#------------------------------------------------------------------------------ #$Date: 2011-09-10 06:16:28 +0300 (Sat, 10 Sep 2011) $ #$Revision: 25271 $ #$URL: file:///home/coder/svn-repositories/cod/cif/2/2003648.cif $ #------------------------------------------------------------------------------ # # This file is available in the Crystallography Open Database (COD), # http://www.crystallography.net/. The original data for this entry # were provided by IUCr Journals, http://journals.iucr.org/. # # The file may be used within the scientific community so long as # proper attribution is given to the journal article from which the # data were obtained. # data_2003648 loop_ _publ_author_name 'Burkhart, B. M.' 'Papchikhin, A.' 'Chattopadhyaya, J.' 'Sundaralingam, M.' _publ_section_title ; 2',3'-Dideoxy-3'-C,2'-N-[(3R,5R)-5-ethoxycarbonyl-2-methyl-1,2-isoxazolidine]ribothymidine ; _journal_issue 7 _journal_name_full 'Acta Crystallographica Section C' _journal_page_first 1462 _journal_page_last 1464 _journal_volume 51 _journal_year 1995 _chemical_formula_moiety 'C15 H21 N3 O7' _chemical_formula_sum 'C15 H21 N3 O7' _chemical_formula_weight 355.35 _chemical_name_systematic ; 2',3'-dideoxy-3'-C-2'-N-[N(R)-methyl-5-(R)-ethoxycarbonyl-1,2-isoxazolidine] ribothymidine ; _space_group_IT_number 4 _symmetry_cell_setting monoclinic _symmetry_space_group_name_Hall 'P 2yb' _symmetry_space_group_name_H-M 'P 1 21 1' _audit_creation_method SHELXL93 _cell_angle_alpha 90.00 _cell_angle_beta 93.43(2) _cell_angle_gamma 90.00 _cell_formula_units_Z 2 _cell_length_a 5.5020(10) _cell_length_b 15.3840(10) _cell_length_c 9.918(2) _cell_measurement_reflns_used 25 _cell_measurement_temperature 295(2) _cell_measurement_theta_max 30 _cell_measurement_theta_min 22 _cell_volume 838.0(2) _computing_cell_refinement 'MSC/AFC Diffractometer Control Software' _computing_data_collection ; MSC/AFC Diffractometer Control Software (Molecular Structure Corporation, 1988) ; _computing_data_reduction 'MSC/AFC Diffractometer Control Software' _computing_structure_refinement 'SHELXL93 (Sheldrick, 1993)' _computing_structure_solution 'SHELXS86 (Sheldrick, 1990)' _diffrn_ambient_temperature 295(2) _diffrn_measurement_device 'Rigaku AFC5S four-circle' _diffrn_measurement_method \w/2\q _diffrn_radiation_monochromator graphite _diffrn_radiation_source 'fine-focus sealed tube' _diffrn_radiation_type MoK\a _diffrn_radiation_wavelength 0.71070 _diffrn_reflns_av_R_equivalents 0.0000 _diffrn_reflns_av_sigmaI/netI 0.0589 _diffrn_reflns_limit_h_max 7 _diffrn_reflns_limit_h_min 0 _diffrn_reflns_limit_k_max 20 _diffrn_reflns_limit_k_min 0 _diffrn_reflns_limit_l_max 12 _diffrn_reflns_limit_l_min -12 _diffrn_reflns_number 2010 _diffrn_reflns_theta_max 27.56 _diffrn_reflns_theta_min 2.06 _diffrn_standards_decay_% 4.5 _diffrn_standards_interval_count 50 _diffrn_standards_number 6 _exptl_absorpt_coefficient_mu 0.113 _exptl_absorpt_correction_type none _exptl_crystal_colour colorless _exptl_crystal_density_diffrn 1.408 _exptl_crystal_description trapezoid _exptl_crystal_F_000 376 _exptl_crystal_size_max 0.50 _exptl_crystal_size_mid 0.38 _exptl_crystal_size_min 0.27 _refine_diff_density_max 0.165 _refine_diff_density_min -0.144 _refine_ls_abs_structure_details 'Flack (1983)' _refine_ls_abs_structure_Flack -0.7(16) _refine_ls_extinction_coef 0.004(3) _refine_ls_extinction_method 'SHELXL93 (Sheldrick, 1993)' _refine_ls_goodness_of_fit_all 1.050 _refine_ls_goodness_of_fit_obs 1.091 _refine_ls_matrix_type full _refine_ls_number_parameters 291 _refine_ls_number_reflns 2003 _refine_ls_number_restraints 8 _refine_ls_restrained_S_all 1.408 _refine_ls_restrained_S_obs 1.089 _refine_ls_R_factor_all 0.0762 _refine_ls_R_factor_obs 0.0369 _refine_ls_shift/esd_max 0.000 _refine_ls_shift/esd_mean 0.000 _refine_ls_structure_factor_coef Fsqd _refine_ls_weighting_scheme ; calc w = 1/[\s^2^(F~o~^2^) + (0.0279P)^2^ + 0.1537P] where P = (F~o~^2^ + 2F~c~^2^)/3 ; _refine_ls_wR_factor_all 0.1311 _refine_ls_wR_factor_obs 0.0834 _reflns_number_observed 1447 _reflns_number_total 2010 _reflns_observed_criterion >2sigma(I) _[local]_cod_data_source_file cr1159.cif _[local]_cod_data_source_block nt _[local]_cod_cif_authors_sg_H-M P21 _cod_database_code 2003648 loop_ _symmetry_equiv_pos_as_xyz 'x, y, z' '-x, y+1/2, -z' loop_ _atom_site_aniso_label _atom_site_aniso_U_11 _atom_site_aniso_U_22 _atom_site_aniso_U_33 _atom_site_aniso_U_12 _atom_site_aniso_U_13 _atom_site_aniso_U_23 C1' 0.0284(15) 0.043(2) 0.0197(14) 0.0017(14) 0.0011(11) -0.0017(13) C2' 0.0290(15) 0.041(2) 0.0259(14) 0.0028(14) -0.0004(12) -0.0007(13) C3' 0.0268(14) 0.041(2) 0.0259(14) 0.0047(13) -0.0050(11) -0.0028(13) C4' 0.034(2) 0.048(2) 0.0249(14) 0.000(2) -0.0001(12) 0.0066(15) O4' 0.0324(11) 0.0487(15) 0.0308(10) -0.0089(11) -0.0030(8) 0.0059(11) C5' 0.046(2) 0.041(2) 0.048(2) 0.006(2) -0.004(2) 0.006(2) O5' 0.0311(13) 0.072(2) 0.058(2) 0.0105(14) 0.0019(11) -0.0034(14) C2" 0.073(3) 0.040(2) 0.066(3) -0.008(2) -0.018(2) -0.002(2) N2" 0.047(2) 0.039(2) 0.0342(15) 0.0036(14) -0.0047(12) -0.0014(13) O3" 0.057(2) 0.055(2) 0.0325(12) 0.0256(14) -0.0072(11) -0.0050(12) C3" 0.043(2) 0.051(2) 0.027(2) 0.012(2) -0.0056(13) -0.0014(15) C4" 0.063(2) 0.056(2) 0.031(2) 0.014(2) -0.011(2) -0.006(2) O4"A 0.115(3) 0.075(4) 0.054(2) 0.045(3) -0.055(2) -0.020(2) O5"A 0.103(3) 0.061(2) 0.032(2) 0.021(2) -0.015(2) -0.014(2) C5"A 0.099(5) 0.057(4) 0.036(3) -0.012(3) -0.002(3) -0.012(2) C6"A 0.083(4) 0.077(4) 0.045(3) -0.001(3) 0.007(3) -0.007(3) N1 0.0296(13) 0.040(2) 0.0256(13) 0.0010(12) -0.0001(10) -0.0028(11) C2 0.032(2) 0.045(2) 0.0257(15) -0.0001(15) 0.0019(12) 0.0023(13) O2 0.0413(14) 0.067(2) 0.0346(12) 0.0170(13) -0.0026(10) -0.0019(12) N3 0.0371(14) 0.057(2) 0.0274(13) 0.0025(15) -0.0064(11) -0.0010(14) C4 0.041(2) 0.042(2) 0.028(2) -0.011(2) 0.0081(13) -0.0023(15) O4 0.064(2) 0.075(2) 0.0261(11) -0.004(2) 0.0037(10) -0.0103(13) C5 0.036(2) 0.043(2) 0.034(2) -0.003(2) 0.0089(13) -0.0039(15) C5M 0.049(2) 0.059(3) 0.047(2) 0.004(2) 0.012(2) -0.014(2) C6 0.029(2) 0.041(2) 0.0308(14) 0.0017(15) 0.0025(12) -0.0007(15) loop_ _atom_site_label _atom_site_fract_x _atom_site_fract_y _atom_site_fract_z _atom_site_U_iso_or_equiv _atom_site_thermal_displace_type _atom_site_calc_flag _atom_site_refinement_flags _atom_site_occupancy _atom_site_disorder_group _atom_site_type_symbol C1' 0.0701(5) 0.8156(2) 0.7464(3) 0.0303(7) Uani d . 