The compounds studied in this paper,
viz. (1-ammonio-1-phosphonopropyl)phosphonate, C
3H
11NO
6P
2, (I), and 1-(acetylamino)propylidene-1,1-bisphosphonic acid dihydrate, C
5H
13NO
7P
2·2H
2O, (II), are members of a commonly used family of therapeutic agents. Compound (I) is an inner salt with separated negative (on the ionized PO
3 group) and positive (on the tetrahedral N atom) charges, while (II) possesses neutral phosphonyl groups and one amide N atom. Both structures have a C—C—C—N backbone, which has comparable geometric parameters in (I) and (II); the main difference was found in one of the N—C—P bond angles, which is lengthened in (II) because of an intramolecular O
PO3—H
O
C=O interaction. The hydrogen-bonding scheme in the crystal of (I) includes all possible donor atoms, namely all the H atoms of the ammonium group and the phosphonic acid functions. As a result of these interactions, the zwitterions are organized into a plane running along the crystallographic
x axis. In (II), the intermolecular interactions include all possible donor atoms, except for the N atom; the packing differs from that of (I) in that the molecules are arranged in a chain running parallel to the
x axis. In the chains, the molecules form head-to-head dimers, while the crystallization water molecules contribute to the intra- and interchain cohesion.
Supporting information
CCDC references: 214388; 214389
Crystals suitable for X-ray diffraction were obtained by slow evaporation from a water solution and were grown at 315 K (I) and 293 K (II).
The H atoms in (I) and (II), except those attached to O atoms, were refined using a riding model while constaining their isotropic displacement parameters to 1.3 (H atoms attached to C and N) or 1.5 (H atoms attached to O) times the Ueq values of their carrier atoms. The O– H distances were restrained at 0.85 (3) Å using the DFIX command implemented in SHELXL97 (Sheldrick, 1991).
Data collection: MSC/AFC Diffractometer Control Software version 4.3.0 (Molecular Structure Corporation, 1993) for (I); COLLECT (Nonius, 1997–2000) for (II). Cell refinement: MSC/AFC Diffractometer Control Software (Molecular Structure Corporation, 1993) for (I); HKL SCALEPACK (Otwinowski & Minor, 1997) for (II). Data reduction: MSC/AFC Diffractometer Control Software for (I); HKL DENZO (Otwinowski & Minor, 1997) and SCALEPACK for (II). For both compounds, program(s) used to solve structure: SHELXS97 (Sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: XP in SHELXTL/PC (Sheldrick, 1991); software used to prepare material for publication: PARST (Nardelli, 1995) and WinGX (Farrugia, 1999).
Crystal data top
C3H11NO6P2 | Dx = 1.687 Mg m−3 |
Mr = 219.07 | Mo Kα radiation, λ = 0.71073 Å |
Orthorhombic, P212121 | Cell parameters from 20 reflections |
a = 11.666 (3) Å | θ = 10–20° |
b = 12.937 (5) Å | µ = 0.50 mm−1 |
c = 5.714 (3) Å | T = 293 K |
V = 862.4 (6) Å3 | Cubic, colorless |
Z = 4 | 0.2 × 0.15 × 0.15 mm |
F(000) = 456 | |
Data collection top
Rigaku AFC-6S diffractometer | θmax = 27.5°, θmin = 3.2° |
ω–2θ scans | h = 0→15 |
4140 measured reflections | k = −16→16 |
1987 independent reflections | l = −7→7 |
1608 reflections with I > 2σ(I) | 3 standard reflections every 300 reflections |
