Literature DB >> 21201075

μ-Squarato-κO:O-bis-{[2-(2-amino-ethyl)pyridine-κN,N']aqua-nickel(II)} squarate 0.25-hydrate.

Yunus Bekdemir, Ibrahim Uçar, Orhan Büyükgüngör.   

Abstract

The asymmetric unit of title compound, [Ni(2)(C(4)O(4))(C(7)H(10)N(2))(4)(H(2)O)(2)]C(4)O(4)·0.25H(2)O, contains one-half of a squarate ligand, one-half of an uncoordinated squarate dianion, two 2-(2-amino-ethyl)pyridine ligands and one aqua ligand, all coordinated to an Ni(II) ion. The compound also contains 0.25 solvent water mol-ecules. The Ni(II) ion has distorted octa-hedral geometry. The squarate ligand adopts a μ-1,2 coordination mode, the intra-dimer Ni(II)Ni(II) separation being 7.1442 (7) Å, while the other squarate unit acts as a counter-anion. The crystal structure is stabilized by inter-molecular O-H⋯O and N-H⋯O hydrogen-bond inter-actions, forming a three-dimensional network.

Entities:  

Year:  2008        PMID: 21201075      PMCID: PMC2959298          DOI: 10.1107/S1600536808030808

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


Related literature

For general background, see: Bernardinelli et al. (1989 ▶); Bulut et al. (2004 ▶); Castro et al. (1995 ▶, 1997 ▶); Crispini et al. (2000 ▶); Kirchmaier et al. (2003 ▶); Lee et al. (1996 ▶); Milet et al. (2003 ▶); Solans et al. (1990 ▶); Spek (2003 ▶); Trombe et al. (2002 ▶); Uçar (2008 ▶); Uçar et al. (2006 ▶, 2007 ▶); Yang et al. (2003 ▶).

Experimental

Crystal data

[Ni2(C4O4)(C7H10N2)4(H2O)2]C4O4·0.25H2O M = 870.16 Monoclinic, a = 28.037 (3) Å b = 8.0409 (5) Å c = 17.7752 (16) Å β = 103.572 (7)° V = 3895.3 (5) Å3 Z = 4 Mo Kα radiation μ = 1.03 mm−1 T = 297 (2) K 0.3 × 0.2 × 0.1 mm

Data collection

Stoe IPDSII diffractometer Absorption correction: integration (X-RED32; Stoe & Cie, 2002 ▶) T min = 0.49, T max = 0.81 12243 measured reflections 3809 independent reflections 3148 reflections with I > 2σ(I) R int = 0.042

