Literature DB >> 21202754

Diaqua-{2,6-bis-[N-(2-pyridinylmeth-yl)-carbamo-yl]-phenolato-κO,O}zinc(II).

Chomchai Suksai, Sarayut Watchasit, Thawatchai Tuntulani, Chaveng Pakawatchai.   

Abstract

In the title compound, [Zn(C(20)H(17)N(4)O(3))(2)(H(2)O)(2)], the Zn(II) atom, lying on a twofold rotation axis, is six-coordinated in a distorted octa-hedral geometry by two phenolate O atoms and two carbonyl O atoms from two 2,6-bis-[(pyridin-2-ylmeth-yl)-carbamo-yl]phenolate ligands and by two water mol-ecules. A three-dimensional network is built up from an extensive array of hydrogen bonds and π-π inter-actions between the pyridyl rings, with a centroid-centroid distance of 3.666 (3) Å.

Entities:  

Year:  2008        PMID: 21202754      PMCID: PMC2961791          DOI: 10.1107/S1600536808016693

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For related literature, see: Chaudhuri et al. (2007 ▶); Goldsmith et al. (2002 ▶); Gumbley & Stewart (1984 ▶); Ingle et al. (2007 ▶); Kimura (1994 ▶); Lipscomb & Sträter (1996 ▶); Szajna-Fuller et al. (2007 ▶).

Experimental

Crystal data

[Zn(C20H17N4O3)2(H2O)2] M = 824.18 Monoclinic, a = 16.357 (4) Å b = 14.723 (4) Å c = 15.135 (4) Å β = 91.938 (7)° V = 3642.9 (16) Å3 Z = 4 Mo Kα radiation μ = 0.74 mm−1 T = 293 (2) K 0.35 × 0.3 × 0.2 mm

Data collection

Bruker SMART APEX CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.757, T max = 0.854 21455 measured reflections 4398 independent reflections 3575 reflections with I > 2σ(I) R int = 0.061

