4) 0.29970 (11) −0.18529 (12) 0.0258 (4)
H1 1.2791 0.2515 −0.1871 0.039*
N1 −0.0149 (4) 0.34708 (13) 0.29398 (14) 0.0207 (5)
N2 0.4754 (4) 0.40060 (14) 0.12855 (15) 0.0214 (5)
N3 0.5400 (5) 0.53733 (15) 0.23987 (17) 0.0263 (5)
C1 0.1953 (5) 0.48149 (16) 0.32940 (17) 0.0213 (5)
C2 0.0159 (5) 0.41727 (16) 0.34483 (18) 0.0220 (6)
H2 −0.0886 0.4231 0.3930 0.026*
C3 0.1392 (5) 0.34101 (15) 0.22483 (17) 0.0197 (5)
H3 0.1206 0.2921 0.1890 0.024*
C4 0.3231 (5) 0.40235 (16) 0.20351 (17) 0.0199 (5)
C5 0.3553 (5) 0.47740 (16) 0.25818 (17) 0.0202 (5)
C6 0.5619 (5) 0.32877 (16) 0.10100 (17) 0.0209 (5)
H6 0.5200 0.2789 0.1310 0.025*
C7 0.7226 (5) 0.32179 (16) 0.02482 (17) 0.0192 (5)
C8 0.7946 (5) 0.39343 (16) −0.02422 (18) 0.0224 (6)
H8 0.7318 0.4474 −0.0098 0.027*
C9 0.9575 (5) 0.38505 (16) −0.09363 (18) 0.0232 (6)
H9 1.0021 0.4333 −0.1257 0.028*
C10 1.0566 (5) 0.30420 (16) −0.11623 (17) 0.0202 (5)
C11 0.9849 (5) 0.23290 (16) −0.06839 (17) 0.0208 (5)
H11 1.0475 0.1789 −0.0829 0.025*
C12 0.8202 (5) 0.24182 (16) 0.00099 (17) 0.0213 (6)
H12 0.7736 0.1933 0.0324 0.026*
H3A 0.508 (6) 0.5891 (10) 0.2593 (19) 0.028 (8)*
H3B 0.590 (5) 0.5330 (19) 0.1844 (9) 0.027 (8)*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
Br1 0.0515 (2) 0.02764 (19) 0.0375 (2) −0.00060 (13) 0.01289 (16) −0.01098 (13)
O1 0.0335 (11) 0.0214 (9) 0.0253 (10) 0.0049 (8) 0.0168 (8) 0.0036 (8)
N1 0.0210 (11) 0.0234 (11) 0.0186 (11) 0.0013 (9) 0.0061 (9) 0.0025 (9)
N2 0.0192 (11) 0.0245 (11) 0.0212 (12) 0.0001 (9) 0.0060 (9) 0.0012 (9)
N3 0.0292 (13) 0.0188 (12) 0.0321 (14) −0.0044 (10) 0.0090 (11) −0.0002 (10)
C1 0.0241 (13) 0.0191 (12) 0.0207 (13) 0.0038 (10) 0.0024 (11) −0.0032 (10)
C2 0.0235 (14) 0.0238 (13) 0.0195 (13) 0.0042 (11) 0.0067 (11) 0.0009 (11)
C3 0.0220 (13) 0.0181 (12) 0.0194 (13) 0.0009 (10) 0.0038 (10) −0.0005 (10)
C4 0.0211 (13) 0.0219 (12) 0.0171 (13) 0.0029 (10) 0.0040 (10) 0.0014 (10)
C5 0.0205 (13) 0.0185 (12) 0.0211 (13) 0.0032 (10) 0.0003 (10) 0.0015 (10)
C6 0.0187 (13) 0.0227 (13) 0.0216 (13) −0.0001 (10) 0.0042 (10) 0.0021 (11)
C7 0.0181 (12) 0.0229 (13) 0.0168 (13) −0.0019 (10) 0.0030 (10) 0.0001 (10)
C8 0.0235 (13) 0.0191 (12) 0.0253 (14) 0.0027 (11) 0.0063 (11) 0.0031 (11)
C9 0.0269 (14) 0.0180 (12) 0.0259 (14) 0.0019 (11) 0.0093 (11) 0.0058 (11)
C10 0.0196 (13) 0.0223 (12) 0.0193 (13) −0.0008 (10) 0.0039 (10) 0.0022 (10)
C11 0.0222 (13) 0.0186 (12) 0.0222 (13) −0.0003 (10) 0.0054 (11) −0.0001 (10)
C12 0.0228 (13) 0.0187 (12) 0.0229 (14) −0.0013 (10) 0.0059 (11) 0.0025 (10)

Geometric parameters (Å, °)