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.073 S = 1.03 3809 reflections 282 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.28 e Å−3 Δρmin = −0.26 e Å−3 Data collection: X-AREA (Stoe & Cie, 2002 ▶); cell refinement: X-AREA; data reduction: X-RED32 (Stoe & Cie, 2002 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEPIII (Burnett & Johnson, 1996 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536808030808/pk2116sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808030808/pk2116Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Ni2(C4O4)(C7H10N2)4(H2O)2]C4O4·0.25H2OF(000) = 1816
Mr = 870.16Dx = 1.484 Mg m3
Monoclinic, C2/cMo Kα radiation, λ = 0.71069 Å
Hall symbol: -C 2ycCell parameters from 24222 reflections
a = 28.037 (3) Åθ = 1.7–28.0°
b = 8.0409 (5) ŵ = 1.03 mm1
c = 17.7752 (16) ÅT = 297 K
β = 103.572 (7)°Prism, blue
V = 3895.3 (5) Å30.3 × 0.2 × 0.1 mm
Z = 4
Stoe IPDS-II diffractometer3809 independent reflections
Radiation source: fine-focus sealed tube3148 reflections with I > 2σ(I)
graphiteRint = 0.042
Detector resolution: 6.67 pixels mm-1θmax = 26.0°, θmin = 2.4°
ω scansh = −34→34
Absorption correction: integration (X-RED32; Stoe & Cie, 2002)k = −9→9
Tmin = 0.49, Tmax = 0.81l = −21→21
12243 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.029Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.073H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0385P)2 + 0.9229P] where P = (Fo2 + 2Fc2)/3
3809 reflections(Δ/σ)max = 0.001
282 parametersΔρmax = 0.29 e Å3
0 restraintsΔρmin = −0.26 e Å3
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 > σ(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.
xyzUiso*/UeqOcc. (<1)
C10.01456 (9)0.6924 (3)0.42515 (16)0.0615 (6)
H10.00780.66220.37320.074*
C2−0.02378 (11)0.7007 (4)0.4607 (2)0.0880 (9)
H2−0.05570.67900.43310.106*
C3−0.01433 (14)0.7411 (5)0.5371 (3)0.1052 (12)
H3−0.03960.74860.56270.126*
C40.03335 (14)0.7707 (4)0.5755 (2)0.0885 (10)
H40.04060.79520.62810.106*
C50.07099 (10)0.7643 (3)0.53672 (15)0.0568 (6)
C60.12298 (10)0.7973 (3)0.57849 (13)0.0590 (6)
H6A0.12530.78860.63370.071*
H6B0.13110.91090.56790.071*
C70.16091 (9)0.6827 (3)0.55784 (13)0.0535 (5)
H7A0.19050.68460.59900.064*
H7B0.14850.56970.55290.064*
C80.18856 (8)0.9557 (3)0.32778 (14)0.0528 (5)
H80.19191.00990.37490.063*
C90.21215 (9)1.0213 (3)0.27497 (17)0.0667 (7)
H90.23111.11690.28650.080*
C100.20735 (10)0.9436 (3)0.20518 (17)0.0685 (7)
H100.22230.98640.16790.082*
C110.17984 (9)0.8010 (3)0.19165 (14)0.0586 (6)
H110.17590.74620.14450.070*
C120.15786 (8)0.7380 (2)0.24758 (12)0.0445 (4)
C130.13096 (9)0.5757 (3)0.23578 (13)0.0539 (5)
H13A0.13950.51750.19290.065*
H13B0.09600.59780.22160.065*
C140.14211 (8)0.4629 (2)0.30683 (13)0.0498 (5)
H14A0.13440.34880.29080.060*
H14B0.17680.46860.33130.060*