Refinement

R[F 2 > 2σ(F 2)] = 0.060 wR(F 2) = 0.130 S = 1.11 4398 reflections 260 parameters H-atom parameters constrained Δρmax = 0.52 e Å−3 Δρmin = −0.42 e Å−3 Data collection: SMART (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and Mercury (Macrae et al., 2006 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536808016693/hy2136sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808016693/hy2136Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Zn(C20H17N4O3)2(H2O)2]F000 = 1712
Mr = 824.18Dx = 1.503 Mg m3
Monoclinic, C2/cMo Kα radiation λ = 0.71073 Å
Hall symbol: -C 2ycCell parameters from 4398 reflections
a = 16.357 (4) Åθ = 1.9–28.0º
b = 14.723 (4) ŵ = 0.74 mm1
c = 15.135 (4) ÅT = 293 (2) K
β = 91.938 (7)ºPrism, colourless
V = 3642.9 (16) Å30.35 × 0.3 × 0.2 mm
Z = 4
Bruker SMART APEX CCD area-detector diffractometer3575 reflections with I > 2σ(I)
Monochromator: graphiteRint = 0.061
T = 293(2) Kθmax = 28.0º
φ and ω scansθmin = 1.9º
Absorption correction: multi-scan(SADABS; Sheldrick, 1996)h = −21→21
Tmin = 0.757, Tmax = 0.854k = −19→19
21455 measured reflectionsl = −19→19
4398 independent reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.060H-atom parameters constrained
wR(F2) = 0.130  w = 1/[σ2(Fo2) + (0.0553P)2 + 3.7977P] where P = (Fo2 + 2Fc2)/3
S = 1.11(Δ/σ)max < 0.001
4398 reflectionsΔρmax = 0.52 e Å3
260 parametersΔρmin = −0.42 e Å3
Primary atom site location: structure-invariant direct methodsExtinction correction: none
Experimental. Compound (IV): To a solution of (III) (2.38 g, 10.2 mmol) in dry CH2Cl2 (5 ml) was added to a well stirred mixture of 2-(aminomethyl)-pyridine (2.60 ml, 25.5 mmol) and NEt3 (5.33 ml, 38.3 mmol) in dried CH2Cl2 (5 ml) under nitrogen atmosphere and the reaction was then left stirring overnight. Next, the solvent was removed under vacuum and the residue was purified by column chromatography on Al2O3 with 50% EtOAc:CH2Cl2 as eluent. The resulting pale yellow solid was recrystallized in diethyl ether to give a pure white solid (IV) (yield 68%, 2.68 g). m.p. 120–125 °C. 1H-NMR (400 MHz, CDCl3): δ 8.70 (s, 2H, –NH), 8.61 (d, J = 4.4 Hz, 2H, ArH), 8.20 (d, J = 8.0 Hz, 2H, ArH), 7.71 (m, 2H, PyH), 7.38 (m, 3H, ArH), 7.25 (m, 2H, ArH), 4.85 (s, 2H, –CH2–), 4.83 (s, 2H, –CH2–), 3.88 (s, 3H, –CH3). 13C-NMR (100 MHz, DMSO-d6): δ 164.90, 156.69, 156.53, 149.18, 136.81, 134.82, 127.60, 125.11, 122.45, 122.24, 63.83, 45.16.Compound (V): Anhydrous LiI (3.89 g, 28.9 mmol) was added to a well stirred solution of (IV) (0.78 g, 2.89 mmol) in anhydrous pyridine (20 ml) at room temperature. The reaction was allowed to proceed for 7 d with constant stirring. Then pyridine was removed in vacuum and the residue was dissloved in 1 M HCl (20 ml) and extracted with ethyl acetate (3 x 20 ml). The combined organic phase was dried over anhydrous Na2SO4, filtered and brought to dryness by rotary evaporation. The crude product was recrystallized in a solution of methanol and diethyl ether, giving (V) as a white solid (yield 92% ,0.95 g). m.p 100–103 °C. Analysis, calculated for C20H18N4O3: C 66.29, H 5.01, N 15.46%; found: C 66.31, H 4.99, N 15.45%. 