Literature DB >> 22719606

Methyl 2-{6-[(1-meth-oxy-1-oxopropan-2-yl)amino-carbon-yl]pyridine-2-carboxamido}-propano-ate.

Mohamed A Al-Omar, Abdel-Galil E Amr, Hazem A Ghabbour, Tze Shyang Chia, Hoong-Kun Fun.   

Abstract

In the title compound, C(15)H(19)N(3)O(6), the amide planes are inclined at dihedral angles of 0.8 (6) and 12.1 (3)° with respect to the central pyridine ring. The mean planes of the corresponding methyl acetate groups form dihedral angles of 41.76 (13) and 86.48 (15)°, respectively with the mean plane of pyridine ring. A pair of weak intra-molecular N-H⋯N hydrogen bonds generate an S(5)S(5) ring motif in the mol-ecule. In the crystal, mol-ecules are linked by N-H⋯O hydrogen bonds into [001] chains. The chains are cross-linked by C-H⋯O hydrogen bonds into layers lying parallel to bc plane. The crystal packing also features a C-H⋯π inter-action.

Entities:  

Year:  2012        PMID: 22719606      PMCID: PMC3379408          DOI: 10.1107/S1600536812022258

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


Related literature

For the synthesis and biological activity screening of some dipicolinic acid bis-l-amino acid hydrazide derivatives and their corresponding acids, see: Abou-Ghalia & Amr (2004 ▶); Al-Salahi et al. (2010 ▶); Al-Omar & Amr (2010 ▶); Attia et al. (2000 ▶). For the biological activity of 2,6-disubstituted pyridine derivatives, see: Amr (2005 ▶); Abou-Ghalia et al. (2003 ▶); Amr, Sayed & Abdulla (2005 ▶); Amr et al. (2006 ▶); Hammam et al. (2003 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C15H19N3O6 M = 337.33 Monoclinic, a = 8.9735 (3) Å b = 20.7073 (8) Å c = 10.4048 (5) Å β = 122.901 (3)° V = 1623.29 (11) Å3 Z = 4 Cu Kα radiation μ = 0.91 mm−1 T = 296 K 0.74 × 0.25 × 0.06 mm

Data collection

Bruker SMART APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.551, T max = 0.947 10358 measured reflections 2703 independent reflections 2058 reflections with I > 2σ(I) R int = 0.046

