Literature DB >> 21754202

N,N-Dimethyl-propane-1,2-diaminium bis-(6-carb-oxy-pyridine-2-carboxyl-ate) monohydrate.

Hossein Aghabozorg, Mahsa Foroughian, Alireza Foroumadi, Giuseppe Bruno, Hadi Amiri Rudbari.   

Abstract

The asymmetric unit of the title proton-transfer compound, C(5)H(16)N(2) (2+)·2C(7)H(4)NO(4) (-)·H(2)O, consists of two mono-deproton-ated pyridine-2,6-dicarb-oxy-lic acid mol-ecules as anions, viz. (py-2,6-dcH)(-), one diprotonated N(1),N(1)-dimethyl-propane-1,2-diamine mol-ecule as a cation, viz. (dmpdaH(2))(2+), and one water mol-ecule. The crystal packing shows extensive O-H⋯O, N-H⋯O, N-H⋯N and O-H⋯N and weak inter-molecular C-H⋯O hydrogen bonds. These inter-actions link the (dmpdaH(2))(2+) cation, the (py-2,6-dcH)(-) anions and water mol-ecule and play an important role in the stabilization of crystal packing.

Entities:  

Year:  2011        PMID: 21754202      PMCID: PMC3100043          DOI: 10.1107/S1600536811009287

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


Related literature

For background to proton-transfer compounds, see: Aghabozorg et al. (2008 ▶). For related structures, see: Aghabozorg, Bayan et al. (2011 ▶); Aghabozorg, Mofidi Rouchi et al. (2011 ▶); Aghabozorg, Saemi et al. (2011 ▶); Sharif et al. (2010 ▶).

Experimental

Crystal data

C5H16N2 2+·2C7H4NO4 −·H2O M = 454.44 Orthorhombic, a = 11.826 (8) Å b = 13.376 (8) Å c = 13.479 (8) Å V = 2132 (2) Å3 Z = 4 Mo Kα radiation μ = 0.11 mm−1 T = 293 K 0.42 × 0.38 × 0.22 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2008 ▶) T min = 0.708, T max = 0.746 70173 measured reflections 4650 independent reflections 4509 reflections with I > 2σ(I) R int = 0.025