1H-NMR (400 MHz, CDCl3): δ 8.77(s, 2H, –NH), 8.61 (d, J = 4.8 Hz, 2H, ArH), 8.11 (d, J = 7.6 Hz, 2H, ArH), 7.71 (m, 2H, ArH), 7.39 (d, J = 7.6 Hz, 2H, ArH), 7.26 (m, 2H, ArH), 7.03 (t, J = 8.0 Hz, 1H, ArH), 4.82 (s, 2H, –CH2–), 4.81 (s, 2H, –CH2–). 13C-NMR (100 MHz, CDCl3): δ 167.66, 160.59, 156.26, 149.06, 137.01, 133.28, 122.52, 122.08, 118.61, 117.94, 44.73. ESI: m/z 348.1458 [M+H+].
xyzUiso*/Ueq
C10.02286 (15)0.19100 (17)0.05522 (17)0.0236 (5)
C20.09384 (16)0.24793 (18)0.06360 (17)0.0269 (6)
C30.14191 (17)0.26133 (19)−0.0097 (2)0.0343 (6)
H30.18850.2972−0.00360.041*
C40.12260 (19)0.2232 (2)−0.0905 (2)0.0403 (7)
H40.1560.2329−0.13820.048*
C50.05325 (18)0.1705 (2)−0.10030 (19)0.0368 (7)
H50.03950.1457−0.15530.044*
C60.00339 (16)0.15366 (17)−0.02945 (17)0.0264 (6)
C7−0.06868 (17)0.09354 (18)−0.04851 (19)0.0312 (6)
C8−0.17697 (17)0.0002 (2)0.0089 (2)0.0389 (7)
H8A−0.183−0.03140.06450.047*
H8B−0.1619−0.0445−0.03470.047*
C9−0.25903 (17)0.04027 (19)−0.01925 (18)0.0299 (6)
C10−0.27189 (18)0.1306 (2)−0.0387 (2)0.0377 (7)
H10−0.22880.1718−0.03480.045*
C11−0.3496 (2)0.1594 (2)−0.0642 (2)0.0461 (8)
H11−0.35980.2203−0.07640.055*
C12−0.4113 (2)0.0968 (3)−0.0711 (2)0.0539 (9)
H12−0.46380.1139−0.08970.065*
C13−0.3936 (2)0.0081 (3)−0.0498 (3)0.0578 (10)
H13−0.4358−0.0343−0.05390.069*
C140.11584 (15)0.29456 (18)0.14819 (19)0.0291 (6)
C150.1960 (2)0.4212 (2)0.2162 (2)0.0428 (8)
H15A0.25480.41310.22190.051*
H15B0.17230.39910.27010.051*
C160.17668 (18)0.5211 (2)0.20506 (19)0.0352 (6)
N20.23880 (15)0.57968 (17)0.21397 (17)0.0372 (6)
C200.2219 (2)0.6684 (2)0.2034 (2)0.0478 (8)
H200.26470.70970.21040.057*
C190.1456 (3)0.7013 (3)0.1829 (2)0.0544 (9)
H190.1370.76330.17530.065*
C180.0825 (2)0.6416 (3)0.1738 (3)0.0615 (10)
H180.02980.66190.15990.074*
N10.16417 (16)0.36823 (17)0.14154 (17)0.0383 (6)
H10.17710.38510.08940.046*
C170.0979 (2)0.5508 (3)0.1857 (3)0.0553 (9)
H170.05530.50910.18060.066*
N3−0.11105 (14)0.06472 (16)0.01965 (16)0.0339 (5)
H3A−0.09870.08520.07160.041*
N4−0.31909 (16)−0.02078 (19)−0.02365 (19)0.0458 (7)
O1−0.02465 (11)0.17550 (13)0.12131 (12)0.0297 (4)
O20.09257 (12)0.26946 (14)0.22198 (13)0.0363 (5)
O3−0.08908 (14)0.07239 (16)−0.12543 (15)0.0473 (6)
O40.08829 (13)0.06216 (15)0.24782 (15)0.0431 (5)
Zn100.17016 (3)0.250.02664 (14)
H240.08470.02110.20860.052 (11)*
H230.14150.0670.24760.078 (14)*
U11U22U33U12U13U23
C10.0218 (12)0.0203 (12)0.0284 (13)0.0028 (10)−0.0027 (10)0.0033 (10)
C20.0270 (13)0.0237 (13)0.0299 (14)0.0008 (11)0.0002 (11)0.0035 (11)
C30.0272 (14)0.0312 (15)0.0447 (17)−0.0039 (12)0.0047 (12)0.0051 (13)
C40.0400 (17)0.0441 (18)0.0376 (17)0.0014 (14)0.0120 (13)0.0059 (14)