C150.02527 (7)0.9053 (2)0.27139 (11)0.0361 (4)
C160.02560 (8)1.0864 (2)0.27195 (12)0.0452 (5)
C170.24949 (7)0.8704 (2)0.01973 (11)0.0375 (4)
C180.21239 (7)0.7408 (2)−0.00476 (11)0.0375 (4)
N10.06135 (7)0.7253 (2)0.46111 (11)0.0472 (4)
N20.17263 (6)0.7340 (2)0.48476 (10)0.0404 (4)
N30.16111 (6)0.81826 (19)0.31494 (9)0.0396 (4)
N40.11369 (7)0.51155 (19)0.36278 (11)0.0407 (4)
O10.05537 (5)0.79065 (16)0.29572 (8)0.0449 (3)
O20.05610 (6)1.19590 (18)0.29910 (11)0.0663 (5)
O30.24837 (5)1.01589 (15)0.04408 (9)0.0487 (4)
O40.16716 (5)0.73117 (15)−0.01038 (9)0.0470 (3)
O50.10943 (6)1.01843 (17)0.41638 (11)0.0479 (4)
O60.00000.4863 (13)0.25000.121 (6)0.25
Ni10.114036 (8)0.76294 (2)0.391260 (13)0.03314 (8)
H5A0.1284 (10)1.079 (3)0.4454 (16)0.062 (8)*
H5B0.0958 (10)1.073 (3)0.3792 (16)0.062 (8)*
H2A0.1897 (8)0.829 (3)0.4946 (13)0.050 (6)*
H4B0.0829 (9)0.485 (3)0.3435 (14)0.052 (6)*
H4A0.1238 (8)0.454 (3)0.4042 (13)0.043 (6)*
H2B0.1917 (9)0.666 (3)0.4725 (14)0.051 (6)*
U11U22U33U12U13U23
C10.0446 (13)0.0681 (13)0.0736 (17)−0.0058 (11)0.0174 (12)0.0051 (12)
C20.0501 (17)0.107 (2)0.115 (3)−0.0029 (15)0.0356 (18)0.005 (2)
C30.077 (2)0.125 (3)0.135 (3)0.0032 (19)0.069 (2)−0.012 (2)
C40.096 (2)0.102 (2)0.085 (2)0.0014 (18)0.0552 (19)−0.0172 (17)
C50.0688 (15)0.0494 (11)0.0581 (14)0.0021 (10)0.0271 (12)−0.0041 (10)
C60.0784 (18)0.0595 (12)0.0405 (12)−0.0028 (12)0.0168 (12)−0.0056 (10)
C70.0616 (15)0.0523 (11)0.0414 (12)0.0008 (10)0.0017 (10)0.0058 (9)
C80.0499 (12)0.0523 (11)0.0573 (14)−0.0113 (10)0.0150 (10)−0.0018 (10)
C90.0566 (14)0.0622 (13)0.086 (2)−0.0107 (11)0.0271 (14)0.0122 (13)
C100.0680 (16)0.0727 (15)0.0763 (18)0.0119 (13)0.0403 (14)0.0257 (14)
C110.0643 (15)0.0691 (14)0.0469 (13)0.0177 (12)0.0221 (11)0.0091 (11)
C120.0422 (11)0.0507 (10)0.0412 (10)0.0092 (8)0.0109 (9)0.0028 (9)
C130.0606 (14)0.0580 (12)0.0442 (12)−0.0021 (10)0.0148 (10)−0.0159 (10)
C140.0523 (12)0.0358 (9)0.0623 (14)0.0000 (8)0.0152 (10)−0.0090 (9)
C150.0335 (10)0.0379 (9)0.0354 (10)−0.0017 (7)0.0048 (8)−0.0008 (7)
C160.0482 (12)0.0399 (9)0.0420 (11)−0.0030 (8)−0.0004 (9)0.0023 (8)
C170.0379 (10)0.0355 (8)0.0371 (10)0.0011 (7)0.0046 (9)0.0034 (7)
C180.0391 (10)0.0341 (8)0.0368 (9)0.0013 (7)0.0036 (8)0.0045 (7)
N10.0442 (10)0.0479 (9)0.0529 (10)−0.0028 (7)0.0181 (8)−0.0007 (8)
N20.0373 (9)0.0374 (8)0.0429 (9)0.0007 (7)0.0023 (7)−0.0019 (7)
N30.0379 (9)0.0415 (8)0.0390 (9)−0.0037 (6)0.0085 (7)0.0004 (7)
N40.0386 (10)0.0356 (8)0.0447 (10)−0.0031 (7)0.0033 (8)−0.0010 (7)
O10.0379 (7)0.0416 (7)0.0484 (8)0.0058 (6)−0.0039 (6)−0.0029 (6)
O20.0651 (11)0.0435 (7)0.0744 (12)−0.0173 (7)−0.0155 (9)0.0054 (7)
O30.0471 (8)0.0340 (6)0.0627 (10)0.0011 (6)0.0083 (7)−0.0049 (6)
O40.0369 (7)0.0426 (7)0.0590 (9)0.0006 (6)0.0061 (7)0.0018 (6)
O50.0455 (8)0.0366 (7)0.0543 (9)0.0007 (6)−0.0032 (7)−0.0056 (7)