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.084 S = 1.07 4650 reflections 298 parameters 3 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.23 e Å−3 Δρmin = −0.18 e Å−3 Data collection: APEX2 (Bruker, 2008 ▶); cell refinement: SAINT (Bruker, 2008 ▶); 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/S1600536811009287/vm2081sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811009287/vm2081Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H16N22+·2C7H4NO4·H2OF(000) = 960
Mr = 454.44Dx = 1.416 Mg m3
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 296(2) reflections
a = 11.826 (8) Åθ = 2.2–27.0°
b = 13.376 (8) ŵ = 0.11 mm1
c = 13.479 (8) ÅT = 293 K
V = 2132 (2) Å3Irregular, colorless
Z = 40.42 × 0.38 × 0.22 mm
Bruker APEXII CCD diffractometer4650 independent reflections
Radiation source: fine-focus sealed tube4509 reflections with I > 2σ(I)
graphiteRint = 0.025
φ and ω scansθmax = 27.0°, θmin = 2.2°
Absorption correction: multi-scan (SADABS; Bruker, 2008)h = −15→15
Tmin = 0.708, Tmax = 0.746k = −17→17
70173 measured reflectionsl = −17→17
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.029H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.084w = 1/[σ2(Fo2) + (0.0516P)2 + 0.2616P] where P = (Fo2 + 2Fc2)/3
S = 1.07(Δ/σ)max = 0.001
4650 reflectionsΔρmax = 0.23 e Å3
298 parametersΔρmin = −0.18 e Å3
3 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0064 (13)
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
C10.82378 (16)0.49387 (15)0.59189 (15)0.0608 (4)
H10A0.79170.55780.60780.091*
H10B0.84570.49290.52330.091*
H10C0.88900.48230.63280.091*
C20.78465 (16)0.31373 (12)0.58604 (14)0.0589 (4)
H20A0.72780.26390.59790.088*
H20B0.84930.30050.62710.088*
H20C0.80670.31190.51750.088*
C30.63379 (12)0.43601 (10)0.55191 (10)0.0410 (3)
H3B0.64810.41940.48300.049*
H3C0.61940.50730.55520.049*
C40.52821 (12)0.38176 (9)0.58465 (9)0.0352 (3)
H40.54600.31120.59630.042*
C50.44060 (16)0.38990 (14)0.50382 (12)0.0557 (4)
H5A0.37310.35550.52390.084*
H5B0.46940.36030.44400.084*
H5C0.42350.45910.49210.084*
C60.51400 (11)0.21400 (9)0.86340 (10)0.0361 (3)
C70.44510 (11)0.29707 (9)0.91060 (9)0.0323 (2)
C80.34944 (14)0.27536 (10)0.96579 (11)0.0469 (3)
H80.32630.20950.97460.056*
C90.28930 (15)0.35256 (12)1.00737 (13)0.0547 (4)
H90.22440.33981.04420.066*
C100.32657 (12)0.44927 (11)0.99364 (11)0.0433 (3)
H100.28810.50291.02180.052*
C110.42230 (10)0.46459 (9)0.93714 (9)0.0309 (2)
C120.46436 (11)0.56979 (9)0.91995 (9)0.0347 (3)
C130.74414 (11)0.71223 (9)0.80029 (10)0.0360 (3)
C140.81762 (10)0.79792 (9)0.76580 (10)0.0327 (2)
C150.92660 (12)0.77789 (11)0.73243 (12)0.0446 (3)
H150.95310.71250.72910.054*
C160.99431 (12)0.85656 (12)0.70449 (13)0.0490 (4)
H161.06720.84520.68120.059*
C170.95259 (11)0.95225 (11)0.71152 (10)0.0402 (3)
H170.99751.00690.69510.048*
C180.84204 (10)0.96563 (9)0.74366 (9)0.0315 (2)
C190.79612 (10)1.07016 (9)0.75010 (9)0.0330 (2)
N10.73847 (10)0.41412 (9)0.61018 (8)0.0399 (3)
H10.72030.41500.67580.048*
N20.47949 (9)0.42609 (8)0.67685 (8)0.0340 (2)
H1A0.52980.42170.72580.051*
H2A0.41710.39300.69360.051*
H3A0.46260.49000.66610.051*
N30.48126 (8)0.39046 (7)0.89568 (7)0.0291 (2)
N40.77430 (8)0.89011 (7)0.76994 (7)0.0295 (2)
O10.59431 (8)0.23905 (6)0.80781 (8)0.0420 (2)
O20.48705 (13)0.12753 (7)0.88430 (10)0.0636 (4)
O30.54684 (9)0.57393 (7)0.85809 (8)0.0454 (2)
H30.56680.63220.85110.068*
O40.42263 (12)0.63994 (8)0.96310 (10)0.0592 (3)
O50.64280 (8)0.73404 (6)0.82184 (8)0.0417 (2)
O60.78683 (10)0.62868 (7)0.80691 (11)0.0570 (3)