Rint = 0.065 | intensity decay: 2% |
Refinement top
Refinement on F2 | H atoms treated by a mixture of independent and constrained refinement |
Least-squares matrix: full | w = 1/[σ2(Fo2) + (0.0603P)2] where P = (Fo2 + 2Fc2)/3 |
R[F2 > 2σ(F2)] = 0.049 | (Δ/σ)max = 0.003 |
wR(F2) = 0.119 | Δρmax = 0.33 e Å−3 |
S = 1.02 | Δρmin = −0.24 e Å−3 |
1987 reflections | Absolute structure: Flack (1983) |
118 parameters | Absolute structure parameter: 0.3 (2) |
3 restraints | |
Crystal data top
C3H11NO6P2 | V = 862.4 (6) Å3 |
Mr = 219.07 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 11.666 (3) Å | µ = 0.50 mm−1 |
b = 12.937 (5) Å | T = 293 K |
c = 5.714 (3) Å | 0.2 × 0.15 × 0.15 mm |
Data collection top
Rigaku AFC-6S diffractometer | Rint = 0.065 |
4140 measured reflections | 3 standard reflections every 300 reflections |
1987 independent reflections | intensity decay: 2% |
1608 reflections with I > 2σ(I) | |
Refinement top
R[F2 > 2σ(F2)] = 0.049 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.119 | Δρmax = 0.33 e Å−3 |
S = 1.02 | Δρmin = −0.24 e Å−3 |
1987 reflections | Absolute structure: Flack (1983) |
118 parameters | Absolute structure parameter: 0.3 (2) |
3 restraints | |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
C1 | 0.3046 (3) | 0.1974 (3) | 0.2458 (6) | 0.0194 (7) | |
C2 | 0.3630 (4) | 0.3046 (3) | 0.2556 (8) | 0.0294 (9) | |
H4 | 0.4358 | 0.2965 | 0.3356 | 0.038* | |
H5 | 0.3799 | 0.3256 | 0.0963 | 0.038* | |
C3 | 0.2981 (5) | 0.3927 (4) | 0.3736 (12) | 0.0602 (17) | |
H6 | 0.3455 | 0.4534 | 0.3767 | 0.078* | |
H7 | 0.2788 | 0.3731 | 0.5308 | 0.078* | |
H8 | 0.2292 | 0.407 | 0.2876 | 0.078* | |
N1 | 0.2784 (3) | 0.1605 (3) | 0.4907 (5) | 0.0201 (7) | |
H1 | 0.2386 | 0.2088 | 0.5662 | 0.026* | |
H2 | 0.3437 | 0.1485 | 0.5666 | 0.026* | |
H3 | 0.2375 | 0.1025 | 0.4837 | 0.026* | |
O1 | 0.3562 (2) | −0.0034 (2) | 0.1576 (5) | 0.0266 (6) | |
O2 | 0.4278 (2) | 0.1353 (2) | −0.1309 (5) | 0.0251 (6) | |
O3 | 0.5133 (2) | 0.1115 (2) | 0.2768 (5) | 0.0270 (6) | |
H9 | 0.563 (3) | 0.154 (3) | 0.249 (9) | 0.041* | |
O4 | 0.0868 (3) | 0.2492 (3) | 0.2775 (5) | 0.0356 (8) | |
H10 | 0.031 (4) | 0.284 (4) | 0.223 (9) | 0.053* | |
O5 | 0.1255 (3) | 0.0911 (3) | 0.0553 (6) | 0.0342 (7) | |
H11 | 0.133 (5) | 0.062 (4) | −0.075 (6) | 0.051* | |
O6 | 0.1756 (2) | 0.2640 (2) | −0.1304 (5) | 0.0285 (7) | |
P1 | 0.40511 (8) | 0.10223 (7) | 0.11730 (16) | 0.0190 (2) | |
P2 | 0.16606 (8) | 0.20277 (8) | 0.09051 (18) | 0.0224 (2) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.0202 (17) | 0.0254 (19) | 0.0125 (16) | −0.0028 (15) | 0.0000 (14) | −0.0003 (16) |
C2 | 0.032 (2) | 0.0248 (19) | 0.031 (2) | −0.0083 (17) | 0.0041 (18) | −0.0011 (19) |
C3 | 0.067 (3) | 0.031 (2) | 0.083 (5) | −0.006 (2) | 0.031 (4) | −0.015 (3) |
N1 | 0.0203 (16) | 0.0268 (17) | 0.0134 (15) | 0.0002 (14) | 0.0002 (13) | −0.0007 (13) |
O1 | 0.0281 (14) | 0.0252 (14) | 0.0265 (15) | −0.0021 (12) | −0.0025 (12) | 0.0005 (12) |
O2 | 0.0222 (13) | 0.0367 (15) | 0.0165 (14) | −0.0040 (11) | −0.0007 (12) | 0.0020 (11) |
O3 | 0.0192 (14) | 0.0362 (16) | 0.0256 (15) | −0.0051 (12) | −0.0039 (12) | 0.0035 (13) |
O4 | 0.0328 (16) | 0.056 (2) | 0.0181 (15) | 0.0182 (16) | 0.0056 (13) | 0.0035 (14) |
