Literature DB >> 21754004

(1H-Benzimidazole-5-carb-oxy-lic acid-κN)(1H-benzimidazole-6-carb-oxy-lic acid-κN)silver(I) perchlorate.

Li Ma1, Yu-Hua Huang, Jian-Feng Xu, Hong Deng.   

Abstract

The reaction of 1H-benzimidazole-5-carb-oxy-lic acid with n class="Chemical">silver nitrate in the presence of perchloric acid under hydro-thermal conditions yielded the title complex, [Ag(C(8)H(6)N(2)O(2))(2)]ClO(4), which comprises of an [Ag(C(8)H(6)N(2)O(2))(2)] mononuclear cation and a perchlorate anion. The Ag(I) ion is coordinated by two N atoms from two different neutral 1H-benzimidazole-5-carb-oxy-lic acid ligands with an N-Ag-N bond angle of 163.21 (14)°, forming an [Ag(C(8)H(6)N(2)O(2))(2)] mononuclear cation. Although both ligands in the mononuclear cation are monodentate with one N atom coordinated to the metal ion, they are different: one is N(3) coordinated to the Ag (I) ion and the N(1) atom protonated, the other with the N(1) coordinated to the Ag (I) ion and the N(3) atom protonated (and thus formally a 1H-benzimidazole-6-carb-oxy-lic acid rather than a 1H-benzimidazole-5-carb-oxy-lic acid ligand). The planes of the two planar ligands are roughly perpendicular, making a dihedral angle of 84.97 (2)°. The packing of the ions is stablized by extensive O-H⋯O, N-H⋯O and C-H⋯O hydrogen bonds, and by remote Ag⋯O inter-actions [3.002 (3), 3.581 (5) and 3.674 (5) Å].

Entities:  

Year:  2011        PMID: 21754004      PMCID: PMC3099977          DOI: 10.1107/S1600536811010427

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


Related literature

For related structures, see: Guo, Cao et al. (2007 ▶); Guo, Li et al. (2007 ▶); Liu et al. (2005 ▶); Peng, Ma et al. (2010 ▶); Peng, Qiu et al. (2010 ▶). For graph-set motifs of hydrogen bonds, see: Bernstein et al. (1995 ▶); Eppel & Bernstein (2008 ▶); Grell et al. (1999 ▶). For n class="Disease">van der Waals radii, see: Bondi (1964 ▶).

Experimental

Crystal data

[Ag(C8H6N2O2)2]ClO4 M = 531.62 Triclinic, a = 4.933 (2) Å b = 13.330 (5) Å c = 14.498 (6) Å α = 78.566 (5)° β = 89.111 (5)° γ = 82.554 (5)° V = 926.5 (6) Å3 Z = 2 Mo Kα radiation μ = 1.29 mm−1 T = 296 K 0.26 × 0.24 × 0.22 mm

Data collection

Bruker SMART APEX CCD diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.746, T max = 0.774 4604 measured reflections 3247 independent reflections 2630 reflections with I > 2σ(I) R int = 0.017

