Literature DB >> 21579540

Methyl 3-(1H-indole-3-carboxamido)propionate hemihydrate.

Gang Huang1, Xing Yan Xu, Xiang Chao Zeng, Le Zheng, Kai Ping Li.   

Abstract

The title compound, C(13)H(14)N(2)O(3)·0.5H(2)O, was synthesized by the condensation of methyl 3-amino-propionate with 3-trichloro-acetyl-indole. The two organic mol-ecules in the asymmetric unit are both close to planar, with r.m.s. deviations from the best fit plane through all of the non-H atoms of 0.004 (2) Å for mol-ecule A and 0.006 (1) Å for mol-ecule B. Also, the five- and six-membered rings of the indole systems are inclined at 1.67 (8) and 1.50 (8)° in mol-ecules A and B, respectively. In the crystal structure, the organic molecules are connected by inter-molecular N-H⋯O hydrogen bonds, forming chains. O-H⋯O and N-H⋯O hydrogen-bond inter-actions involving the water molecules inter-link these chains, forming double chains approximately parallel to the a axis.

Entities:  

Year:  2010        PMID: 21579540      PMCID: PMC2979597          DOI: 10.1107/S1600536810018015

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


Related literature

For the bioactivity of indole derivatives, see: Fabio et al. (2007 ▶); Sharma et al. (2004 ▶). For related structures, see: Huang et al. (2009 ▶); Siddiquee et al. (2009 ▶). For reference structural data, see Allen et al. (1987 ▶).

Experimental

Crystal data

C13H14N2O3·0.5H2O M = 255.27 Monoclinic, a = 10.8220 (13) Å b = 9.7668 (12) Å c = 23.623 (3) Å β = 92.422 (2)° V = 2494.6 (5) Å3 Z = 8 Mo Kα radiation μ = 0.10 mm−1 T = 173 K 0.46 × 0.43 × 0.39 mm

Data collection

Bruker SMART 1K CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.955, T max = 0.962 13021 measured reflections 5484 independent reflections 4349 reflections with I > 2σ(I) R int = 0.036