O5 | 0.0347 (16) | 0.0401 (18) | 0.0277 (16) | −0.0084 (14) | −0.0068 (14) | 0.0006 (14) |
O6 | 0.0297 (15) | 0.0386 (16) | 0.0173 (14) | 0.0121 (12) | 0.0013 (12) | 0.0040 (12) |
P1 | 0.0175 (4) | 0.0234 (4) | 0.0162 (4) | −0.0005 (4) | 0.0006 (4) | 0.0006 (4) |
P2 | 0.0209 (5) | 0.0313 (5) | 0.0151 (4) | 0.0045 (4) | 0.0006 (4) | 0.0011 (4) |
Geometric parameters (Å, º) top
C2—C3 | 1.526 (7) | O3—P1 | 1.561 (3) |
C2—H4 | 0.97 | C1—P1 | 1.852 (4) |
C2—H5 | 0.97 | O3—H9 | 0.82 (3) |
C3—H6 | 0.96 | O4—P2 | 1.536 (3) |
C3—H7 | 0.96 | O4—H10 | 0.85 (3) |
C3—H8 | 0.96 | O5—P2 | 1.533 (3) |
N1—H1 | 0.89 | O5—H11 | 0.84 (3) |
N1—H2 | 0.89 | O6—P2 | 1.494 (3) |
N1—H3 | 0.89 | C1—C2 | 1.546 (5) |
O1—P1 | 1.498 (3) | C1—P2 | 1.845 (4) |
O2—P1 | 1.505 (3) | C1—N1 | 1.510 (5) |
| | | |
N1—C1—C2 | 109.8 (3) | H1—N1—H2 | 109.5 |
N1—C1—P2 | 106.3 (2) | C1—N1—H3 | 109.5 |
C2—C1—P2 | 111.7 (3) | H1—N1—H3 | 109.5 |
N1—C1—P1 | 106.6 (2) | H2—N1—H3 | 109.5 |
C2—C1—P1 | 109.4 (3) | P1—O3—H9 | 121 (4) |
P1—C1—P2 | 112.89 (19) | P2—O4—H10 | 114 (4) |
C1—C2—C3 | 117.9 (4) | P2—O5—H11 | 121 (4) |
C3—C2—H4 | 107.8 | O1—P1—O2 | 118.11 (16) |
C1—C2—H4 | 107.8 | O1—P1—O3 | 106.74 (16) |
C3—C2—H5 | 107.8 | O2—P1—O3 | 112.71 (16) |
C1—C2—H5 | 107.8 | O1—P1—C1 | 107.72 (17) |
H4—C2—H5 | 107.2 | O2—P1—C1 | 107.21 (17) |
C2—C3—H6 | 109.5 | O3—P1—C1 | 103.24 (16) |
C2—C3—H7 | 109.5 | O4—P2—O5 | 105.90 (18) |
H6—C3—H7 | 109.5 | O4—P2—O6 | 115.17 (17) |
C2—C3—H8 | 109.5 | O5—P2—O6 | 114.29 (18) |
H6—C3—H8 | 109.5 | O6—P2—C1 | 111.16 (17) |
H7—C3—H8 | 109.5 | O5—P2—C1 | 107.32 (18) |
C1—N1—H1 | 109.5 | O4—P2—C1 | 102.01 (18) |
C1—N1—H2 | 109.5 | | |
| | | |
N1—C1—C2—C3 | −58.6 (5) | O3—P1—C1—P2 | −179.66 (19) |
P2—C1—C2—C3 | 59.0 (5) | N1—C1—P2—O6 | 164.9 (2) |
P1—C1—C2—C3 | −175.3 (4) | C2—C1—P2—O6 | 45.2 (3) |
N1—C1—P1—O1 | 49.3 (3) | O4—P2—C1—P1 | 158.2 (2) |
C2—C1—P1—O1 | 168.0 (3) | O5—P2—C1—P1 | 47.1 (3) |
O1—P1—C1—P2 | −67.0 (2) | O6—P2—C1—P1 | −78.6 (2) |
N1—C1—P1—O2 | 177.4 (2) | N1—C1—P2—O5 | −69.4 (3) |
C2—C1—P1—O2 | −63.9 (3) | C2—C1—P2—O5 | 170.8 (3) |
O2—P1—C1—P2 | 61.1 (2) | N1—C1—P2—O4 | 41.7 (3) |
N1—C1—P1—O3 | −63.4 (3) | C2—C1—P2—O4 | −78.1 (3) |
C2—C1—P1—O3 | 55.3 (3) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O6i | 0.89 | 2.01 | 2.814 (4) | 149 |
N1—H2···O2i | 0.89 | 1.99 | 2.796 (4) | 149 |
N1—H3···O1ii | 0.89 | 1.96 | 2.740 (4) | 146 |
O3—H9···O6iii | 0.82 (3) | 1.82 (3) | 2.623 (4) | 169 (5) |
O4—H10···O2iv | 0.85 (3) | 1.68 (3) | 2.524 (4) | 173 (6) |
O5—H11···O1v | 0.84 (3) | 1.71 (3) | 2.549 (4) | 179 (6) |
Symmetry codes: (i) x, y, z+1; (ii) −x+1/2, −y, z+1/2; (iii) x+1/2, −y+1/2, −z; (iv) x−1/2, −y+1/2, −z; (v) −x+1/2, −y, z−1/2. |
Crystal data top
C5H13NO7P2·2H2O | F(000) = 624 |
Mr = 297.14 | Dx = 1.684 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
a = 11.8880 (3) Å | Cell parameters from 19718 reflections |
b = 12.4715 (4) Å | θ = 2.9–28.3° |
c = 7.9403 (2) Å | µ = 0.41 mm−1 |
β = 95.4986 (13)° | T = 120 K |
V = 1171.82 (6) Å3 | Thin plate, colorless |
Z = 4 | 0.26 × 0.11 × 0.06 mm |
Data collection top
KappaCCD diffractometer | Rint = 0.053 |
ϕ scans and ω scans with κ offsets | θmax = 28.3°, θmin = 3.1° |
9795 measured reflections | h = −15→15 |