Refinement

R[F 2 > 2σ(F 2)] = 0.040 wR(F 2) = 0.103 S = 1.04 3247 reflections 273 parameters H-atom parameters constrained Δρmax = 0.62 e Å−3 Δρmin = −0.70 e Å−3 Data collection: APEX2 (Bruker, 2004 ▶); cell refinement: SAINT (Bruker, 2004 ▶); data reduction: SAINT; 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. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811010427/zl2355sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811010427/zl2355Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Ag(C8H6N2O2)2]ClO4Z = 2
Mr = 531.62F(000) = 528.0
Triclinic, P1Dx = 1.906 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 4.933 (2) ÅCell parameters from 3317 reflections
b = 13.330 (5) Åθ = 1.6–25.2°
c = 14.498 (6) ŵ = 1.29 mm1
α = 78.566 (5)°T = 296 K
β = 89.111 (5)°Prism, yellow
γ = 82.554 (5)°0.26 × 0.24 × 0.22 mm
V = 926.5 (6) Å3
Bruker SMART APEX CCD diffractometer3247 independent reflections
Radiation source: fine-focus sealed tube2630 reflections with I > 2σ(I)
graphiteRint = 0.017
ω scansθmax = 25.2°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −5→5
Tmin = 0.746, Tmax = 0.774k = −15→13
4604 measured reflectionsl = −16→17
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.040Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.103H-atom parameters constrained
S = 1.04w = 1/[σ2(Fo2) + (0.0581P)2 + 0.3563P] where P = (Fo2 + 2Fc2)/3
3247 reflections(Δ/σ)max = 0.001
273 parametersΔρmax = 0.62 e Å3
0 restraintsΔρmin = −0.70 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*/Ueq
Ag10.44123 (8)0.70811 (3)0.15898 (2)0.04721 (15)
C10.6189 (10)0.4842 (4)0.1256 (3)0.0466 (11)
H10.74300.50570.07930.056*
C20.3124 (8)0.4843 (3)0.2325 (3)0.0346 (9)
C30.3830 (9)0.3825 (3)0.2238 (3)0.0408 (10)
C40.2654 (10)0.3021 (4)0.2792 (3)0.0509 (12)
H40.31520.23380.27380.061*
C50.0729 (10)0.3286 (3)0.3421 (3)0.0471 (11)
H5−0.00920.27660.38040.057*
C6−0.0052 (9)0.4309 (3)0.3509 (3)0.0396 (10)
C70.1163 (9)0.5103 (3)0.2959 (3)0.0391 (10)
H70.06750.57860.30160.047*
C8−0.2186 (10)0.4595 (3)0.4175 (3)0.0446 (11)
C90.4393 (10)0.9464 (4)0.1285 (3)0.0456 (11)
H90.31700.96040.07800.055*
C100.6828 (9)0.8675 (3)0.2492 (3)0.0371 (10)
C110.7374 (9)0.9692 (3)0.2309 (3)0.0381 (10)
C120.9185 (9)1.0038 (3)0.2866 (3)0.0421 (10)
H120.95431.07190.27470.050*
C131.0426 (9)0.9313 (3)0.3608 (3)0.0390 (10)
C140.9860 (10)0.8291 (4)0.3798 (3)0.0482 (11)
H141.07090.78270.43080.058*
C150.8066 (10)0.7964 (3)0.3241 (3)0.0460 (11)
H150.76940.72840.33640.055*
C161.2386 (10)0.9636 (4)0.4219 (3)0.0457 (11)
Cl10.9204 (2)0.77011 (9)0.97296 (8)0.0448 (3)
N10.4642 (7)0.5474 (3)0.1693 (2)0.0408 (9)
N20.5791 (8)0.3854 (3)0.1548 (3)0.0493 (10)
H20.66100.33330.13430.059*
N30.4956 (8)0.8550 (3)0.1829 (2)0.0415 (9)