O70.68767 (8)1.07388 (7)0.76530 (8)0.0428 (2)
H70.66731.13240.76810.064*
O80.85621 (10)1.14190 (8)0.74214 (11)0.0578 (3)
O90.72243 (10)0.42389 (9)0.81056 (8)0.0489 (3)
H9A0.6703 (19)0.3950 (18)0.835 (2)0.099 (9)*
H9B0.711 (3)0.4830 (14)0.827 (2)0.115 (11)*
U11U22U33U12U13U23
C10.0545 (9)0.0633 (10)0.0645 (10)−0.0123 (8)0.0124 (8)−0.0003 (8)
C20.0586 (10)0.0474 (9)0.0706 (10)0.0237 (8)0.0006 (8)−0.0045 (8)
C30.0424 (7)0.0358 (6)0.0446 (7)0.0094 (6)0.0129 (5)0.0066 (6)
C40.0431 (7)0.0256 (5)0.0370 (6)0.0036 (5)0.0063 (5)−0.0008 (5)
C50.0664 (10)0.0583 (9)0.0423 (7)−0.0145 (8)−0.0085 (7)−0.0005 (7)
C60.0419 (6)0.0232 (5)0.0431 (6)0.0004 (5)0.0016 (5)0.0027 (5)
C70.0382 (6)0.0248 (5)0.0340 (5)−0.0014 (5)0.0030 (5)0.0020 (4)
C80.0547 (8)0.0329 (7)0.0529 (8)−0.0130 (6)0.0179 (7)−0.0007 (6)
C90.0528 (9)0.0525 (8)0.0587 (9)−0.0150 (7)0.0298 (8)−0.0087 (7)
C100.0406 (7)0.0406 (7)0.0489 (7)0.0015 (5)0.0156 (6)−0.0094 (6)
C110.0322 (6)0.0276 (5)0.0327 (5)0.0004 (5)0.0011 (5)−0.0007 (4)
C120.0375 (6)0.0256 (5)0.0411 (6)0.0034 (5)−0.0008 (5)−0.0004 (5)
C130.0369 (6)0.0256 (5)0.0455 (7)0.0014 (5)−0.0014 (5)−0.0007 (5)
C140.0296 (6)0.0273 (5)0.0412 (6)0.0026 (4)0.0001 (5)0.0010 (5)
C150.0341 (6)0.0351 (6)0.0647 (9)0.0091 (5)0.0054 (6)0.0012 (6)
C160.0283 (6)0.0533 (8)0.0654 (9)0.0069 (6)0.0112 (6)0.0066 (7)
C170.0292 (6)0.0420 (7)0.0495 (7)−0.0043 (5)0.0044 (5)0.0083 (6)
C180.0294 (5)0.0295 (6)0.0357 (6)−0.0009 (4)−0.0008 (5)0.0046 (4)
C190.0317 (5)0.0283 (5)0.0391 (6)−0.0024 (5)0.0002 (5)0.0053 (5)
N10.0420 (6)0.0376 (6)0.0400 (5)0.0045 (5)0.0107 (5)−0.0022 (4)
N20.0305 (5)0.0362 (5)0.0353 (5)−0.0017 (4)0.0039 (4)−0.0012 (4)
N30.0299 (5)0.0238 (4)0.0335 (5)0.0005 (4)0.0034 (4)0.0018 (4)
N40.0267 (4)0.0255 (4)0.0363 (5)0.0006 (4)0.0008 (4)0.0017 (4)
O10.0368 (4)0.0260 (4)0.0632 (6)0.0017 (4)0.0110 (4)−0.0009 (4)
O20.0880 (9)0.0216 (4)0.0814 (8)0.0001 (5)0.0362 (7)0.0061 (5)
O30.0495 (5)0.0229 (4)0.0637 (6)−0.0027 (4)0.0157 (5)0.0024 (4)
O40.0746 (8)0.0288 (5)0.0742 (8)0.0032 (5)0.0236 (7)−0.0083 (5)
O50.0334 (4)0.0256 (4)0.0660 (6)−0.0011 (4)0.0090 (4)0.0041 (4)
O60.0486 (6)0.0267 (5)0.0956 (9)0.0067 (4)0.0086 (6)0.0069 (5)
O70.0325 (4)0.0244 (4)0.0714 (6)0.0015 (3)0.0023 (4)−0.0022 (4)
O80.0448 (6)0.0313 (5)0.0973 (9)−0.0083 (4)0.0141 (6)0.0070 (5)
O90.0454 (6)0.0497 (6)0.0516 (6)0.0039 (5)0.0127 (5)−0.0008 (5)
C1—N11.489 (2)C10—H100.9300
C1—H10A0.9600C11—N31.3347 (15)
C1—H10B0.9600C11—C121.5104 (16)
C1—H10C0.9600C12—O41.2094 (16)
C2—N11.4857 (18)C12—O31.2843 (16)
C2—H20A0.9600C13—O61.2296 (16)
C2—H20B0.9600C13—O51.2672 (16)
C2—H20C0.9600C13—C141.5117 (17)
C3—N11.4950 (19)C14—N41.3364 (15)
C3—C41.5101 (18)C14—C151.3910 (18)
C3—H3B0.9700C15—C161.375 (2)
C3—H3C0.9700C15—H150.9300
C4—N21.4926 (15)C16—C171.375 (2)
C4—C51.507 (2)C16—H160.9300
C4—H40.9800C17—C181.3889 (17)
C5—H5A0.9600C17—H170.9300
C5—H5B0.9600C18—N41.3371 (15)
C5—H5C0.9600C18—C191.5025 (16)
C6—O21.2323 (16)C19—O81.1988 (16)
C6—O11.2553 (16)C19—O71.2996 (15)
C6—C71.5177 (17)N1—H10.9100
C7—N31.3356 (15)N2—H1A0.8900
C7—C81.3848 (18)N2—H2A0.8900
C8—C91.373 (2)N2—H3A0.8900
C8—H80.9300O3—H30.8200
C9—C101.379 (2)O7—H70.8200
C9—H90.9300O9—H9A0.799 (17)
C10—C111.3798 (18)O9—H9B0.830 (17)
N1—C1—H10A109.5N3—C11—C10123.33 (11)
N1—C1—H10B109.5N3—C11—C12117.12 (10)
H10A—C1—H10B109.5C10—C11—C12119.55 (11)
N1—C1—H10C109.5O4—C12—O3126.07 (13)
H10A—C1—H10C109.5O4—C12—C11120.98 (12)
H10B—C1—H10C109.5O3—C12—C11112.94 (10)
N1—C2—H20A109.5O6—C13—O5125.52 (13)
N1—C2—H20B109.5O6—C13—C14118.39 (12)