2901 independent reflections | k = −16→16 |
2417 reflections with I > 2σ(I) | l = −9→10 |
Refinement top
Refinement on F2 | 8 restraints |
Least-squares matrix: full | H atoms treated by a mixture of independent and constrained refinement |
R[F2 > 2σ(F2)] = 0.043 | w = 1/[σ2(Fo2) + (0.0579P)2 + 0.7884P] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.113 | (Δ/σ)max = 0.007 |
S = 1.07 | Δρmax = 0.34 e Å−3 |
2901 reflections | Δρmin = −0.57 e Å−3 |
178 parameters | |
Crystal data top
C5H13NO7P2·2H2O | V = 1171.82 (6) Å3 |
Mr = 297.14 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 11.8880 (3) Å | µ = 0.41 mm−1 |
b = 12.4715 (4) Å | T = 120 K |
c = 7.9403 (2) Å | 0.26 × 0.11 × 0.06 mm |
β = 95.4986 (13)° | |
Data collection top
KappaCCD diffractometer | 2417 reflections with I > 2σ(I) |
9795 measured reflections | Rint = 0.053 |
2901 independent reflections | |
Refinement top
R[F2 > 2σ(F2)] = 0.043 | 8 restraints |
wR(F2) = 0.113 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.07 | Δρmax = 0.34 e Å−3 |
2901 reflections | Δρmin = −0.57 e Å−3 |
178 parameters | |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
P1 | 0.66692 (4) | 0.04953 (4) | 0.04122 (6) | 0.01592 (14) | |
P2 | 0.79657 (4) | −0.05016 (4) | −0.23632 (6) | 0.01547 (14) | |
O1 | 0.62283 (11) | −0.06218 (11) | 0.05360 (18) | 0.0191 (3) | |
O2 | 0.76103 (12) | 0.08260 (12) | 0.17587 (18) | 0.0207 (3) | |
H2 | 0.804 (2) | 0.032 (2) | 0.212 (3) | 0.031* | |
O3 | 0.57533 (12) | 0.13763 (12) | 0.05792 (18) | 0.0201 (3) | |
H3 | 0.5107 (19) | 0.116 (2) | 0.016 (3) | 0.03* | |
O4 | 0.84783 (12) | −0.11407 (11) | −0.08039 (18) | 0.0184 (3) | |
H4 | 0.9193 (18) | −0.100 (2) | −0.051 (3) | 0.028* | |
O5 | 0.70358 (12) | −0.12595 (11) | −0.32006 (18) | 0.0200 (3) | |
H5 | 0.689 (2) | −0.1820 (19) | −0.261 (3) | 0.03* | |
O6 | 0.87762 (11) | −0.01586 (11) | −0.35802 (17) | 0.0194 (3) | |
O7 | 0.94424 (11) | 0.09220 (11) | −0.03774 (17) | 0.0189 (3) | |
N1 | 0.78778 (13) | 0.16747 (13) | −0.1689 (2) | 0.0163 (3) | |
H1 | 0.7569 | 0.2259 | −0.215 | 0.021* | |
C1 | 0.71759 (16) | 0.06964 (15) | −0.1703 (2) | 0.0158 (4) | |
C2 | 0.61171 (15) | 0.08944 (16) | −0.2967 (2) | 0.0175 (4) | |
H6 | 0.5579 | 0.0298 | −0.2857 | 0.023* | |
H7 | 0.5746 | 0.1561 | −0.263 | 0.023* | |
C3 | 0.63334 (18) | 0.09920 (17) | −0.4829 (2) | 0.0218 (4) | |
H8 | 0.6532 | 0.0287 | −0.5258 | 0.028* | |
H9 | 0.6957 | 0.1494 | −0.4936 | 0.028* | |
H10 | 0.565 | 0.1257 | −0.5485 | 0.028* | |
C4 | 0.89580 (16) | 0.17284 (16) | −0.1015 (2) | 0.0170 (4) | |
C5 | 0.95426 (18) | 0.27870 (18) | −0.1075 (3) | 0.0262 (5) | |
H11 | 0.9364 | 0.3112 | −0.2193 | 0.034* | |
H12 | 1.0361 | 0.2682 | −0.0867 | 0.034* | |
H13 | 0.9286 | 0.3261 | −0.0206 | 0.034* | |
O8 | 0.64893 (13) | −0.29587 (12) | −0.1788 (2) | 0.0251 (3) | |
H14 | 0.679 (2) | −0.317 (2) | −0.083 (3) | 0.038* | |
H15 | 0.651 (2) | −0.343 (2) | −0.256 (3) | 0.038* | |
O9 | 0.89757 (13) | −0.04504 (12) | 0.31393 (19) | 0.0221 (3) | |
H16 | 0.889 (2) | −0.042 (2) | 0.420 (3) | 0.033* | |
H17 | 0.9653 (19) | −0.030 (2) | 0.314 (4) | 0.033* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
P1 | 0.0149 (2) | 0.0180 (3) | 0.0151 (2) | −0.00030 (17) | 0.00300 (18) | −0.00010 (17) |
