Home Crystal structure of methyl 2-(4-(3-iodopyrazolo[1,5-a]pyrimidin-6-yl)phenyl)acetate, C15H12IN3O2
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Crystal structure of methyl 2-(4-(3-iodopyrazolo[1,5-a]pyrimidin-6-yl)phenyl)acetate, C15H12IN3O2

  • Bo Fang ORCID logo , Fang Fang Jiang and Jiang Ping Meng EMAIL logo
Published/Copyright: November 2, 2019

Abstract

C15H12IN3O2, triclinic, P1̄ (no. 2), a = 4.511(2) Å, b = 11.891(6) Å, c = 14.557(7) Å, α = 109.709(9)°, β = 96.971(9)°, γ = 97.054(9)°, V = 718.4(6) Å3, Z = 2, Rgt(F) = 0.0449, wRref(F2) = 0.1052, T = 293(2) K.

CCDC no.: 1959574

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Orange block
Size:0.29 × 0.25 × 0.22 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:2.24 mm−1
Diffractometer, scan mode:Bruker APEX-II, φ and ω
θmax, completeness:25.0°, 99%
N(hkl)measured, N(hkl)unique, Rint:3660, 2512, 0.028
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 1797
N(param)refined:178
Programs:Bruker [1], SHELX [2], [3], Olex2 [4]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

AtomxyzUiso*/Ueq
I11.51074(10)0.92313(4)0.77704(3)0.0673(2)
O1−0.3231(16)0.6328(5)−0.0621(4)0.123(2)
O2−0.0358(12)0.7943(5)0.0417(3)0.0865(15)
N10.8841(14)0.6054(5)0.6021(4)0.0794(17)
N20.8300(12)0.6828(4)0.5546(3)0.0570(12)
N30.9939(11)0.8818(4)0.5622(3)0.0503(11)
C11.1978(14)0.7850(5)0.6763(4)0.0538(14)
C21.1077(17)0.6686(6)0.6753(5)0.0729(19)
H21.1957920.6385970.7212740.087*
C31.0156(13)0.7919(5)0.5972(4)0.0469(13)
C40.6111(14)0.6588(5)0.4756(4)0.0603(16)
H40.4822920.5839440.4487480.072*
C50.5823(13)0.7453(5)0.4363(4)0.0471(13)
C60.7864(13)0.8562(5)0.4839(4)0.0510(14)
H60.7715510.9164540.4570710.061*
C70.3472(7)0.7280(3)0.3508(2)0.0476(13)
C80.2200(8)0.6122(2)0.2845(3)0.0529(14)
H80.2862460.5448370.2931200.063*
C9−0.0063(8)0.5972(2)0.2054(2)0.0579(15)
H9−0.0914750.5196790.1610140.070*
C10−0.1054(7)0.6979(3)0.1925(2)0.0495(14)
C110.0219(8)0.8137(3)0.2588(3)0.0534(14)
H11−0.0443800.8811100.2501600.064*
C120.2482(8)0.8288(2)0.3379(2)0.0517(14)
H120.3333430.9062700.3822660.062*
C13−0.3502(14)0.6805(6)0.1078(4)0.0631(16)
H13A−0.4857780.7374530.1302010.076*
H13B−0.4669430.5992660.0871900.076*
C14−0.2364(16)0.6974(6)0.0202(5)0.0647(17)
C150.0847(19)0.8153(8)−0.0393(6)0.107(3)
H15A0.2303160.889277−0.0144230.160*
H15B0.1813850.748928−0.0720030.160*
H15C−0.0772000.821787−0.0855330.160*

Source of material

To a solution of methyl 2-(4-(pyrazolo[1,5-a]pyrimidin-6-yl)phenyl)acetate (1.07 g, 4.0 mmol) in anhydrous dichloromethane (20 mL) was added N-iodosuccinimide (0.95 g, 4.2 mmol) while cooled by an ice-water. After addition the mixture was warmed to room temperature naturally and stirred for 20 min. Then the reaction mixture was quenched by saturated sodium bicarbonate solution and extracted by dichloromethane, and washed with brine. The organic phase was dried by anhydrous sodium sulfate, concentrated and purified by column chromatography over silica gel eluting with a gradient of ethyl acetate/hexane (v/v, 0–20%) to give the white solid. Yield, 1.45 g, 92%. The title compound was dissolved in ethyl acetate/hexane (v/v, 1/9), and the solvent was evaporated slowly at room temperature. After three days, colourless crystals were obtained.

Experimental details

Data reduction was carried out using SAINT+ and SADABS [1]. The structure was determined by the intrinsic phasing routines in the SHELXT program [2] and refined in SHELXL [3] by using Olex 2 [4]. All hydrogen atoms were placed in the calculated positions.

Comment

The compounds containing pyrazolo[1,5-a]pyrimidine scaffold have rich biological activities, especially this kind of compounds exhibited strong biological effects on AMPK, MET and VEGF in the field of anti-cancer drugs [5], [6]. Therefore, the related derivatives are ideal lead compounds for the development of anti-cancer drugs. In our previous works, we synthesized (methyl 2-(4-(3-bromopyrazolo[1,5-a] pyrimidin-6-yl)phenyl)acetate) and hoped to introduce aromatic groups into the position of bromine atom by coupling reaction [7], [8]. But some coupling reactions can not be carried out due to the low reactivity of bromide, so we try to synthesize iodide which exhibits higher reactivity than corresponding bromide to adress this problem. In this work, methyl 2-(4-(3-iodopyrazolo[1,5-a]pyrimidin-6-yl)phenyl)acetate was synthesized by a simple halogenation reaction using N-iodosuccinimide.