Refinement

R[F 2 > 2σ(F 2)] = 0.042 wR(F 2) = 0.126 S = 1.07 5484 reflections 336 parameters H-atom parameters constrained Δρmax = 0.29 e Å−3 Δρmin = −0.24 e Å−3 Data collection: SMART (Bruker, 1999 ▶); cell refinement: SAINT-Plus (Bruker, 1999 ▶); data reduction: SAINT-Plus; 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/S1600536810018015/sj2794sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810018015/sj2794Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H14N2O3·0.5H2OF(000) = 1080
Mr = 255.27Dx = 1.359 Mg m3
Monoclinic, P21/nMelting point: 409 K
Hall symbol: -P 2ynMo Kα radiation, λ = 0.71073 Å
a = 10.8220 (13) ÅCell parameters from 7482 reflections
b = 9.7668 (12) Åθ = 2.3–27.1°
c = 23.623 (3) ŵ = 0.10 mm1
β = 92.422 (2)°T = 173 K
V = 2494.6 (5) Å3Block, yellow
Z = 80.46 × 0.43 × 0.39 mm
Bruker SMART 1K CCD area-detector diffractometer5484 independent reflections
Radiation source: fine-focus sealed tube4349 reflections with I > 2σ(I)
graphiteRint = 0.036
φ and ω scansθmax = 27.1°, θmin = 1.7°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −13→11
Tmin = 0.955, Tmax = 0.962k = −8→12
13021 measured reflectionsl = −30→30
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.042Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.126H-atom parameters constrained
S = 1.07w = 1/[σ2(Fo2) + (0.0626P)2 + 0.3718P] where P = (Fo2 + 2Fc2)/3
5484 reflections(Δ/σ)max = 0.001
336 parametersΔρmax = 0.28 e Å3
0 restraintsΔρmin = −0.23 e Å3
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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
C10.80813 (13)−0.08599 (15)0.03833 (6)0.0318 (3)
H10.8269−0.06660.00020.038*
C20.71838 (12)−0.02181 (14)0.06810 (6)0.0272 (3)
C30.72133 (12)−0.08192 (14)0.12390 (6)0.0275 (3)
C40.65431 (14)−0.06387 (16)0.17297 (6)0.0341 (3)
H40.59170.00410.17430.041*
C50.68093 (15)−0.14651 (17)0.21922 (6)0.0398 (4)
H50.6352−0.13560.25240.048*
C60.77349 (16)−0.24579 (17)0.21840 (7)0.0421 (4)
H60.7892−0.30120.25100.051*
C70.84253 (14)−0.26528 (16)0.17145 (7)0.0373 (3)
H70.9061−0.33230.17100.045*
C80.81497 (12)−0.18210 (14)0.12439 (6)0.0297 (3)
C90.62911 (13)0.08453 (15)0.04984 (6)0.0305 (3)
C100.53881 (13)0.24140 (15)−0.01892 (6)0.0311 (3)
H10A0.55360.32260.00550.037*
H10B0.45440.2074−0.01250.037*
C110.54663 (13)0.28339 (15)−0.08026 (6)0.0321 (3)
H11A0.63160.3150−0.08720.039*
H11B0.52860.2034−0.10500.039*
C120.45597 (13)0.39641 (15)−0.09478 (6)0.0308 (3)
C130.39062 (16)0.55673 (18)−0.16381 (7)0.0433 (4)
H13A0.39590.6307−0.13580.065*
H13B0.30560.5222−0.16700.065*
H13C0.41450.5917−0.20070.065*
C140.29377 (13)0.36840 (16)0.06182 (6)0.0341 (3)
H140.31020.36920.02260.041*
C150.21024 (12)0.45232 (14)0.08725 (6)0.0290 (3)
C160.21441 (12)0.41712 (14)0.14649 (6)0.0284 (3)
C170.15418 (14)0.46235 (16)0.19450 (6)0.0354 (3)
H170.09280.53170.19130.042*
C180.18574 (16)0.40417 (17)0.24654 (7)0.0432 (4)
H180.14460.43350.27910.052*
C190.27677 (16)0.30334 (18)0.25209 (7)0.0441 (4)