P2 | 0.0157 (3) | 0.0147 (2) | 0.0163 (2) | 0.00015 (17) | 0.00265 (18) | −0.00069 (17) |
O1 | 0.0170 (7) | 0.0200 (7) | 0.0206 (7) | −0.0012 (5) | 0.0032 (5) | 0.0034 (5) |
O2 | 0.0182 (7) | 0.0258 (8) | 0.0181 (7) | −0.0011 (6) | 0.0013 (5) | −0.0014 (6) |
O3 | 0.0178 (7) | 0.0205 (7) | 0.0226 (7) | 0.0006 (6) | 0.0048 (6) | −0.0028 (6) |
O4 | 0.0162 (6) | 0.0167 (7) | 0.0220 (7) | −0.0001 (5) | 0.0006 (5) | 0.0018 (5) |
O5 | 0.0231 (7) | 0.0166 (7) | 0.0199 (7) | −0.0025 (6) | −0.0007 (5) | −0.0003 (6) |
O6 | 0.0193 (7) | 0.0206 (7) | 0.0190 (7) | 0.0004 (6) | 0.0057 (5) | −0.0009 (6) |
O7 | 0.0168 (6) | 0.0165 (7) | 0.0233 (7) | 0.0006 (5) | 0.0019 (5) | 0.0012 (5) |
N1 | 0.0160 (7) | 0.0134 (7) | 0.0195 (8) | 0.0002 (6) | 0.0020 (6) | 0.0009 (6) |
C1 | 0.0159 (9) | 0.0145 (9) | 0.0170 (9) | −0.0006 (7) | 0.0014 (7) | 0.0005 (7) |
C2 | 0.0141 (8) | 0.0202 (9) | 0.0178 (9) | 0.0002 (7) | −0.0002 (7) | 0.0017 (7) |
C3 | 0.0237 (10) | 0.0239 (10) | 0.0177 (9) | 0.0004 (8) | 0.0005 (8) | 0.0008 (8) |
C4 | 0.0176 (9) | 0.0180 (9) | 0.0158 (8) | 0.0004 (7) | 0.0033 (7) | 0.0002 (7) |
C5 | 0.0241 (10) | 0.0207 (10) | 0.0328 (11) | −0.0040 (8) | −0.0026 (9) | 0.0044 (8) |
O8 | 0.0318 (8) | 0.0196 (7) | 0.0235 (7) | −0.0032 (6) | −0.0002 (6) | −0.0016 (6) |
O9 | 0.0202 (7) | 0.0275 (8) | 0.0188 (7) | −0.0013 (6) | 0.0030 (6) | 0.0000 (6) |
Geometric parameters (Å, º) top
O1—P1 | 1.4950 (14) | C1—C2 | 1.552 (2) |
O2—P1 | 1.5283 (15) | C2—C3 | 1.530 (3) |
O3—P1 | 1.5614 (14) | C2—H6 | 0.99 |
C1—P1 | 1.8549 (19) | C2—H7 | 0.99 |
O4—P2 | 1.5476 (14) | C3—H8 | 0.98 |
O5—P2 | 1.5546 (15) | C3—H9 | 0.98 |
O6—P2 | 1.4912 (14) | C3—H10 | 0.98 |
C1—P2 | 1.8662 (19) | C4—C5 | 1.495 (3) |
O2—H2 | 0.85 (2) | C5—H11 | 0.98 |
O3—H3 | 0.85 (2) | C5—H12 | 0.98 |
O4—H4 | 0.88 (2) | C5—H13 | 0.98 |
O5—H5 | 0.87 (2) | O8—H14 | 0.86 (2) |
C1—N1 | 1.478 (2) | O8—H15 | 0.85 (2) |
C4—O7 | 1.242 (2) | O9—H16 | 0.86 (2) |
C4—N1 | 1.345 (2) | O9—H17 | 0.83 (2) |
N1—H1 | 0.88 | | |
| | | |
O1—P1—O2 | 116.31 (8) | P1—C1—P2 | 111.21 (10) |
O1—P1—O3 | 113.48 (8) | C1—C2—C3 | 115.87 (15) |
O2—P1—O3 | 102.72 (8) | C3—C2—H6 | 108.3 |
O1—P1—C1 | 109.38 (8) | C1—C2—H6 | 108.3 |
O2—P1—C1 | 108.51 (8) | C3—C2—H7 | 108.3 |
O3—P1—C1 | 105.74 (8) | C1—C2—H7 | 108.3 |
O4—P2—O5 | 103.79 (8) | H6—C2—H7 | 107.4 |
O4—P2—O6 | 115.90 (8) | C2—C3—H8 | 109.5 |
O5—P2—O6 | 111.99 (8) | C2—C3—H9 | 109.5 |
O6—P2—C1 | 109.03 (8) | H8—C3—H9 | 109.5 |
O4—P2—C1 | 110.96 (8) | C2—C3—H10 | 109.5 |
O5—P2—C1 | 104.51 (8) | H8—C3—H10 | 109.5 |
P1—O2—H2 | 114.5 (19) | H9—C3—H10 | 109.5 |
P1—O3—H3 | 111.0 (19) | O7—C4—N1 | 120.63 (18) |
P2—O4—H4 | 113.9 (17) | O7—C4—C5 | 121.95 (17) |
P2—O5—H5 | 115.4 (18) | N1—C4—C5 | 117.42 (17) |
C1—N1—C4 | 124.14 (16) | C4—C5—H11 | 109.5 |
C4—N1—H1 | 117.9 | C4—C5—H12 | 109.5 |
C1—N1—H1 | 117.9 | H11—C5—H12 | 109.5 |
N1—C1—C2 | 107.22 (15) | C4—C5—H13 | 109.5 |
N1—C1—P1 | 109.68 (12) | H11—C5—H13 | 109.5 |
C2—C1—P1 | 107.04 (12) | H12—C5—H13 | 109.5 |
N1—C1—P2 | 111.37 (12) | H14—O8—H15 | 112 (3) |
C2—C1—P2 | 110.15 (13) | H16—O9—H17 | 102 (3) |
| | | |
C4—N1—C1—C2 | −166.09 (16) | O4—P2—C1—N1 | 97.26 (13) |
C4—N1—C1—P1 | 78.01 (19) | O5—P2—C1—N1 | −151.46 (12) |