N40.5779 (8)1.0176 (3)0.1536 (3)0.0470 (9)
H4A0.56861.08150.12640.056*
O1−0.3280 (8)0.3835 (2)0.4671 (3)0.0581 (9)
H1A−0.45570.40620.49720.087*
O2−0.2846 (7)0.5503 (2)0.4241 (2)0.0608 (10)
O31.3333 (8)0.8956 (3)0.4925 (3)0.0672 (10)
H31.45220.91780.51870.101*
O41.3026 (8)1.0534 (3)0.4028 (2)0.0630 (10)
O51.0476 (7)0.7959 (3)0.8839 (2)0.0603 (9)
O60.6290 (6)0.7811 (3)0.9620 (2)0.0577 (9)
O71.0171 (10)0.6657 (4)1.0117 (4)0.1079 (18)
O80.9910 (9)0.8361 (5)1.0309 (4)0.117 (2)
U11U22U33U12U13U23
Ag10.0531 (3)0.0393 (2)0.0526 (2)−0.01424 (16)0.00379 (16)−0.01219 (16)
C10.042 (3)0.052 (3)0.049 (3)−0.009 (2)0.008 (2)−0.013 (2)
C20.031 (2)0.035 (2)0.038 (2)−0.0045 (17)−0.0032 (17)−0.0080 (18)
C30.043 (3)0.039 (2)0.043 (2)−0.005 (2)0.0001 (19)−0.014 (2)
C40.060 (3)0.033 (2)0.060 (3)−0.004 (2)0.006 (2)−0.013 (2)
C50.056 (3)0.035 (2)0.050 (3)−0.013 (2)0.006 (2)−0.005 (2)
C60.039 (3)0.038 (2)0.040 (2)−0.0033 (19)−0.0002 (19)−0.0044 (19)
C70.041 (3)0.031 (2)0.046 (2)−0.0022 (19)0.0006 (19)−0.0109 (19)
C80.047 (3)0.038 (3)0.047 (3)−0.008 (2)0.005 (2)−0.002 (2)
C90.048 (3)0.048 (3)0.042 (2)−0.006 (2)−0.003 (2)−0.013 (2)
C100.038 (3)0.037 (2)0.037 (2)−0.0034 (19)0.0048 (18)−0.0102 (18)
C110.041 (3)0.035 (2)0.038 (2)−0.0028 (19)−0.0024 (19)−0.0081 (18)
C120.047 (3)0.034 (2)0.045 (3)−0.005 (2)−0.003 (2)−0.007 (2)
C130.035 (2)0.041 (2)0.040 (2)−0.0063 (19)0.0032 (18)−0.0078 (19)
C140.057 (3)0.043 (3)0.040 (3)−0.001 (2)−0.004 (2)−0.001 (2)
C150.057 (3)0.032 (2)0.049 (3)−0.008 (2)−0.001 (2)−0.006 (2)
C160.048 (3)0.051 (3)0.038 (2)−0.002 (2)0.000 (2)−0.010 (2)
Cl10.0334 (6)0.0542 (7)0.0455 (6)−0.0021 (5)−0.0026 (5)−0.0084 (5)
N10.041 (2)0.038 (2)0.044 (2)−0.0047 (17)0.0058 (16)−0.0087 (17)
N20.055 (3)0.040 (2)0.056 (2)−0.0027 (18)0.0131 (19)−0.0196 (18)
N30.046 (2)0.037 (2)0.043 (2)−0.0096 (17)0.0016 (16)−0.0109 (17)
N40.058 (3)0.033 (2)0.047 (2)−0.0052 (18)−0.0090 (18)−0.0014 (17)
O10.059 (2)0.0433 (19)0.068 (2)−0.0067 (16)0.0241 (17)−0.0017 (16)
O20.071 (3)0.0371 (19)0.071 (2)−0.0037 (17)0.0301 (19)−0.0084 (16)
O30.079 (3)0.066 (2)0.054 (2)−0.016 (2)−0.0255 (19)−0.0008 (19)
O40.072 (3)0.054 (2)0.064 (2)−0.0176 (19)−0.0196 (18)−0.0074 (18)
O50.060 (2)0.067 (2)0.052 (2)−0.0115 (19)0.0080 (16)−0.0069 (17)
O60.0317 (18)0.064 (2)0.075 (2)−0.0046 (16)−0.0046 (15)−0.0080 (18)
O70.077 (3)0.087 (3)0.125 (4)0.011 (3)0.004 (3)0.051 (3)
O80.060 (3)0.199 (6)0.128 (4)−0.023 (3)0.010 (3)−0.120 (4)
Ag1—N12.106 (4)C10—C151.383 (6)
Ag1—N32.106 (4)C10—C111.390 (6)
C1—N11.313 (6)C10—N31.391 (5)
C1—N21.340 (6)C11—N41.379 (5)
C1—H10.9300C11—C121.393 (6)
C2—C71.383 (6)C12—C131.386 (6)
C2—C31.387 (6)C12—H120.9300
C2—N11.394 (5)C13—C141.399 (6)
C3—N21.379 (6)C13—C161.480 (6)