Refinement

R[F 2 > 2σ(F 2)] = 0.053 wR(F 2) = 0.192 S = 1.04 2703 reflections 229 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.25 e Å−3 Δρmin = −0.28 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812022258/hb6780sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812022258/hb6780Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812022258/hb6780Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C15H19N3O6F(000) = 712
Mr = 337.33Dx = 1.380 Mg m3
Monoclinic, P21/cCu Kα radiation, λ = 1.54178 Å
Hall symbol: -P 2ybcCell parameters from 1828 reflections
a = 8.9735 (3) Åθ = 5.5–70.4°
b = 20.7073 (8) ŵ = 0.91 mm1
c = 10.4048 (5) ÅT = 296 K
β = 122.901 (3)°Plate, colourless
V = 1623.29 (11) Å30.74 × 0.25 × 0.06 mm
Z = 4
Bruker SMART APEXII CCD diffractometer2703 independent reflections
Radiation source: fine-focus sealed tube2058 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.046
φ and ω scansθmax = 65.0°, θmin = 5.5°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −10→10
Tmin = 0.551, Tmax = 0.947k = −24→24
10358 measured reflectionsl = −11→9
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.053Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.192H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.1344P)2] where P = (Fo2 + 2Fc2)/3
2703 reflections(Δ/σ)max < 0.001
229 parametersΔρmax = 0.25 e Å3
0 restraintsΔρmin = −0.28 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
O1−0.1466 (3)0.53103 (10)0.8205 (2)0.0711 (6)
O20.4090 (3)0.56823 (9)0.89076 (19)0.0641 (5)
O30.2864 (3)0.49181 (10)0.7100 (2)0.0710 (6)
O40.2803 (2)0.77285 (8)1.37663 (16)0.0578 (5)
O50.6292 (4)0.83396 (18)1.1329 (3)0.1239 (11)
O60.3640 (4)0.87058 (11)1.0701 (2)0.0823 (7)
N10.0899 (2)0.66141 (9)1.07033 (18)0.0438 (5)
N20.0839 (3)0.58945 (11)0.8529 (2)0.0602 (6)
N30.3295 (3)0.75674 (9)1.1876 (2)0.0497 (5)
C10.0965 (3)0.69752 (10)1.1805 (2)0.0449 (5)
C2−0.0180 (4)0.68863 (13)1.2288 (3)0.0584 (7)
H2A−0.01010.71451.30540.070*
C3−0.1448 (4)0.64055 (14)1.1610 (3)0.0638 (7)
H3A−0.22410.63371.19100.077*
C4−0.1521 (4)0.60292 (13)1.0484 (3)0.0572 (6)
H4A−0.23580.57011.00160.069*
C5−0.0334 (3)0.61483 (11)1.0065 (2)0.0471 (5)
C6−0.0374 (3)0.57458 (12)0.8840 (2)0.0530 (6)
C70.0902 (4)0.55753 (13)0.7325 (3)0.0607 (7)
H7A0.02290.51720.70740.073*
C80.2796 (4)0.54102 (12)0.7893 (3)0.0550 (6)
C90.4596 (4)0.46969 (16)0.7517 (3)0.0766 (8)
H9A0.44680.43530.68450.115*
H9B0.52360.45430.85530.115*
H9C0.52360.50470.74300.115*
C100.0058 (4)0.59893 (17)0.5880 (3)0.0788 (9)
H10A−0.11410.60920.55550.118*
H10B0.00580.57550.50830.118*
H10C0.07260.63810.60930.118*
C110.2444 (3)0.74632 (10)1.2579 (2)0.0439 (5)
C120.4982 (3)0.79021 (13)1.2598 (3)0.0566 (6)
H12A0.50710.81791.34010.068*
C130.5066 (5)0.83318 (16)1.1474 (3)0.0723 (9)
C140.3623 (7)0.91492 (19)0.9625 (4)0.1168 (16)
H14A0.25840.94160.91870.175*
H14B0.36100.89110.88280.175*
H14C0.46650.94161.01440.175*
C150.6504 (4)0.74250 (17)1.3363 (4)0.0899 (10)
H15A0.65150.72151.41910.135*
H15B0.76050.76501.37530.135*
H15C0.63560.71071.26300.135*
H1N30.289 (3)0.7353 (11)1.105 (3)0.044 (6)*
H1N20.151 (4)0.6210 (14)0.896 (3)0.063 (8)*
U11U22U33U12U13U23
O10.0754 (13)0.0729 (12)0.0837 (11)−0.0269 (10)0.0553 (11)−0.0275 (9)
O20.0620 (12)0.0660 (11)0.0641 (9)−0.0096 (9)0.0342 (9)−0.0117 (8)
O30.0754 (14)0.0750 (12)0.0845 (12)−0.0149 (10)0.0576 (11)−0.0296 (9)
O40.0738 (12)0.0660 (10)0.0528 (8)−0.0078 (9)0.0469 (9)−0.0110 (7)
O50.115 (2)0.176 (3)0.136 (2)−0.051 (2)0.1048 (19)−0.031 (2)
O60.1178 (18)0.0758 (13)0.0865 (12)−0.0121 (13)0.0770 (13)0.0060 (10)
N10.0479 (11)0.0482 (10)0.0445 (9)0.0006 (8)0.0310 (9)0.0015 (7)
N20.0646 (14)0.0696 (14)0.0651 (11)−0.0223 (12)0.0473 (11)−0.0253 (10)
N30.0573 (13)0.0580 (11)0.0470 (9)−0.0132 (9)0.0369 (10)−0.0131 (8)
C10.0506 (13)0.0491 (12)0.0440 (9)0.0040 (10)0.0315 (10)0.0047 (8)
C20.0720 (17)0.0656 (15)0.0631 (12)−0.0023 (13)0.0533 (13)−0.0044 (10)
C30.0662 (16)0.0735 (17)0.0811 (15)−0.0105 (14)0.0591 (14)−0.0040 (12)
C40.0602 (16)0.0566 (14)0.0705 (14)−0.0088 (12)0.0457 (13)−0.0010 (10)
C50.0490 (13)0.0486 (12)0.0503 (10)0.0000 (10)0.0312 (11)0.0019 (9)