H190.29770.26690.28850.053*
C200.33663 (15)0.25580 (17)0.20592 (7)0.0399 (4)
H200.39810.18660.20970.048*
C210.30395 (13)0.31267 (15)0.15322 (6)0.0319 (3)
C220.13786 (12)0.56060 (14)0.05926 (6)0.0290 (3)
C230.08226 (13)0.69102 (15)−0.02576 (6)0.0301 (3)
H23A0.10480.7807−0.00880.036*
H23B−0.00720.6763−0.02110.036*
C240.10799 (13)0.69297 (15)−0.08814 (6)0.0328 (3)
H24A0.19720.7095−0.09290.039*
H24B0.08660.6029−0.10510.039*
C250.03353 (13)0.80346 (15)−0.11816 (6)0.0310 (3)
C26−0.01206 (18)0.91058 (19)−0.20573 (7)0.0497 (4)
H26A−0.10050.8992−0.19970.075*
H26B0.00330.8978−0.24600.075*
H26C0.01391.0028−0.19400.075*
N10.86589 (11)−0.18166 (13)0.07191 (5)0.0333 (3)
H1A0.9265−0.23510.06170.040*
N20.62849 (11)0.13484 (13)−0.00271 (5)0.0317 (3)
H20.68110.1044−0.02720.038*
N30.34897 (12)0.28454 (14)0.10095 (5)0.0375 (3)
H30.40480.22200.09400.045*
N40.15203 (11)0.58337 (12)0.00368 (5)0.0320 (3)
H4A0.20390.5327−0.01500.038*
O10.55464 (11)0.12826 (13)0.08443 (5)0.0466 (3)
O20.37724 (10)0.43840 (12)−0.06434 (4)0.0405 (3)
O30.47321 (10)0.44687 (12)−0.14607 (4)0.0393 (3)
O40.06489 (10)0.63299 (11)0.08581 (4)0.0396 (3)
O5−0.03955 (10)0.87601 (12)−0.09532 (4)0.0402 (3)
O60.05767 (10)0.80986 (12)−0.17246 (4)0.0413 (3)
O1W0.20002 (11)0.89955 (13)0.09463 (5)0.0507 (3)
H1B0.15370.83010.09940.076*
H1C0.15920.97040.10310.076*
U11U22U33U12U13U23
C10.0314 (7)0.0312 (7)0.0330 (7)0.0062 (6)0.0043 (5)0.0008 (6)
C20.0245 (6)0.0256 (6)0.0314 (7)0.0024 (5)0.0014 (5)−0.0018 (5)
C30.0257 (6)0.0249 (6)0.0317 (7)0.0006 (5)−0.0005 (5)−0.0032 (5)
C40.0347 (7)0.0341 (8)0.0338 (7)0.0017 (6)0.0035 (6)−0.0060 (6)
C50.0477 (9)0.0418 (9)0.0303 (7)−0.0043 (7)0.0050 (6)−0.0012 (6)
C60.0537 (10)0.0372 (8)0.0349 (8)−0.0022 (7)−0.0066 (7)0.0058 (7)
C70.0395 (8)0.0307 (7)0.0411 (8)0.0050 (6)−0.0056 (6)0.0029 (6)
C80.0279 (7)0.0270 (7)0.0341 (7)0.0006 (5)−0.0005 (5)−0.0024 (6)
C90.0288 (7)0.0297 (7)0.0331 (7)0.0048 (6)−0.0001 (5)−0.0024 (6)
C100.0319 (7)0.0298 (7)0.0315 (7)0.0067 (6)−0.0002 (5)−0.0002 (6)
C110.0298 (7)0.0335 (7)0.0329 (7)0.0029 (6)0.0000 (6)−0.0017 (6)
C120.0311 (7)0.0322 (7)0.0289 (7)−0.0009 (6)−0.0006 (5)−0.0002 (6)
C130.0491 (9)0.0457 (9)0.0353 (8)0.0135 (8)0.0020 (7)0.0086 (7)
C140.0337 (7)0.0351 (8)0.0337 (7)0.0100 (6)0.0053 (6)0.0028 (6)
C150.0259 (6)0.0268 (7)0.0345 (7)0.0041 (5)0.0027 (5)0.0002 (6)
C160.0268 (6)0.0243 (6)0.0341 (7)0.0008 (5)0.0004 (5)0.0001 (5)
C170.0389 (8)0.0294 (7)0.0381 (8)0.0072 (6)0.0045 (6)−0.0022 (6)
C180.0561 (10)0.0393 (9)0.0347 (8)0.0068 (7)0.0078 (7)−0.0024 (7)
C190.0588 (10)0.0387 (9)0.0344 (8)0.0063 (8)−0.0015 (7)0.0052 (7)
C200.0431 (8)0.0356 (8)0.0409 (8)0.0106 (7)−0.0001 (7)0.0071 (7)
C210.0304 (7)0.0303 (7)0.0352 (7)0.0044 (6)0.0033 (6)0.0009 (6)
C220.0263 (6)0.0261 (7)0.0348 (7)0.0031 (5)0.0018 (5)0.0007 (6)
C230.0299 (7)0.0281 (7)0.0324 (7)0.0049 (6)0.0010 (5)0.0012 (6)
C240.0331 (7)0.0315 (7)0.0341 (7)0.0051 (6)0.0048 (6)−0.0007 (6)
C250.0335 (7)0.0303 (7)0.0293 (7)−0.0022 (6)0.0032 (5)−0.0012 (6)