C4—N1—C1—P2 | −45.5 (2) | O6—P2—C1—C2 | 87.26 (14) |
O1—P1—C1—N1 | −165.14 (12) | O4—P2—C1—C2 | −143.91 (12) |
O2—P1—C1—N1 | −37.30 (15) | O5—P2—C1—C2 | −32.63 (14) |
O3—P1—C1—N1 | 72.32 (14) | O4—P2—C1—P1 | −25.40 (12) |
O1—P1—C1—C2 | 78.86 (14) | O5—P2—C1—P1 | 85.87 (11) |
O2—P1—C1—C2 | −153.31 (13) | O6—P2—C1—P1 | −154.23 (9) |
O3—P1—C1—C2 | −43.69 (14) | N1—C1—C2—C3 | 67.1 (2) |
O1—P1—C1—P2 | −41.50 (12) | P1—C1—C2—C3 | −175.27 (14) |
O2—P1—C1—P2 | 86.33 (11) | P2—C1—C2—C3 | −54.2 (2) |
O3—P1—C1—P2 | −164.05 (9) | C1—N1—C4—O7 | 1.4 (3) |
O6—P2—C1—N1 | −31.57 (15) | C1—N1—C4—C5 | −178.83 (17) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2···O9 | 0.85 (2) | 1.62 (2) | 2.455 (2) | 167 (3) |
O3—H3···O1i | 0.85 (2) | 1.77 (2) | 2.611 (2) | 174 (3) |
O4—H4···O7 | 0.88 (2) | 2.41 (3) | 2.823 (2) | 108 (2) |
O4—H4···O7ii | 0.88 (2) | 1.71 (2) | 2.573 (2) | 168 (3) |
O5—H5···O8 | 0.87 (2) | 1.65 (2) | 2.512 (2) | 170 (3) |
O8—H14···O5iii | 0.86 (2) | 2.19 (2) | 3.022 (2) | 163 (3) |
O8—H15···O1iv | 0.85 (2) | 1.92 (2) | 2.760 (2) | 167 (3) |
O9—H17···O6ii | 0.83 (2) | 1.95 (2) | 2.768 (2) | 169 (3) |
O9—H16···O6v | 0.86 (2) | 1.81 (2) | 2.663 (2) | 171 (3) |
Symmetry codes: (i) −x+1, −y, −z; (ii) −x+2, −y, −z; (iii) x, −y−1/2, z+1/2; (iv) x, −y−1/2, z−1/2; (v) x, y, z+1. |
Experimental details
| (I) | (II) |
Crystal data |
Chemical formula | C3H11NO6P2 | C5H13NO7P2·2H2O |
Mr | 219.07 | 297.14 |
Crystal system, space group | Orthorhombic, P212121 | Monoclinic, P21/c |
Temperature (K) | 293 | 120 |
a, b, c (Å) | 11.666 (3), 12.937 (5), 5.714 (3) | 11.8880 (3), 12.4715 (4), 7.9403 (2) |
α, β, γ (°) | 90, 90, 90 | 90, 95.4986 (13), 90 |
V (Å3) | 862.4 (6) | 1171.82 (6) |
Z | 4 | 4 |
Radiation type | Mo Kα | Mo Kα |
µ (mm−1) | 0.50 | 0.41 |
Crystal size (mm) | 0.2 × 0.15 × 0.15 | 0.26 × 0.11 × 0.06 |
|
Data collection |
Diffractometer | Rigaku AFC-6S diffractometer | KappaCCD diffractometer |
Absorption correction | – | – |
No. of measured, independent and observed [I > 2σ(I)] reflections | 4140, 1987, 1608 | 9795, 2901, 2417 |
Rint | 0.065 | 0.053 |
(sin θ/λ)max (Å−1) | 0.650 | 0.666 |
|
Refinement |
R[F2 > 2σ(F2)], wR(F2), S | 0.049, 0.119, 1.02 | 0.043, 0.113, 1.07 |
No. of reflections | 1987 | 2901 |
No. of parameters | 118 | 178 |
No. of restraints | 3 | 8 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.33, −0.24 | 0.34, −0.57 |
Absolute structure | Flack (1983) | ? |
Absolute structure parameter | 0.3 (2) | ? |
Selected geometric parameters (Å, º) for (I) topO1—P1 | 1.498 (3) | O5—P2 | 1.533 (3) |
O2—P1 | 1.505 (3) | O6—P2 | 1.494 (3) |
O3—P1 | 1.561 (3) | C1—P2 | 1.845 (4) |
C1—P1 | 1.852 (4) | C1—N1 | 1.510 (5) |
O4—P2 | 1.536 (3) | | |
| | | |
P1—C1—P2 | 112.89 (19) | O2—P1—O3 | 112.71 (16) |
C1—C2—C3 | 117.9 (4) | O4—P2—O5 | 105.90 (18) |
O1—P1—O2 | 118.11 (16) | O4—P2—O6 | 115.17 (17) |
O1—P1—O3 | 106.74 (16) | O5—P2—O6 | 114.29 (18) |
| | | |
O1—P1—C1—P2 | −67.0 (2) | O4—P2—C1—P1 | 158.2 (2) |
O2—P1—C1—P2 | 61.1 (2) | O5—P2—C1—P1 | 47.1 (3) |
O3—P1—C1—P2 | −179.66 (19) | O6—P2—C1—P1 | −78.6 (2) |
Hydrogen-bond geometry (Å, º) for (I) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O6i | 0.89 | 2.01 | 2.814 (4) | 149 |
N1—H2···O2i | 0.89 | 1.99 | 2.796 (4) | 149 |