C60.0542 (15)0.0541 (13)0.0569 (11)−0.0060 (11)0.0343 (12)−0.0062 (10)
C70.0639 (16)0.0681 (16)0.0653 (13)−0.0184 (13)0.0450 (13)−0.0261 (11)
C80.0679 (17)0.0549 (13)0.0589 (12)−0.0104 (13)0.0452 (13)−0.0090 (10)
C90.085 (2)0.083 (2)0.0836 (17)0.0065 (17)0.0600 (17)−0.0092 (14)
C100.072 (2)0.105 (2)0.0569 (13)−0.0048 (18)0.0335 (15)−0.0183 (14)
C110.0519 (13)0.0489 (12)0.0430 (10)0.0039 (10)0.0337 (10)0.0022 (8)
C120.0583 (15)0.0647 (15)0.0617 (12)−0.0148 (12)0.0422 (12)−0.0206 (10)
C130.086 (2)0.084 (2)0.0764 (16)−0.0386 (18)0.0634 (17)−0.0317 (15)
C140.197 (5)0.094 (2)0.095 (2)−0.044 (3)0.103 (3)−0.0047 (18)
C150.0597 (19)0.085 (2)0.122 (2)−0.0032 (16)0.0471 (18)−0.0272 (19)
O1—C61.227 (3)C4—C51.375 (3)
O2—C81.204 (3)C4—H4A0.9300
O3—C81.334 (3)C5—C61.507 (3)
O3—C91.442 (4)C7—C81.504 (4)
O4—C111.225 (2)C7—C101.527 (4)
O5—C131.189 (4)C7—H7A0.9800
O6—C131.329 (4)C9—H9A0.9600
O6—C141.441 (3)C9—H9B0.9600
N1—C51.340 (3)C9—H9C0.9600
N1—C11.343 (3)C10—H10A0.9600
N2—C61.329 (3)C10—H10B0.9600
N2—C71.445 (3)C10—H10C0.9600
N2—H1N20.83 (3)C12—C131.504 (4)
N3—C111.331 (3)C12—C151.514 (4)
N3—C121.449 (3)C12—H12A0.9800
N3—H1N30.85 (2)C14—H14A0.9600
C1—C21.379 (3)C14—H14B0.9600
C1—C111.507 (3)C14—H14C0.9600
C2—C31.383 (4)C15—H15A0.9600
C2—H2A0.9300C15—H15B0.9600
C3—C41.378 (3)C15—H15C0.9600
C3—H3A0.9300
C8—O3—C9117.4 (2)O3—C9—H9A109.5
C13—O6—C14116.2 (3)O3—C9—H9B109.5
C5—N1—C1117.75 (19)H9A—C9—H9B109.5
C6—N2—C7121.9 (2)O3—C9—H9C109.5
C6—N2—H1N2119 (2)H9A—C9—H9C109.5
C7—N2—H1N2118 (2)H9B—C9—H9C109.5
C11—N3—C12122.81 (17)C7—C10—H10A109.5
C11—N3—H1N3114.2 (17)C7—C10—H10B109.5
C12—N3—H1N3121.7 (17)H10A—C10—H10B109.5
N1—C1—C2122.7 (2)C7—C10—H10C109.5
N1—C1—C11116.56 (19)H10A—C10—H10C109.5
C2—C1—C11120.61 (19)H10B—C10—H10C109.5
C1—C2—C3118.7 (2)O4—C11—N3124.5 (2)
C1—C2—H2A120.7O4—C11—C1120.8 (2)
C3—C2—H2A120.7N3—C11—C1114.65 (17)
C4—C3—C2119.1 (2)N3—C12—C13111.0 (2)
C4—C3—H3A120.4N3—C12—C15110.5 (2)
C2—C3—H3A120.4C13—C12—C15112.5 (3)
C5—C4—C3118.7 (2)N3—C12—H12A107.5
C5—C4—H4A120.6C13—C12—H12A107.5
C3—C4—H4A120.6C15—C12—H12A107.5
N1—C5—C4123.0 (2)O5—C13—O6124.6 (3)
N1—C5—C6116.8 (2)O5—C13—C12123.2 (4)
C4—C5—C6120.1 (2)O6—C13—C12112.2 (2)
O1—C6—N2124.0 (2)O6—C14—H14A109.5
O1—C6—C5120.5 (2)O6—C14—H14B109.5
N2—C6—C5115.5 (2)H14A—C14—H14B109.5
N2—C7—C8109.3 (2)O6—C14—H14C109.5
N2—C7—C10111.4 (2)H14A—C14—H14C109.5
C8—C7—C10111.4 (2)H14B—C14—H14C109.5
N2—C7—H7A108.2C12—C15—H15A109.5
C8—C7—H7A108.2C12—C15—H15B109.5
C10—C7—H7A108.2H15A—C15—H15B109.5
O2—C8—O3123.6 (2)C12—C15—H15C109.5
O2—C8—C7125.8 (2)H15A—C15—H15C109.5
O3—C8—C7110.6 (2)H15B—C15—H15C109.5
C5—N1—C1—C2−0.4 (3)C9—O3—C8—C7−179.5 (2)
C5—N1—C1—C11175.80 (18)N2—C7—C8—O2−25.0 (4)
N1—C1—C2—C30.0 (4)C10—C7—C8—O298.6 (3)
C11—C1—C2—C3−176.0 (2)N2—C7—C8—O3156.0 (2)
C1—C2—C3—C40.4 (4)C10—C7—C8—O3−80.5 (3)
C2—C3—C4—C5−0.4 (4)C12—N3—C11—O413.6 (4)
C1—N1—C5—C40.3 (3)C12—N3—C11—C1−165.8 (2)
C1—N1—C5—C6−179.55 (19)N1—C1—C11—O4−166.69 (19)
C3—C4—C5—N10.1 (4)C2—C1—C11—O49.5 (3)
C3—C4—C5—C6179.9 (2)N1—C1—C11—N312.8 (3)
C7—N2—C6—O14.1 (4)C2—C1—C11—N3−171.0 (2)
C7—N2—C6—C5−176.5 (2)C11—N3—C12—C13−141.6 (2)
N1—C5—C6—O1180.0 (2)C11—N3—C12—C1592.8 (3)
C4—C5—C6—O10.1 (4)C14—O6—C13—O5−0.3 (4)
N1—C5—C6—N20.5 (3)C14—O6—C13—C12178.2 (2)
C4—C5—C6—N2−179.3 (2)N3—C12—C13—O5−131.9 (3)
C6—N2—C7—C8−136.0 (3)C15—C12—C13—O5−7.5 (4)
C6—N2—C7—C10100.4 (3)N3—C12—C13—O649.5 (3)
C9—O3—C8—O21.4 (4)C15—C12—C13—O6173.9 (2)
D—H···AD—HH···AD···AD—H···A
N3—H1N3···N10.85 (3)2.23 (3)2.676 (3)113 (2)
N3—H1N3···O4i0.85 (2)2.35 (2)3.080 (2)145 (2)
N2—H1N2···N10.84 (3)2.32 (3)2.685 (3)107 (3)
N2—H1N2···O4i0.83 (3)2.55 (3)3.290 (3)149 (2)
C9—H9B···O2ii0.962.413.329 (3)159
C15—H15B···Cg1iii0.962.783.544 (4)137
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroid of the N1/C1–C5 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
N3—H1N3⋯N10.85 (3)2.23 (3)2.676 (3)113 (2)
N3—H1N3⋯O4i0.85 (2)2.35 (2)3.080 (2)145 (2)
N2—H1N2⋯N10.84 (3)2.32 (3)2.685 (3)107 (3)
N2—H1N2⋯O4i0.83 (3)2.55 (3)3.290 (3)149 (2)
C9—H9B⋯O2ii0.962.413.329 (3)159
C15—H15BCg1iii0.962.783.544 (4)137