H20A—C2—H20B109.5O5—C13—C14116.08 (11)
N1—C2—H20C109.5N4—C14—C15123.12 (12)
H20A—C2—H20C109.5N4—C14—C13117.80 (11)
H20B—C2—H20C109.5C15—C14—C13119.08 (11)
N1—C3—C4115.91 (11)C16—C15—C14118.73 (13)
N1—C3—H3B108.3C16—C15—H15120.6
C4—C3—H3B108.3C14—C15—H15120.6
N1—C3—H3C108.3C15—C16—C17118.99 (13)
C4—C3—H3C108.3C15—C16—H16120.5
H3B—C3—H3C107.4C17—C16—H16120.5
N2—C4—C5107.93 (12)C16—C17—C18118.63 (12)
N2—C4—C3111.82 (11)C16—C17—H17120.7
C5—C4—C3108.80 (11)C18—C17—H17120.7
N2—C4—H4109.4N4—C18—C17123.32 (12)
C5—C4—H4109.4N4—C18—C19118.11 (10)
C3—C4—H4109.4C17—C18—C19118.57 (11)
C4—C5—H5A109.5O8—C19—O7124.64 (12)
C4—C5—H5B109.5O8—C19—C18121.69 (11)
H5A—C5—H5B109.5O7—C19—C18113.67 (10)
C4—C5—H5C109.5C2—N1—C1111.23 (13)
H5A—C5—H5C109.5C2—N1—C3111.49 (12)
H5B—C5—H5C109.5C1—N1—C3109.50 (12)
O2—C6—O1125.64 (13)C2—N1—H1108.2
O2—C6—C7116.91 (12)C1—N1—H1108.2
O1—C6—C7117.45 (10)C3—N1—H1108.2
N3—C7—C8122.59 (12)C4—N2—H1A109.5
N3—C7—C6116.73 (11)C4—N2—H2A109.5
C8—C7—C6120.68 (11)H1A—N2—H2A109.5
C9—C8—C7118.99 (12)C4—N2—H3A109.5
C9—C8—H8120.5H1A—N2—H3A109.5
C7—C8—H8120.5H2A—N2—H3A109.5
C8—C9—C10119.01 (13)C11—N3—C7117.68 (10)
C8—C9—H9120.5C14—N4—C18117.15 (10)
C10—C9—H9120.5C12—O3—H3109.5
C9—C10—C11118.40 (12)C19—O7—H7109.5
C9—C10—H10120.8H9A—O9—H9B103 (3)
C11—C10—H10120.8
N1—C3—C4—N275.97 (14)N4—C14—C15—C161.6 (2)
N1—C3—C4—C5−164.91 (12)C13—C14—C15—C16−177.73 (14)
O2—C6—C7—N3173.61 (14)C14—C15—C16—C170.7 (2)
O1—C6—C7—N3−5.34 (18)C15—C16—C17—C18−2.0 (2)
O2—C6—C7—C8−6.7 (2)C16—C17—C18—N41.2 (2)
O1—C6—C7—C8174.39 (14)C16—C17—C18—C19−179.26 (13)
N3—C7—C8—C9−0.3 (2)N4—C18—C19—O8168.74 (14)
C6—C7—C8—C9179.99 (14)C17—C18—C19—O8−10.81 (19)
C7—C8—C9—C10−0.6 (3)N4—C18—C19—O7−10.92 (16)
C8—C9—C10—C111.0 (3)C17—C18—C19—O7169.53 (12)
C9—C10—C11—N3−0.5 (2)C4—C3—N1—C274.31 (15)
C9—C10—C11—C12179.35 (14)C4—C3—N1—C1−162.17 (12)
N3—C11—C12—O4−172.38 (13)C10—C11—N3—C7−0.30 (18)
C10—C11—C12—O47.7 (2)C12—C11—N3—C7179.80 (11)
N3—C11—C12—O36.62 (16)C8—C7—N3—C110.73 (19)
C10—C11—C12—O3−173.29 (12)C6—C7—N3—C11−179.55 (11)
O6—C13—C14—N4−172.34 (13)C15—C14—N4—C18−2.43 (19)
O5—C13—C14—N46.38 (18)C13—C14—N4—C18176.91 (11)
O6—C13—C14—C157.0 (2)C17—C18—N4—C141.00 (18)
O5—C13—C14—C15−174.25 (13)C19—C18—N4—C14−178.52 (11)
D—H···AD—HH···AD···AD—H···A
N1—H1···O90.911.822.711 (2)165
N2—H1A···O90.892.553.392 (3)158
N2—H1A···N30.892.402.988 (2)124
N2—H2A···O5i0.892.252.948 (2)135
N2—H2A···N4i0.892.323.123 (3)151
O3—H3···O50.821.682.473 (2)162
N2—H3A···O2ii0.892.052.845 (2)148
N2—H3A···O7i0.892.302.902 (2)125
O7—H7···O1iii0.821.752.535 (2)159
O9—H9A···O10.80 (2)2.30 (2)2.900 (2)132 (2)
O9—H9A···N30.80 (2)2.38 (2)3.107 (3)152 (2)
O9—H9B···O30.83 (2)2.33 (3)2.958 (3)133 (3)
O9—H9B···O60.83 (2)2.16 (2)2.844 (2)139 (3)
C3—H3B···O6iv0.972.583.541 (3)172
C3—H3C···O2ii0.972.203.057 (3)147
C4—H4···O4i0.982.453.349 (3)152
C15—H15···O8v0.932.483.166 (3)131
C2—H20A···O4i0.962.573.443 (3)152
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O90.911.822.711 (2)165
N2—H1A⋯O90.892.553.392 (3)158
N2—H1A⋯N30.892.402.988 (2)124
N2—H2A⋯O5i0.892.252.948 (2)135
N2—H2A⋯N4i0.892.323.123 (3)151
O3—H3⋯O50.821.682.473 (2)162
N2—H3A⋯O2ii0.892.052.845 (2)148
N2—H3A⋯O7i0.892.302.902 (2)125
O7—H7⋯O1iii0.821.752.535 (2)159
O9—H9A⋯O10.80 (2)2.30 (2)2.900 (2)132 (2)
O9—H9A⋯N30.80 (2)2.38 (2)3.107 (3)152 (2)
O9—H9B⋯O30.83 (2)2.33 (3)2.958 (3)133 (3)
O9—H9B⋯O60.83 (2)2.16 (2)2.844 (2)139 (3)
C3—H3B⋯O6iv0.972.583.541 (3)172
C3—H3C⋯O2ii0.972.203.057 (3)147
C4—H4⋯O4i0.982.453.349 (3)152
C15—H15⋯O8v0.932.483.166 (3)131
C2—H20A⋯O4i0.962.573.443 (3)152