N1—H3···O1ii | 0.89 | 1.96 | 2.740 (4) | 146 |
O3—H9···O6iii | 0.82 (3) | 1.82 (3) | 2.623 (4) | 169 (5) |
O4—H10···O2iv | 0.85 (3) | 1.68 (3) | 2.524 (4) | 173 (6) |
O5—H11···O1v | 0.84 (3) | 1.71 (3) | 2.549 (4) | 179 (6) |
Symmetry codes: (i) x, y, z+1; (ii) −x+1/2, −y, z+1/2; (iii) x+1/2, −y+1/2, −z; (iv) x−1/2, −y+1/2, −z; (v) −x+1/2, −y, z−1/2. |
Selected geometric parameters (Å, º) for (II) topO1—P1 | 1.4950 (14) | O6—P2 | 1.4912 (14) |
O2—P1 | 1.5283 (15) | C1—P2 | 1.8662 (19) |
O3—P1 | 1.5614 (14) | C1—N1 | 1.478 (2) |
C1—P1 | 1.8549 (19) | C4—O7 | 1.242 (2) |
O4—P2 | 1.5476 (14) | C4—N1 | 1.345 (2) |
O5—P2 | 1.5546 (15) | | |
| | | |
O1—P1—O2 | 116.31 (8) | O5—P2—O6 | 111.99 (8) |
O1—P1—O3 | 113.48 (8) | C1—N1—C4 | 124.14 (16) |
O2—P1—O3 | 102.72 (8) | P1—C1—P2 | 111.21 (10) |
O4—P2—O5 | 103.79 (8) | C1—C2—C3 | 115.87 (15) |
O4—P2—O6 | 115.90 (8) | | |
| | | |
O1—P1—C1—P2 | −41.50 (12) | O4—P2—C1—P1 | −25.40 (12) |
O2—P1—C1—P2 | 86.33 (11) | O5—P2—C1—P1 | 85.87 (11) |
O3—P1—C1—P2 | −164.05 (9) | O6—P2—C1—P1 | −154.23 (9) |
Hydrogen-bond geometry (Å, º) for (II) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2···O9 | 0.85 (2) | 1.62 (2) | 2.455 (2) | 167 (3) |
O3—H3···O1i | 0.85 (2) | 1.77 (2) | 2.611 (2) | 174 (3) |
O4—H4···O7 | 0.88 (2) | 2.41 (3) | 2.823 (2) | 108 (2) |
O4—H4···O7ii | 0.88 (2) | 1.71 (2) | 2.573 (2) | 168 (3) |
O5—H5···O8 | 0.87 (2) | 1.65 (2) | 2.512 (2) | 170 (3) |
O8—H14···O5iii | 0.86 (2) | 2.19 (2) | 3.022 (2) | 163 (3) |
O8—H15···O1iv | 0.85 (2) | 1.92 (2) | 2.760 (2) | 167 (3) |
O9—H17···O6ii | 0.83 (2) | 1.95 (2) | 2.768 (2) | 169 (3) |
O9—H16···O6v | 0.86 (2) | 1.81 (2) | 2.663 (2) | 171 (3) |
Symmetry codes: (i) −x+1, −y, −z; (ii) −x+2, −y, −z; (iii) x, −y−1/2, z+1/2; (iv) x, −y−1/2, z−1/2; (v) x, y, z+1. |
The bisphosphonates constitute a class of compounds that are characterized by the P—C—P bond, the biologically resistent version of the P—O—P bridge of natural pyrophosphate, and which have found a number of practical applications in the human health field. Because of their high tropism to the bone tissue, and their capacity to selectively block the action of the resorbing osteoclasts, several members of this family are currently used for the treatment of skeletal disorders (Compston, 1994; Martin & Grill, 2000; Rodan & Martin, 2000). These compounds have a potential use as drugs for the treatment of neurologic disorders (Atack & Fletcher, 1994), as anti-inflammatory treatments or antiarthritics (Schlachter et al., 1998), as herbicides (Chuiko et al., 1999; Cromartie et al., 1999), as antiparasitics (Docampo, 2001; Urbina, 2002), and as cholesterol-lowering agents (Niesor et al., 2001). Moreover, Fukuda et al. (1999), have reported on the synthesis and therapeutic efficacy of a novel decorporating bisphosphonate to remove radioactive strontium deposited in the bone of contaminated individuals. As an ongoing study aimed at the determination of the structures of biologically active compounds (Vega et al., 2002), a single-crystal X-ray study has been undertaken with the compounds 1-ammoniopropylidene-1,1-bisphosphonate, (I), and 1-(acetylamino)propylidene-1,1-bisphosphonic acid dihydrate, (II), and the results are presented here.