C3—C41.392 (6)C14—C151.373 (6)
C4—C51.368 (7)C14—H140.9300
C4—H40.9300C15—H150.9300
C5—C61.399 (6)C16—O41.255 (6)
C5—H50.9300C16—O31.275 (5)
C6—C71.390 (6)Cl1—O81.408 (4)
C6—C81.482 (6)Cl1—O71.416 (4)
C7—H70.9300Cl1—O51.426 (4)
C8—O21.234 (5)Cl1—O61.434 (3)
C8—O11.294 (5)N2—H20.8600
C9—N31.312 (6)N4—H4A0.8600
C9—N41.348 (6)O1—H1A0.8200
C9—H90.9300O3—H30.8200
N1—Ag1—N3163.21 (14)C13—C12—H12121.7
N1—C1—N2112.9 (4)C11—C12—H12121.7
N1—C1—H1123.6C12—C13—C14121.9 (4)
N2—C1—H1123.6C12—C13—C16118.8 (4)
C7—C2—C3121.0 (4)C14—C13—C16119.3 (4)
C7—C2—N1129.7 (4)C15—C14—C13120.8 (4)
C3—C2—N1109.3 (4)C15—C14—H14119.6
N2—C3—C2105.3 (4)C13—C14—H14119.6
N2—C3—C4132.8 (4)C14—C15—C10118.1 (4)
C2—C3—C4122.0 (4)C14—C15—H15121.0
C5—C4—C3116.6 (4)C10—C15—H15121.0
C5—C4—H4121.7O4—C16—O3123.8 (4)
C3—C4—H4121.7O4—C16—C13120.1 (4)
C4—C5—C6122.4 (4)O3—C16—C13116.1 (4)
C4—C5—H5118.8O8—Cl1—O7111.1 (4)
C6—C5—H5118.8O8—Cl1—O5108.7 (3)
C7—C6—C5120.4 (4)O7—Cl1—O5107.5 (3)
C7—C6—C8117.4 (4)O8—Cl1—O6109.9 (2)
C5—C6—C8122.3 (4)O7—Cl1—O6109.1 (3)
C2—C7—C6117.7 (4)O5—Cl1—O6110.6 (2)
C2—C7—H7121.2C1—N1—C2105.0 (4)
C6—C7—H7121.2C1—N1—Ag1131.1 (3)
O2—C8—O1123.2 (4)C2—N1—Ag1123.9 (3)
O2—C8—C6121.2 (4)C1—N2—C3107.5 (4)
O1—C8—C6115.6 (4)C1—N2—H2126.2
N3—C9—N4112.7 (4)C3—N2—H2126.2
N3—C9—H9123.7C9—N3—C10105.3 (4)
N4—C9—H9123.7C9—N3—Ag1130.1 (3)
C15—C10—C11121.0 (4)C10—N3—Ag1121.7 (3)
C15—C10—N3129.7 (4)C9—N4—C11107.4 (4)
C11—C10—N3109.2 (4)C9—N4—H4A126.3
N4—C11—C10105.4 (4)C11—N4—H4A126.3
N4—C11—C12133.0 (4)C8—O1—H1A109.5
C10—C11—C12121.7 (4)C16—O3—H3109.5
C13—C12—C11116.5 (4)
D—H···AD—HH···AD···AD—H···A
O1—H1A···O2i0.821.822.634 (5)173
N2—H2···O5ii0.862.152.983 (6)163
O3—H3···O4iii0.821.802.608 (6)168
N4—H4A···O6iv0.862.142.935 (6)153
C14—H14···O30.932.412.729 (6)100
C14—H14···O1v0.932.603.491 (6)162
C15—H15···O2vi0.932.513.398 (5)161
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1A⋯O2i0.821.822.634 (5)173
N2—H2⋯O5ii0.862.152.983 (6)163
O3—H3⋯O4iii0.821.802.608 (6)168
N4—H4A⋯O6iv0.862.142.935 (6)153
C14—H14⋯O1v0.932.603.491 (6)162
C15—H15⋯O2vi0.932.513.398 (5)161

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

  3 in total

1.  Statistical survey of hydrogen-bond motifs in crystallographic special symmetry positions, and the influence of chirality of molecules in the crystal on the formation of hydrogen-bond ring motifs.

Authors:  Sagi Eppel; Joel Bernstein
Journal:  Acta Crystallogr B       Date:  2008-01-17

2.  A short history of SHELX.

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

3.  Graph-set analysis of hydrogen-bond patterns: some mathematical concepts.

Authors: 
Journal:  Acta Crystallogr B       Date:  1999-12-01
  3 in total

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