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

  7 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.  Synthesis and antiandrogenic activity of some new 3-substituted androstano[17,16-c]-5'-aryl-pyrazoline and their derivatives.

Authors:  Abd El-Galil E Amr; Nehad A Abdel-Latif; Mohamed M Abdalla
Journal:  Bioorg Med Chem       Date:  2005-09-22       Impact factor: 3.641

3.  Synthesis and reactions of some new substituted pyridine and pyrimidine derivatives as analgesic, anticonvulsant and antiparkinsonian agents.

Authors:  Abd El-Galil E Amr; Hayam H Sayed; Mohamed M Abdulla
Journal:  Arch Pharm (Weinheim)       Date:  2005-09       Impact factor: 3.751

4.  Synthesis and investigation of a new cyclo (Nalpha-dipicolinoyl) pentapeptide of a breast and CNS cytotoxic activity and an ionophoric specificity.

Authors:  M Abo-Ghalia; A Amr
Journal:  Amino Acids       Date:  2003-10-17       Impact factor: 3.520

5.  Synthesis of some new pyridine-2,6-carboxamide-derived Schiff bases as potential antimicrobial agents.

Authors:  Mohamed A Al-Omar; Abd El-Galil E Amr
Journal:  Molecules       Date:  2010-07-06       Impact factor: 4.411

6.  Synthesis of chiral macrocyclic or linear pyridine carboxamides from pyridine-2,6-dicarbonyl dichloride as antimicrobial agents.

Authors:  Rashad A Al-Salahi; Mohamed A Al-Omar; Abd El-Galil E Amr
Journal:  Molecules       Date:  2010-09-20       Impact factor: 4.411

7.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  7 in total

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