The bisphosphonates (I) and (II) have in common a C—C—C—N backbone and a P—C—P bridge (see Figs. 1 and 2). Compound (I), unlike (II), has zwitterionic character, with one of the phosphonyl H atoms transferred to the N atom and one of the phosphorus groups with a −1 charge. The N atom in (I) possesses pyramidal sp3 hybridization, whereas that in (II) is hybridized planar sp2. As can be seen from Tables 1 and 3, the C1—N1 bond is shorter in (II), suggesting that the electronic delocalization could be more important in this bond than in the other C___N bond?. This trend was confirmed in a search in the Cambridge Structural Database (CSD, Version 5.23; Allen, 2002), which retrieved two single-crystal X-ray studies of structures of bisphosphonates containing an acyclic N atom attached to the geminal C atom. In KISROT (Lorberth et al., 1991), the N atom is planar sp2 hybridized and the C—N distance is at 1.494 Å; however, this bond is larger in SOPSAR (1.510 Å; Shkol'nikova et al., 1990), where the N atom is sp3 hybridized (note that in both structures the N atom is dimethylated). As can be appreciated from Tables 1 and 3, the lengths of the P—C and C—C bonds shared by the two compounds are very similar, as are those of the P—O bonds. An inspection of the latter clearly indicated the presence of protonated and deprotonated O atoms (Vega et al., 1996): the P—O bonds are in the range 1.4912 (14)–1.505 (3) Å, while the P—O(H) bonds are in the range 1.5283 (15)–1.5614 (14) Å.
The P—C—P bond angle is comparable in both structures, while the O—P—O angles reflect the electronic state of the group. Thus, the neutral PO3 groups have O—P—O(H) angles in the range 111.99 (8)– 116.31 (8)°, while the (H)O—P—O(H) angles range from 102.72 (8) to 105.90 (18)°. By contrast, the O—P—O angle within the negatively charged phosphorus group is the largest [118.11 (16)°]. The planar 'W' shape delineated by the O—P—C—P—O sequence, which is relevant for the biologic activity of the bisphosphonate (Shkol'nikova et al., 1990), is found in both structures. The O—P—C—P torsion angles that characterize the 'W' are −179.66 (19) and 158.2 (2) [(I)], and −164.05 (9)° and −154.23 (9)° [(II)] (Tables 1 and 3). The C—C—C bond angle in (I) and (II) is larger than the ideal tetrahedral value, suggesting that the sp3 hybridized C2 atom could be deformed because of some conformational freedom associated with thermal motion or disorder. Other bisphosphonates with an aliphatic side chain also display a larger C2 bond angle (Vega et al., 1996; Fernández et al., 2002). As shown by the values of the P—C—C—C torsion angles, the C2—C3 bond is coplanar with C1—P1 but is twisted in relation to C1—P2, the P1—C1—C2—C3 and P2—C1—C2—C3 torsion angles being −175.3 (4) and 59.0 (5)°, respectively, for (I), and −175.27 (14)° and −54.2 (2)°, respectively, for (II). In addition, the C2—C3 bond is twisted towards the N atom, the C3—C2—C1—N1 torsion angles being −58.6 (5) and 67.1 (2)° for (I) and (II), respectively.
The acetyl part of (II) shows the typical planar nature associated with the amide bond, and the bond lengths (Table 3) correspond well to those found in the peptide bond (Lehninger et al., 2000). Therefore, C1/N1/C4/C5/O7 forms a plane, from which atom N1 deviates the most [by 0.008 (2) Å]. Atom P1 deviates more than P2 with respect to the C1/N1/C4/C5/O7 plane [1.7277 (5) Å versus 1.2066 (5) Å]. Such an atomic disposition could enable an intramolecular interaction between O4 and O7 [O4—H4···O7 parameters D···A, H···A and D—H···A are 2.823 (2) Å, 2.41 (3) Å and 108 (2)°], thus forming a seven-membered ring involving atoms O7, C4, N1, C1, P2, O4 and H4. In addition, as a possible cause of this interaction, the N1—C1—P2 bond angle is 5° larger than that in (I), i.e. 111.37 (12)° in contrast to 106.3 (2)°.
The hydrogen-bonding scheme for (I) consists of O(phosphonyl)—H···O(phosphonyl) and N—H···O (phosphonyl) interactions [Table 2]. All the possible donor atoms, namely all the H atoms of the N1 group and of the protonated atoms O3, O4 and O5, are involved in the interactions. The packing in the crystal of (I), as depicted in Fig. 3, can be described as an arrangement of the molecules into planes running parallel to the crystallographic a axis, bound through the O3—H9···O6, O4—H10···O2, O5—H11···O1 and N1— H3···O1 interactions. These planes are stacked along the c axis and are connected by? the remaining N—H···O hydrogen bonds. In (II), intermolecular interactions occur between O atoms, without the participation of the N1 group (Table 4). As shown in Fig. 4, the molecules are dimerized head–to–head through the O3—H3···O1 O(phosphonyl)···O(phosphonyl) interaction; this dimer is joined to others by means of the carbonyl O7 atom and the water O9 atom, thus forming a chain running along the crystallographic a axis. The interchain cohesion is provided by interactions involving the O8 water molecule. It appeared that the molecules in the crystal of (II) are less tight packed than those in (I), possibly because of the lack of interactions of the N1 group. Hence, the interchain cohesion is weakened, preventing the chains from associating and forming a plane; possibly for the same reason, this effect allowed the presence of the crystallization water molecules, which could be retained in (II) but not in (I). As only (II) was used in the biological studies (Fukuda et al., 1999), it could be concluded that this hydrated form of the drug showed better solubility properties than the anhydrous form.