C260.0705 (12)0.0463 (10)0.0321 (8)0.0024 (9)−0.0013 (8)0.0089 (7)
N10.0307 (6)0.0316 (6)0.0378 (7)0.0109 (5)0.0052 (5)0.0001 (5)
N20.0305 (6)0.0324 (6)0.0323 (6)0.0086 (5)0.0027 (5)0.0000 (5)
N30.0371 (7)0.0375 (7)0.0381 (7)0.0170 (6)0.0061 (5)0.0035 (5)
N40.0322 (6)0.0307 (6)0.0333 (6)0.0102 (5)0.0046 (5)0.0017 (5)
O10.0473 (6)0.0551 (7)0.0382 (6)0.0289 (6)0.0098 (5)0.0055 (5)
O20.0419 (6)0.0452 (6)0.0348 (5)0.0147 (5)0.0070 (4)0.0054 (5)
O30.0441 (6)0.0426 (6)0.0314 (5)0.0128 (5)0.0050 (4)0.0057 (5)
O40.0419 (6)0.0392 (6)0.0381 (6)0.0197 (5)0.0084 (4)0.0045 (5)
O50.0467 (6)0.0393 (6)0.0350 (5)0.0148 (5)0.0056 (5)0.0025 (5)
O60.0523 (7)0.0422 (6)0.0298 (5)0.0042 (5)0.0061 (5)0.0037 (5)
O1W0.0556 (7)0.0471 (7)0.0506 (7)0.0176 (6)0.0152 (6)0.0011 (6)
C1—N11.3606 (18)C15—C161.4399 (19)
C1—C21.3744 (19)C15—C221.4579 (19)
C1—H10.9500C16—C171.403 (2)
C2—C31.4421 (19)C16—C211.4114 (19)
C2—C91.4706 (19)C17—C181.384 (2)
C3—C41.404 (2)C17—H170.9500
C3—C81.4083 (19)C18—C191.395 (2)
C4—C51.379 (2)C18—H180.9500
C4—H40.9500C19—C201.373 (2)
C5—C61.395 (2)C19—H190.9500
C5—H50.9500C20—C211.395 (2)
C6—C71.376 (2)C20—H200.9500
C6—H60.9500C21—N31.3743 (19)
C7—C81.399 (2)C22—O41.2485 (17)
C7—H70.9500C22—N41.3467 (18)
C8—N11.3779 (19)C23—N41.4543 (17)
C9—O11.2470 (17)C23—C241.511 (2)
C9—N21.3348 (18)C23—H23A0.9900
C10—N21.4630 (17)C23—H23B0.9900
C10—C111.512 (2)C24—C251.506 (2)
C10—H10A0.9900C24—H24A0.9900
C10—H10B0.9900C24—H24B0.9900
C11—C121.507 (2)C25—O51.2062 (18)
C11—H11A0.9900C25—O61.3212 (17)
C11—H11B0.9900C26—O61.451 (2)
C12—O21.2095 (17)C26—H26A0.9800
C12—O31.3285 (17)C26—H26B0.9800
C13—O31.4470 (19)C26—H26C0.9800
C13—H13A0.9800N1—H1A0.8800
C13—H13B0.9800N2—H20.8800
C13—H13C0.9800N3—H30.8800
C14—N31.3548 (19)N4—H4A0.8800
C14—C151.377 (2)O1W—H1B0.8533
C14—H140.9500O1W—H1C0.8497
N1—C1—C2109.39 (12)C21—C16—C15105.98 (12)
N1—C1—H1125.3C18—C17—C16118.89 (14)
C2—C1—H1125.3C18—C17—H17120.6
C1—C2—C3107.05 (12)C16—C17—H17120.6
C1—C2—C9129.92 (13)C17—C18—C19121.33 (15)
C3—C2—C9122.99 (12)C17—C18—H18119.3
C4—C3—C8118.49 (13)C19—C18—H18119.3
C4—C3—C2135.33 (13)C20—C19—C18121.28 (15)
C8—C3—C2106.17 (12)C20—C19—H19119.4
C5—C4—C3118.86 (14)C18—C19—H19119.4
C5—C4—H4120.6C19—C20—C21117.64 (14)
C3—C4—H4120.6C19—C20—H20121.2
C4—C5—C6121.47 (15)C21—C20—H20121.2
C4—C5—H5119.3N3—C21—C20129.50 (13)
C6—C5—H5119.3N3—C21—C16108.12 (12)
C7—C6—C5121.46 (15)C20—C21—C16122.37 (14)
C7—C6—H6119.3O4—C22—N4119.79 (12)
C5—C6—H6119.3O4—C22—C15121.47 (13)
C6—C7—C8117.08 (14)N4—C22—C15118.73 (12)
C6—C7—H7121.5N4—C23—C24111.22 (11)
C8—C7—H7121.5N4—C23—H23A109.4
N1—C8—C7129.56 (13)C24—C23—H23A109.4
N1—C8—C3107.79 (12)N4—C23—H23B109.4
C7—C8—C3122.63 (14)C24—C23—H23B109.4
O1—C9—N2120.34 (13)H23A—C23—H23B108.0
O1—C9—C2118.97 (13)C25—C24—C23110.56 (11)
N2—C9—C2120.68 (12)C25—C24—H24A109.5
N2—C10—C11112.37 (11)C23—C24—H24A109.5
N2—C10—H10A109.1C25—C24—H24B109.5
C11—C10—H10A109.1C23—C24—H24B109.5
N2—C10—H10B109.1H24A—C24—H24B108.1
C11—C10—H10B109.1O5—C25—O6124.53 (13)