The crystallographically independent molecule of the crystal structure is shown in the figure. The NMR and LC-MS results are consistent with the proposed structure. The bond lengths and angles are in the normal ranges. The subsequent experiments showed that iodide has proper reactivities to introduce diverse aryl functional group into title compounds, which is very important to develop novel anticancer drugs.

Award Identifier / Grant number: 21901028

Award Identifier / Grant number: cstc2019jcyj-msxmX0202

Award Identifier / Grant number: cstc2019jcyj-msxmX0012

Award Identifier / Grant number: KJQN201801305

Award Identifier / Grant number: KJQN201801321

Funding statement: We are grateful for the financial support from the National Natural Science Foundation of China (Grant No. 21901028), Natural Science Foundation of Chongqing (Grant Nos. cstc2019jcyj-msxmX0202 and cstc2019jcyj-msxmX0012), Science and Technology Research Program of Chongqing Municipal Education Commission (Grant Nos. KJQN201801305 and KJQN201801321) and Chongqing University of Arts and Sciences (2017RBX08).

References

1. Bruker. SAINT+, version 7.60A (Includes XPREP and SADABS). Bruker AXS Inc., Madison, WI, USA (2009).Search in Google Scholar

2. Sheldrick, G. M.: SHELXT – integrated space-group and crystal structure determination. Acta Crystallogr. A71 (2015) 3–8.10.1107/S2053273314026370Search in Google Scholar PubMed PubMed Central

3. Sheldrick, G. M.: Crystal structure refinement with SHELXL. Acta Crystallogr. C71 (2015) 3–8.10.1107/S2053229614024218Search in Google Scholar PubMed PubMed Central

4. Dolomanov, O. V.; Bourhis, L. J.; Gildea, R. J.; Howard, J. A. K.; Puschmann, H.: OLEX2: A complete structure solution, refinement and analysis program. J. Appl. Crystallogr. 42 (2009) 339–341.10.1107/S0021889808042726Search in Google Scholar

5. Golubev, P.; Karpova, E. A.; Pankova, A. S.; Sorokina, M.; Kuznetsov, M. A.: Regioselective synthesis of 7-(trimethylsilylethynyl)pyrazolo[1,5-a] pyrimidines via reaction of pyrazolamines with enynones. J. Org. Chem. 81 (2016) 11268–11275.10.1021/acs.joc.6b02217Search in Google Scholar PubMed

6. Hao, J.; Ho, J. N.; Lewis, J. A.; Karim, K. A.; Daniels, R. N.; Gentry, P. R.; Hopkins, C. R.; Lindsley, C. W.; Hong, C. C.: In vivo structure-activity relationship study of dorsomorphin analogues identifies selective VEGF and BMP inhibitiors. ACS Chem. Biol. 5 (2010) 245–253.10.1021/cb9002865Search in Google Scholar PubMed PubMed Central

7. Fang, B.; Meng, J. P.; Gan, L. L.: Crystal structure of methyl 2-(4-(3-(1-methyl-1H-pyrazol-4-yl)pyrazolo[1,5-a]pyrimidin-6-yl) phenyl)acetate, C19H17N5O2. Z. Kristallogr. NCS 234 (2019) 575–577.10.1515/ncrs-2018-0580Search in Google Scholar

8. Fang, B.; Meng, J. P.; Luo, Y.: Crystal structure of methyl 2-(4-(pyrazolo[1,5-a]pyrimidin-6-yl)phenyl)acetate, C15H13N3O2. Z. Kristallogr. NCS 234 (2019) 395–396.10.1515/ncrs-2018-0224Search in Google Scholar

Received: 2019-08-27
Accepted: 2019-10-16
Published Online: 2019-11-02
Published in Print: 2020-02-25

©2019 Bo Fang et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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  75. Crystal structure of η6-p-cymene-iodido-(N-isopropyl-1-(pyridin-2-yl)methanimine-κ2N,N′)ruthenium(II) hexafluorophosphate(V), C19H26IN2F6Ru
  76. Crystal structure of 6-iodo-3-phenyl-2-propylquinazolin-4(3H)-one, C17H15IN2O
  77. Low temperature redetermination of the crystal structure of catena-poly[[tri-4-fluorobenzyltin(IV)]μ2-pyridine-4-carboxylato-κ2N:O], {C27H22F3NO2Sn}n
  78. Crystal structure of bis(2-propyl-1H-benzo[d]imidazol-3-ium) tetrachloridozincate(II), C10H13Cl4N2Zn
  79. The crystal structure of (Z)-3-hydrazono-5-nitroindolin-2-one – dimethyl sulfoxide (1/1), C8H6N4O3
  80. Crystal structure of bis-[N-(1-pyrazin-2-yl-ethylidene)-cyanoacetic acid-hydrazonato-κ3O,N,N′)]-zinc(II), C18H16N10O2Zn
  81. Crystal structure and photochromism of 1-(2,5-dimethyl-3-thienyl)-2-[2-methyl-5-(benzaldoxime)-3-thienyl] perfluorocyclopentene, C23H17F6NOS2
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