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

  5 in total

1.  A short history of SHELX.

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

2.  2-Amino-4-methyl-pyridinium 6-carb-oxy-pyridine-2-carboxyl-ate sesquihydrate.

Authors:  Mahboubeh A Sharif; Masoumeh Tabatabaee; Mahnaz Adinehloo; Hossein Aghabozorg
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-11-20

3.  2,2'-Azanediyl-diethanaminium pyridine-2,5-dicarboxyl-ate.

Authors:  Hossein Aghabozorg; Maryam Saemi; Zeynab Khazaei; Vahid Amani; Behrouz Notash
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-01-08

4.  2-Amino-4-methyl-pyridinium 6-carb-oxy-pyridine-2-carboxyl-ate methanol monosolvate.

Authors:  Hossein Aghabozorg; Azadeh Mofidi Rouchi; Masoud Mirzaei; Behrouz Notash
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-12-08

5.  Propane-1,3-diaminium pyridine-2,5-di-carboxyl-ate dimethyl sulfoxide mono-solvate.

Authors:  Hossein Aghabozorg; Minoo Bayan; Masoud Mirzaei; Behrouz Notash
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-02-12
  5 in total
  1 in total

1.  2,3-Diamino-pyridinium 6-carb-oxy-pyridine-2-carboxyl-ate.

Authors:  Mahsa Foroughian; Alireza Foroumadi; Behrouz Notash; Giuseppe Bruno; Hadi Amiri Rudbari; Hossein Aghabozorg
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-11-16
  1 in total

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