H10A—C10—H10B107.9O5—C25—C24123.92 (13)
C12—C11—C10110.78 (12)O6—C25—C24111.54 (12)
C12—C11—H11A109.5O6—C26—H26A109.5
C10—C11—H11A109.5O6—C26—H26B109.5
C12—C11—H11B109.5H26A—C26—H26B109.5
C10—C11—H11B109.5O6—C26—H26C109.5
H11A—C11—H11B108.1H26A—C26—H26C109.5
O2—C12—O3123.10 (13)H26B—C26—H26C109.5
O2—C12—C11125.54 (13)C1—N1—C8109.60 (11)
O3—C12—C11111.36 (12)C1—N1—H1A125.2
O3—C13—H13A109.5C8—N1—H1A125.2
O3—C13—H13B109.5C9—N2—C10118.86 (11)
H13A—C13—H13B109.5C9—N2—H2120.6
O3—C13—H13C109.5C10—N2—H2120.6
H13A—C13—H13C109.5C14—N3—C21109.23 (12)
H13B—C13—H13C109.5C14—N3—H3125.4
N3—C14—C15109.93 (13)C21—N3—H3125.4
N3—C14—H14125.0C22—N4—C23120.49 (11)
C15—C14—H14125.0C22—N4—H4A119.8
C14—C15—C16106.73 (12)C23—N4—H4A119.8
C14—C15—C22125.74 (13)C12—O3—C13115.49 (12)
C16—C15—C22127.45 (12)C25—O6—C26116.00 (12)
C17—C16—C21118.46 (13)H1B—O1W—H1C107.6
C17—C16—C15135.56 (13)
N1—C1—C2—C30.15 (16)C16—C17—C18—C190.8 (3)
N1—C1—C2—C9−177.67 (14)C17—C18—C19—C20−1.5 (3)
C1—C2—C3—C4−179.04 (15)C18—C19—C20—C210.5 (3)
C9—C2—C3—C4−1.0 (2)C19—C20—C21—N3179.75 (16)
C1—C2—C3—C8−0.29 (15)C19—C20—C21—C161.1 (2)
C9—C2—C3—C8177.72 (12)C17—C16—C21—N3179.37 (13)
C8—C3—C4—C5−1.3 (2)C15—C16—C21—N3−1.26 (16)
C2—C3—C4—C5177.35 (15)C17—C16—C21—C20−1.7 (2)
C3—C4—C5—C60.8 (2)C15—C16—C21—C20177.67 (14)
C4—C5—C6—C70.2 (2)C14—C15—C22—O4−179.26 (14)
C5—C6—C7—C8−0.6 (2)C16—C15—C22—O4−3.1 (2)
C6—C7—C8—N1−177.99 (14)C14—C15—C22—N4−0.2 (2)
C6—C7—C8—C30.1 (2)C16—C15—C22—N4175.97 (13)
C4—C3—C8—N1179.32 (12)N4—C23—C24—C25179.09 (12)
C2—C3—C8—N10.31 (15)C23—C24—C25—O5−2.6 (2)
C4—C3—C8—C70.9 (2)C23—C24—C25—O6177.96 (12)
C2—C3—C8—C7−178.12 (13)C2—C1—N1—C80.05 (16)
C1—C2—C9—O1179.73 (15)C7—C8—N1—C1178.05 (15)
C3—C2—C9—O12.2 (2)C3—C8—N1—C1−0.23 (16)
C1—C2—C9—N2−1.0 (2)O1—C9—N2—C10−0.2 (2)
C3—C2—C9—N2−178.56 (12)C2—C9—N2—C10−179.46 (12)
N2—C10—C11—C12−178.09 (12)C11—C10—N2—C9−177.74 (12)
C10—C11—C12—O2−8.0 (2)C15—C14—N3—C21−0.72 (18)
C10—C11—C12—O3171.58 (12)C20—C21—N3—C14−177.58 (16)
N3—C14—C15—C16−0.08 (17)C16—C21—N3—C141.25 (17)
N3—C14—C15—C22176.72 (13)O4—C22—N4—C23−0.5 (2)
C14—C15—C16—C17−179.97 (16)C15—C22—N4—C23−179.56 (13)
C22—C15—C16—C173.3 (3)C24—C23—N4—C22−177.04 (12)
C14—C15—C16—C210.82 (16)O2—C12—O3—C13−0.2 (2)
C22—C15—C16—C21−175.91 (14)C11—C12—O3—C13−179.74 (13)
C21—C16—C17—C180.7 (2)O5—C25—O6—C26−1.2 (2)
C15—C16—C17—C18−178.40 (16)C24—C25—O6—C26178.26 (13)
D—H···AD—HH···AD···AD—H···A
N1—H1A···O4i0.882.042.8219 (15)148
N2—H2···O1Wii0.882.092.9348 (17)161
N3—H3···O10.881.882.7404 (16)164
N4—H4A···O20.882.433.2952 (15)167
O1W—H1B···O40.852.172.9890 (18)161
O1W—H1C···O5iii0.851.982.7970 (16)160
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1A⋯O4i0.882.042.8219 (15)148
N2—H2⋯O1Wii0.882.092.9348 (17)161
N3—H3⋯O10.881.882.7404 (16)164
N4—H4A⋯O20.882.433.2952 (15)167
O1W—H1B⋯O40.852.172.9890 (18)161
O1W—H1C⋯O5iii0.851.982.7970 (16)160

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

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