O60.081 (8)0.056 (6)0.196 (16)0.000−0.027 (9)0.000
Ni10.03027 (13)0.03237 (12)0.03530 (13)−0.00067 (9)0.00469 (9)−0.00121 (9)
C1—N11.344 (3)C13—C141.527 (3)
C1—C21.371 (4)C13—H13A0.9700
C1—H10.9300C13—H13B0.9700
C2—C31.361 (5)C14—N41.466 (3)
C2—H20.9300C14—H14A0.9700
C3—C41.371 (5)C14—H14B0.9700
C3—H30.9300C15—O11.256 (2)
C4—C51.391 (4)C15—C15i1.442 (4)
C4—H40.9300C15—C161.456 (3)
C5—N11.344 (3)C16—O21.243 (2)
C5—C61.496 (4)C16—C16i1.464 (4)
C6—C71.516 (3)C17—O31.250 (2)
C6—H6A0.9700C17—C181.465 (2)
C6—H6B0.9700C17—C18ii1.465 (3)
C7—N21.471 (3)C18—O41.251 (2)
C7—H7A0.9700C18—C17ii1.465 (3)
C7—H7B0.9700N1—Ni12.1624 (17)
C8—N31.336 (3)N2—Ni12.0576 (17)
C8—C91.374 (3)N2—H2A0.90 (2)
C8—H80.9300N2—H2B0.83 (2)
C9—C101.367 (4)N3—Ni12.1495 (16)
C9—H90.9300N4—Ni12.0833 (15)
C10—C111.372 (4)N4—H4B0.88 (2)
C10—H100.9300N4—H4A0.86 (2)
C11—C121.383 (3)O1—Ni12.0803 (13)
C11—H110.9300O5—Ni12.1126 (14)
C12—N31.344 (3)O5—H5A0.81 (3)
C12—C131.497 (3)O5—H5B0.81 (3)
N1—C1—C2123.7 (3)C13—C14—H14B109.4
N1—C1—H1118.2H14A—C14—H14B108.0
C2—C1—H1118.2O1—C15—C15i132.78 (10)
C3—C2—C1118.8 (3)O1—C15—C16136.79 (18)
C3—C2—H2120.6C15i—C15—C1690.42 (11)
C1—C2—H2120.6O2—C16—C15135.5 (2)
C2—C3—C4118.5 (3)O2—C16—C16i134.90 (12)
C2—C3—H3120.8C15—C16—C16i89.58 (11)
C4—C3—H3120.8O3—C17—C18134.03 (18)
C3—C4—C5120.7 (3)O3—C17—C18ii135.44 (18)
C3—C4—H4119.6C18—C17—C18ii90.52 (15)
C5—C4—H4119.6O4—C18—C17ii135.81 (17)
N1—C5—C4120.4 (3)O4—C18—C17134.71 (17)
N1—C5—C6118.8 (2)C17ii—C18—C1789.48 (15)
C4—C5—C6120.8 (3)C1—N1—C5117.8 (2)
C5—C6—C7115.41 (19)C1—N1—Ni1118.46 (16)
C5—C6—H6A108.4C5—N1—Ni1122.50 (15)
C7—C6—H6A108.4C7—N2—Ni1116.32 (14)
C5—C6—H6B108.4C7—N2—H2A106.6 (15)
C7—C6—H6B108.4Ni1—N2—H2A110.4 (14)
H6A—C6—H6B107.5C7—N2—H2B109.6 (17)
N2—C7—C6110.98 (18)Ni1—N2—H2B107.7 (17)
N2—C7—H7A109.4H2A—N2—H2B106 (2)
C6—C7—H7A109.4C8—N3—C12117.74 (18)
N2—C7—H7B109.4C8—N3—Ni1118.55 (14)
C6—C7—H7B109.4C12—N3—Ni1122.65 (13)
H7A—C7—H7B108.0C14—N4—Ni1116.85 (12)
N3—C8—C9123.5 (2)C14—N4—H4B108.3 (15)
N3—C8—H8118.3Ni1—N4—H4B106.0 (14)
C9—C8—H8118.3C14—N4—H4A108.5 (14)
C10—C9—C8119.0 (2)Ni1—N4—H4A109.3 (14)
C10—C9—H9120.5H4B—N4—H4A108 (2)
C8—C9—H9120.5C15—O1—Ni1134.29 (12)
C9—C10—C11118.2 (2)Ni1—O5—H5A131.0 (18)
C9—C10—H10120.9Ni1—O5—H5B113.3 (18)
C11—C10—H10120.9H5A—O5—H5B108 (3)
C10—C11—C12120.5 (2)N2—Ni1—O1179.19 (7)
C10—C11—H11119.8N2—Ni1—N492.52 (7)
C12—C11—H11119.8O1—Ni1—N487.01 (6)
N3—C12—C11121.1 (2)N2—Ni1—O590.91 (7)
N3—C12—C13118.03 (18)O1—Ni1—O589.58 (6)
C11—C12—C13120.9 (2)N4—Ni1—O5176.22 (7)
C12—C13—C14113.80 (18)N2—Ni1—N392.36 (7)
C12—C13—H13A108.8O1—Ni1—N386.99 (6)
C14—C13—H13A108.8N4—Ni1—N390.91 (7)
C12—C13—H13B108.8O5—Ni1—N390.53 (6)
C14—C13—H13B108.8N2—Ni1—N192.52 (7)
H13A—C13—H13B107.7O1—Ni1—N188.16 (7)
N4—C14—C13111.35 (17)N4—Ni1—N192.23 (7)
N4—C14—H14A109.4O5—Ni1—N186.03 (6)