C50.0395 (16)0.0410 (17)0.0299 (15)0.0054 (14)0.0015 (12)−0.0021 (13)
C60.0261 (13)0.0243 (14)0.0286 (13)0.0041 (10)−0.0012 (10)0.0015 (10)
C70.0315 (14)0.0255 (14)0.0362 (16)0.0068 (11)−0.0054 (12)−0.0068 (12)
C80.0300 (15)0.0307 (16)0.055 (2)−0.0043 (12)−0.0110 (13)0.0031 (14)
C90.0305 (14)0.0292 (14)0.0296 (14)−0.0046 (11)−0.0042 (11)0.0031 (11)
C100.0344 (16)0.0315 (15)0.0472 (18)−0.0007 (13)−0.0008 (13)0.0027 (13)
C110.0454 (19)0.0428 (19)0.050 (2)0.0122 (15)−0.0002 (15)0.0050 (15)
C120.0333 (17)0.068 (2)0.060 (2)0.0082 (17)−0.0099 (15)0.0120 (19)
C130.0321 (17)0.062 (2)0.078 (3)−0.0144 (17)−0.0142 (17)0.019 (2)
C140.0208 (13)0.0247 (13)0.0412 (16)0.0002 (10)−0.0071 (11)0.0041 (12)
C150.0442 (18)0.0369 (17)0.0462 (19)−0.0125 (14)−0.0135 (14)0.0017 (14)
C160.0353 (16)0.0353 (16)0.0346 (16)−0.0068 (13)−0.0049 (12)0.0002 (12)
N20.0360 (13)0.0322 (13)0.0427 (14)−0.0078 (11)−0.0071 (11)−0.0002 (11)
C200.059 (2)0.0314 (16)0.052 (2)−0.0095 (16)−0.0073 (16)−0.0007 (15)
C190.078 (3)0.0413 (19)0.043 (2)0.0131 (19)−0.0050 (18)−0.0011 (15)
C180.046 (2)0.067 (3)0.071 (3)0.0168 (19)−0.0048 (18)−0.002 (2)
N10.0448 (15)0.0336 (13)0.0361 (14)−0.0177 (11)−0.0047 (11)0.0052 (11)
C170.0342 (18)0.060 (2)0.071 (3)−0.0095 (16)−0.0053 (17)−0.0001 (19)
N30.0292 (12)0.0327 (13)0.0393 (14)−0.0066 (10)−0.0069 (10)−0.0016 (10)
N40.0349 (14)0.0403 (15)0.0615 (18)−0.0121 (12)−0.0109 (12)0.0156 (13)
O10.0258 (9)0.0377 (11)0.0256 (9)−0.0075 (8)0.0001 (7)0.0014 (8)
O20.0420 (12)0.0356 (11)0.0309 (11)−0.0135 (9)−0.0033 (9)0.0007 (9)
O30.0514 (13)0.0489 (14)0.0410 (13)−0.0034 (11)−0.0087 (10)−0.0180 (11)
O40.0323 (12)0.0397 (12)0.0567 (14)0.0075 (9)−0.0049 (10)−0.0215 (11)
Zn10.0272 (2)0.0271 (2)0.0254 (2)0−0.00199 (16)0
C1—O11.307 (3)C13—H130.93
C1—C61.421 (4)C14—O21.248 (3)
C1—C21.434 (4)C14—N11.348 (3)
C2—C31.395 (4)C15—N11.455 (4)
C2—C141.486 (4)C15—C161.514 (4)
C3—C41.373 (4)C15—H15A0.97
C3—H30.93C15—H15B0.97
C4—C51.378 (4)C16—N21.336 (4)
C4—H40.93C16—C171.383 (4)
C5—C61.391 (4)N2—C201.344 (4)
C5—H50.93C20—C191.365 (5)
C6—C71.495 (4)C20—H200.93
C7—O31.240 (3)C19—C181.361 (6)
C7—N31.332 (4)C19—H190.93
C8—N31.442 (4)C18—C171.371 (5)
C8—C91.514 (4)C18—H180.93
C8—H8A0.97N1—H10.86
C8—H8B0.97C17—H170.93
C9—N41.332 (4)N3—H3A0.86
C9—C101.377 (4)O1—Zn11.9772 (18)
C10—C111.382 (4)O2—Zn12.1572 (19)
C10—H100.93O4—Zn12.149 (2)
C11—C121.368 (5)O4—H240.85
C11—H110.93O4—H230.87
C12—C131.374 (5)Zn1—O1i1.9772 (18)
C12—H120.93Zn1—O4i2.149 (2)
C13—N41.338 (4)Zn1—O2i2.1572 (19)
O1—C1—C6120.1 (2)C16—C15—H15A109.3
O1—C1—C2122.3 (2)N1—C15—H15B109.3
C6—C1—C2117.5 (2)C16—C15—H15B109.3
C3—C2—C1119.3 (2)H15A—C15—H15B108
C3—C2—C14119.5 (2)N2—C16—C17121.2 (3)
C1—C2—C14121.2 (2)N2—C16—C15117.5 (3)
C4—C3—C2122.1 (3)C17—C16—C15121.3 (3)
C4—C3—H3118.9C16—N2—C20117.6 (3)
C2—C3—H3118.9N2—C20—C19123.7 (3)
C3—C4—C5119.3 (3)N2—C20—H20118.2
C3—C4—H4120.4C19—C20—H20118.2
C5—C4—H4120.4C18—C19—C20118.6 (3)
C4—C5—C6121.3 (3)C18—C19—H19120.7