Br1—C1 1.898 (2) C3—H3 0.9300
O1—C10 1.352 (3) C4—C5 1.426 (3)
O1—H1 0.8200 C6—C7 1.455 (3)
N1—C2 1.331 (3) C6—H6 0.9300
N1—C3 1.346 (3) C7—C12 1.396 (3)
N2—C6 1.281 (3) C7—C8 1.400 (3)
N2—C4 1.409 (3) C8—C9 1.380 (4)
N3—C5 1.355 (3) C8—H8 0.9300
N3—H3A 0.876 (10) C9—C10 1.406 (3)
N3—H3B 0.889 (10) C9—H9 0.9300
C1—C2 1.374 (4) C10—C11 1.386 (3)
C1—C5 1.388 (4) C11—C12 1.387 (3)
C2—H2 0.9300 C11—H11 0.9300
C3—C4 1.380 (3) C12—H12 0.9300
C10—O1—H1 109.5 N2—C6—C7 122.8 (2)
C2—N1—C3 116.9 (2) N2—C6—H6 118.6
C6—N2—C4 119.6 (2) C7—C6—H6 118.6
C5—N3—H3A 115 (2) C12—C7—C8 117.8 (2)
C5—N3—H3B 113.1 (19) C12—C7—C6 119.7 (2)
H3A—N3—H3B 117 (3) C8—C7—C6 122.4 (2)
C2—C1—C5 121.5 (2) C9—C8—C7 120.9 (2)
C2—C1—Br1 119.7 (2) C9—C8—H8 119.5
C5—C1—Br1 118.76 (19) C7—C8—H8 119.5
N1—C2—C1 122.9 (2) C8—C9—C10 120.6 (2)
N1—C2—H2 118.5 C8—C9—H9 119.7
C1—C2—H2 118.5 C10—C9—H9 119.7
N1—C3—C4 124.5 (2) O1—C10—C11 123.1 (2)
N1—C3—H3 117.8 O1—C10—C9 118.0 (2)
C4—C3—H3 117.8 C11—C10—C9 118.8 (2)
C3—C4—N2 126.0 (2) C10—C11—C12 120.2 (2)
C3—C4—C5 118.4 (2) C10—C11—H11 119.9
N2—C4—C5 115.5 (2) C12—C11—H11 119.9
N3—C5—C1 124.8 (2) C11—C12—C7 121.6 (2)
N3—C5—C4 119.4 (2) C11—C12—H12 119.2
C1—C5—C4 115.8 (2) C7—C12—H12 119.2
C3—N1—C2—C1 −0.2 (4) N2—C4—C5—C1 176.8 (2)
C5—C1—C2—N1 0.7 (4) C4—N2—C6—C7 −179.3 (2)
Br1—C1—C2—N1 179.2 (2) N2—C6—C7—C12 177.2 (2)
C2—N1—C3—C4 −0.4 (4) N2—C6—C7—C8 −0.1 (4)
N1—C3—C4—N2 −175.8 (2) C12—C7—C8—C9 −0.2 (4)
N1—C3—C4—C5 0.4 (4) C6—C7—C8—C9 177.1 (2)
C6—N2—C4—C3 −35.7 (4) C7—C8—C9—C10 −0.5 (4)
C6—N2—C4—C5 148.0 (2) C8—C9—C10—O1 179.5 (2)
C2—C1—C5—N3 −178.7 (2) C8—C9—C10—C11 0.8 (4)
Br1—C1—C5—N3 2.9 (3) O1—C10—C11—C12 −179.1 (2)
C2—C1—C5—C4 −0.7 (4) C9—C10—C11—C12 −0.6 (4)
Br1—C1—C5—C4 −179.13 (17) C10—C11—C12—C7 −0.1 (4)
C3—C4—C5—N3 178.2 (2) C8—C7—C12—C11 0.5 (4)
N2—C4—C5—N3 −5.1 (3) C6—C7—C12—C11 −176.9 (2)
C3—C4—C5—C1 0.2 (3)

Hydrogen-bond geometry (Å, °)

D—H···A D—H H···A D···A D—H···A
O1—H1···N1i 0.82 1.88 2.688 (3) 167
N3—H3A···Br1 0.877 (18) 2.72 (3) 3.125 (4) 110.0 (19)
N3—H3A···O1ii 0.877 (18) 2.54 (2) 2.967 (5) 111.0 (19)
N3—H3B···N2 0.889 (16) 2.28 (3) 2.700 (5) 109 (2)

Symmetry codes: (i) x+3/2, −y+1/2, z−1/2; (ii) −x+2, −y+1, −z.

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: HK2438).

References

  1. Blessing, R. H. (1995). Acta Cryst. A51, 33–38. [DOI] [PubMed]
  2. Liu, X.-L., Liu, Y.-H., Shi, Y.-C. & Jian, P.-M. (2002). Chin. J. Org. Chem.22, 482-488.
  3. Rigaku/MSC (2005). CrystalClear Rigaku/MSC, The Woodlands, Texas, USA.
  4. Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
  5. Spek, A. L. (2003). J. Appl. Cryst.36, 7–13.

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablocks global, I. DOI: 10.1107/S160053680800812X/hk2438sup1.cif

e-64-o1053-sup1.cif (16.5KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S160053680800812X/hk2438Isup2.hkl

e-64-o1053-Isup2.hkl (134.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report


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