C13—C14—H14A109.4N3—Ni1—N1174.08 (6)
N4—C14—H14B109.4
N1—C1—C2—C3−1.4 (5)C13—C12—N3—C8174.5 (2)
C1—C2—C3—C4−0.5 (5)C11—C12—N3—Ni1164.32 (16)
C2—C3—C4—C51.9 (5)C13—C12—N3—Ni1−17.4 (3)
C3—C4—C5—N1−1.5 (4)C13—C14—N4—Ni1−48.4 (2)
C3—C4—C5—C6179.7 (3)C15i—C15—O1—Ni1−148.2 (2)
N1—C5—C6—C7−40.5 (3)C16—C15—O1—Ni133.2 (4)
C4—C5—C6—C7138.4 (2)C7—N2—Ni1—N4−85.75 (15)
C5—C6—C7—N279.8 (3)C7—N2—Ni1—O592.66 (15)
N3—C8—C9—C100.4 (4)C7—N2—Ni1—N3−176.77 (14)
C8—C9—C10—C11−1.3 (4)C7—N2—Ni1—N16.59 (15)
C9—C10—C11—C12−0.3 (4)C15—O1—Ni1—N4168.45 (19)
C10—C11—C12—N32.9 (3)C15—O1—Ni1—O5−9.92 (19)
C10—C11—C12—C13−175.3 (2)C15—O1—Ni1—N3−100.47 (19)
N3—C12—C13—C14−42.1 (3)C15—O1—Ni1—N176.12 (19)
C11—C12—C13—C14136.1 (2)C14—N4—Ni1—N2−92.56 (16)
C12—C13—C14—N480.6 (2)C14—N4—Ni1—O186.78 (16)
O1—C15—C16—O2−2.4 (5)C14—N4—Ni1—N3−0.16 (16)
C15i—C15—C16—O2178.7 (3)C14—N4—Ni1—N1174.82 (16)
O1—C15—C16—C16i178.5 (2)C8—N3—Ni1—N2−64.13 (16)
C15i—C15—C16—C16i−0.4 (2)C12—N3—Ni1—N2127.95 (16)
O3—C17—C18—O40.7 (4)C8—N3—Ni1—O1116.36 (16)
C18ii—C17—C18—O4−179.9 (3)C12—N3—Ni1—O1−51.57 (15)
O3—C17—C18—C17ii−179.4 (3)C8—N3—Ni1—N4−156.69 (16)
C18ii—C17—C18—C17ii0.0C12—N3—Ni1—N435.39 (16)
C2—C1—N1—C51.8 (4)C8—N3—Ni1—O526.81 (16)
C2—C1—N1—Ni1−165.8 (2)C12—N3—Ni1—O5−141.12 (16)
C4—C5—N1—C1−0.4 (3)C1—N1—Ni1—N2−164.45 (17)
C6—C5—N1—C1178.5 (2)C5—N1—Ni1—N228.56 (17)
C4—C5—N1—Ni1166.70 (19)C1—N1—Ni1—O115.11 (16)
C6—C5—N1—Ni1−14.4 (3)C5—N1—Ni1—O1−151.88 (17)
C6—C7—N2—Ni1−52.9 (2)C1—N1—Ni1—N4−71.83 (17)
C9—C8—N3—C122.1 (3)C5—N1—Ni1—N4121.19 (17)
C9—C8—N3—Ni1−166.43 (19)C1—N1—Ni1—O5104.81 (17)
C11—C12—N3—C8−3.7 (3)C5—N1—Ni1—O5−62.18 (17)
D—H···AD—HH···AD···AD—H···A
O5—H5A···O4iii0.81 (3)1.93 (3)2.716 (2)163 (3)
N2—H2A···O3iii0.90 (2)2.09 (2)2.935 (2)157 (2)
O5—H5B···O20.81 (3)1.87 (3)2.675 (2)172 (3)
N4—H4B···O2iv0.88 (2)2.52 (2)3.078 (2)122.6 (18)
N4—H4B···O60.88 (2)2.52 (3)3.350 (2)158 (2)
N4—H4A···O4v0.86 (2)2.27 (2)3.091 (2)161 (2)
N2—H2B···O3vi0.83 (2)2.14 (3)2.963 (2)169 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O5—H5A⋯O4i0.81 (3)1.93 (3)2.716 (2)163 (3)
N2—H2A⋯O3i0.90 (2)2.09 (2)2.935 (2)157 (2)
O5—H5B⋯O20.81 (3)1.87 (3)2.675 (2)172 (3)
N4—H4B⋯O2ii0.88 (2)2.52 (2)3.078 (2)122.6 (18)
N4—H4B⋯O60.88 (2)2.52 (3)3.350 (2)158 (2)
N4—H4A⋯O4iii0.86 (2)2.27 (2)3.091 (2)161 (2)
N2—H2B⋯O3iv0.83 (2)2.14 (3)2.963 (2)169 (2)

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

  2 in total

1.  Bis(1,10-phenanthroline-kappa2N,N')(squarato-kappaO)copper(II) trihydrate.

Authors:  Ahmet Bulut; Ibrahim Uçar; Okan Zafer Yeşilel; Hasan Içbudak; Halis Olmez; Orhan Büyükgüngör
Journal:  Acta Crystallogr C       Date:  2004-09-25       Impact factor: 1.172

2.  A short history of SHELX.

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

  2 in total

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