C4—C5—H5119.3C20—C19—H19120.7
C6—C5—H5119.3C19—C18—C17118.8 (4)
C5—C6—C1120.4 (2)C19—C18—H18120.6
C5—C6—C7115.9 (2)C17—C18—H18120.6
C1—C6—C7123.7 (2)C14—N1—C15124.6 (3)
O3—C7—N3121.1 (3)C14—N1—H1117.7
O3—C7—C6121.0 (3)C15—N1—H1117.7
N3—C7—C6117.8 (2)C18—C17—C16120.1 (3)
N3—C8—C9115.3 (2)C18—C17—H17119.9
N3—C8—H8A108.4C16—C17—H17119.9
C9—C8—H8A108.4C7—N3—C8122.0 (3)
N3—C8—H8B108.4C7—N3—H3A119
C9—C8—H8B108.4C8—N3—H3A119
H8A—C8—H8B107.5C9—N4—C13117.6 (3)
N4—C9—C10122.3 (3)C1—O1—Zn1130.85 (16)
N4—C9—C8113.4 (2)C14—O2—Zn1127.87 (18)
C10—C9—C8124.3 (3)Zn1—O4—H24121
C9—C10—C11119.2 (3)Zn1—O4—H23128
C9—C10—H10120.4H24—O4—H2396
C11—C10—H10120.4O1—Zn1—O1i175.44 (11)
C12—C11—C10118.9 (3)O1—Zn1—O4i85.97 (8)
C12—C11—H11120.5O1i—Zn1—O4i97.42 (8)
C10—C11—H11120.5O1—Zn1—O497.42 (8)
C11—C12—C13118.3 (3)O1i—Zn1—O485.97 (8)
C11—C12—H12120.8O4i—Zn1—O484.55 (12)
C13—C12—H12120.8O1—Zn1—O284.29 (7)
N4—C13—C12123.6 (3)O1i—Zn1—O292.61 (8)
N4—C13—H13118.2O4i—Zn1—O2168.82 (8)
C12—C13—H13118.2O4—Zn1—O291.26 (8)
O2—C14—N1120.2 (3)O1—Zn1—O2i92.61 (8)
O2—C14—C2124.2 (2)O1i—Zn1—O2i84.29 (7)
N1—C14—C2115.7 (2)O4i—Zn1—O2i91.26 (8)
N1—C15—C16111.5 (3)O4—Zn1—O2i168.82 (8)
N1—C15—H15A109.3O2—Zn1—O2i94.67 (12)
O1—C1—C2—C3179.9 (2)C17—C16—N2—C200.0 (5)
C6—C1—C2—C3−2.4 (4)C15—C16—N2—C20179.5 (3)
O1—C1—C2—C14−1.7 (4)C16—N2—C20—C19−1.0 (5)
C6—C1—C2—C14176.1 (2)N2—C20—C19—C181.0 (6)
C1—C2—C3—C41.4 (4)C20—C19—C18—C170.0 (6)
C14—C2—C3—C4−177.1 (3)O2—C14—N1—C152.9 (4)
C2—C3—C4—C50.5 (5)C2—C14—N1—C15−177.0 (3)
C3—C4—C5—C6−1.3 (5)C16—C15—N1—C14−127.1 (3)
C4—C5—C6—C10.2 (4)C19—C18—C17—C16−1.0 (6)
C4—C5—C6—C7−178.5 (3)N2—C16—C17—C181.0 (5)
O1—C1—C6—C5179.4 (2)C15—C16—C17—C18−178.5 (3)
C2—C1—C6—C51.6 (4)O3—C7—N3—C86.7 (4)
O1—C1—C6—C7−1.9 (4)C6—C7—N3—C8−174.4 (2)
C2—C1—C6—C7−179.8 (2)C9—C8—N3—C7−83.3 (4)
C5—C6—C7—O3−10.8 (4)C10—C9—N4—C131.4 (5)
C1—C6—C7—O3170.5 (3)C8—C9—N4—C13−178.6 (3)
C5—C6—C7—N3170.3 (2)C12—C13—N4—C9−0.8 (6)
C1—C6—C7—N3−8.4 (4)C6—C1—O1—Zn1151.87 (19)
N3—C8—C9—N4−176.5 (3)C2—C1—O1—Zn1−30.4 (4)
N3—C8—C9—C103.5 (5)N1—C14—O2—Zn1168.55 (19)
N4—C9—C10—C11−0.3 (5)C2—C14—O2—Zn1−11.5 (4)
C8—C9—C10—C11179.7 (3)C1—O1—Zn1—O4i−143.2 (2)
C9—C10—C11—C12−1.4 (5)C1—O1—Zn1—O4−59.2 (2)
C10—C11—C12—C131.9 (5)C1—O1—Zn1—O231.3 (2)
C11—C12—C13—N4−0.8 (6)C1—O1—Zn1—O2i125.8 (2)
C3—C2—C14—O2−159.3 (3)C14—O2—Zn1—O1−9.8 (2)
C1—C2—C14—O222.2 (4)C14—O2—Zn1—O1i173.6 (2)
C3—C2—C14—N120.6 (4)C14—O2—Zn1—O4i19.8 (6)
C1—C2—C14—N1−157.9 (2)C14—O2—Zn1—O487.6 (2)
N1—C15—C16—N2−127.8 (3)C14—O2—Zn1—O2i−101.9 (2)
N1—C15—C16—C1751.7 (4)
D—H···AD—HH···AD···AD—H···A
N3—H3A···O10.861.932.623 (3)136
N1—H1···N4ii0.862.203.007 (4)155
O4—H24···O3iii0.851.872.712 (3)174
O4—H23···N2iv0.872.032.879 (3)163
O1—Zn11.9772 (18)
O2—Zn12.1572 (19)
O4—Zn12.149 (2)
O1—Zn1—O1i175.44 (11)
O1—Zn1—O4i85.97 (8)
O1—Zn1—O497.42 (8)
O4i—Zn1—O484.55 (12)
O1—Zn1—O284.29 (7)
O4—Zn1—O291.26 (8)
O1—Zn1—O2i92.61 (8)
O4—Zn1—O2i168.82 (8)
O2—Zn1—O2i94.67 (12)

Symmetry code: (i) .

Table 2

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N3—H3A⋯O10.861.932.623 (3)136
N1—H1⋯N4ii0.862.203.007 (4)155
O4—H24⋯O3iii0.851.872.712 (3)174
O4—H23⋯N2iv0.872.032.879 (3)163

Symmetry codes: (ii) ; (iii) ; (iv) .

  5 in total

1.  Recent Advances in Zinc Enzymology.

Authors:  William N. Lipscomb; Norbert Sträter
Journal:  Chem Rev       Date:  1996-11-07       Impact factor: 60.622

2.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

3.  Influence of the chelate ligand structure on the amide methanolysis reactivity of mononuclear zinc complexes.

Authors:  Gajendrasingh K Ingle; Magdalena M Makowska-Grzyska; Ewa Szajna-Fuller; Indranil Sen; John C Price; Atta M Arif; Lisa M Berreau
Journal:  Inorg Chem       Date:  2007-01-24       Impact factor: 5.165

4.  Amide hydrolysis reactivity of a N4O-ligated zinc complex: comparison of kinetic and themodynamic parameters with those of the corresponding amide methanolysis reaction.

Authors:  Ewa Szajna-Fuller; Gajendrasingh K Ingle; Rex W Watkins; Atta M Arif; Lisa M Berreau
Journal:  Inorg Chem       Date:  2007-03-02       Impact factor: 5.165

5.  C-H bond activation by a ferric methoxide complex: modeling the rate-determining step in the mechanism of lipoxygenase.

Authors:  Christian R Goldsmith; Robert T Jonas; T Daniel P Stack
Journal:  J Am Chem Soc       Date:  2002-01-09       Impact factor: 15.419

  5 in total

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