1 . C H1' 0.214(5) 0.7828(12) 0.7238(9) 0.033(9) Uiso calc R 1 . H C2' -0.1569(6) 0.7657(2) 0.6944(3) 0.0321(7) Uani d . 1 . C H2' -0.295(5) 0.7758(4) 0.751(2) 0.034(9) Uiso calc R 1 . H C3' -0.2028(6) 0.8039(2) 0.5513(3) 0.0314(7) Uani d . 1 . C H3' -0.372(6) 0.8020(2) 0.5224(10) 0.030(8) Uiso calc R 1 . H C4' -0.1088(6) 0.8963(2) 0.5606(3) 0.0355(7) Uani d . 1 . C H4' -0.030(3) 0.9094(6) 0.482(3) 0.036(9) Uiso calc R 1 . H O4' 0.0693(4) 0.8969(2) 0.6760(2) 0.0375(6) Uani d . 1 . O C5' -0.2996(7) 0.9640(3) 0.5808(4) 0.0454(9) Uani d . 1 . C H5'1 -0.222(2) 1.0200(16) 0.5951(5) 0.071(14) Uiso calc R 1 . H H5'2 -0.408(3) 0.9679(3) 0.500(2) 0.052(11) Uiso calc R 1 . H O5' -0.4374(5) 0.9435(2) 0.6936(3) 0.0538(7) Uani d . 1 . O H5' -0.576(9) 0.938(3) 0.6693(18) 0.072(16) Uiso calc R 1 . H C2" -0.3274(9) 0.6231(3) 0.6558(5) 0.0605(12) Uani d . 1 . C H2" -0.2858(12) 0.5641(15) 0.639(3) 0.071(14) Uiso calc R 1 . H H2"2 -0.420(4) 0.6458(13) 0.579(3) 0.055(11) Uiso calc R 1 . H H2"3 -0.422(4) 0.6260(15) 0.733(2) 0.12(2) Uiso calc R 1 . H N2" -0.1052(5) 0.6741(2) 0.6798(3) 0.0402(7) Uani d . 1 . N O3" 0.0313(5) 0.6722(2) 0.5580(2) 0.0485(7) Uani d . 1 . O C3" -0.0533(7) 0.7417(2) 0.4698(3) 0.0405(9) Uani d . 1 . C H3" 0.097(6) 0.7751(13) 0.4406(12) 0.048(11) Uiso calc R 1 . H C4" -0.1931(7) 0.7091(3) 0.3424(3) 0.0504(10) Uani d D 1 . C O4"A -0.3438(10) 0.7521(4) 0.2842(4) 0.084(2) Uani d PD 0.874(8) 1 O O5"A -0.1229(8) 0.6321(3) 0.3015(3) 0.0661(14) Uani d PD 0.874(8) 1 O C5"A -0.2284(12) 0.5992(4) 0.1729(4) 0.064(2) Uani d PD 0.874(8) 1 C H5" -0.396(7) 0.6165(8) 0.1621(6) 0.052(14) Uiso calc PR 0.874(8) 1 H H5"2 -0.2226(12) 0.537(3) 0.1733(4) 0.10(2) Uiso calc PR 0.874(8) 1 H C6"A -0.0975(11) 0.6323(4) 0.0591(5) 0.068(2) Uani d PD 0.874(8) 1 C H6" -0.125(6) 0.6937(6) 0.050(3) 0.14(3) Uiso calc PR 0.874(8) 1 H H6"2 -0.156(6) 0.603(2) -0.0223(8) 0.09(2) Uiso calc PR 0.874(8) 1 H H6"3 0.0736(14) 0.621(3) 0.075(2) 0.11(3) Uiso calc PR 0.874(8) 1 H O4"B -0.4014(19) 0.716(2) 0.308(3) 0.055(8) Uiso d PD 0.126(8) 2 O O5"B -0.024(2) 0.6755(16) 0.2685(16) 0.046(6) Uiso d PD 0.126(8) 2 O C5"B -0.091(5) 0.655(2) 0.1277(16) 0.060(11) Uiso d PD 0.126(8) 2 C H5"3 0.054(5) 0.639(2) 0.0825(16) 0.072 Uiso calc PR 0.126(8) 2 H H5"4 -0.160(5) 0.706(2) 0.0830(16) 0.072 Uiso calc PR 0.126(8) 2 H C6"B -0.267(8) 0.583(3) 0.116(4) 0.078(16) Uiso d PD 0.126(8) 2 C H6"4 -0.20(2) 0.534(7) 0.17(3) 0.117 Uiso calc PR 0.126(8) 2 H H6"5 -0.29(4) 0.568(14) 0.023(5) 0.117 Uiso calc PR 0.126(8) 2 H H6"6 -0.417(19) 0.602(7) 0.15(3) 0.117 Uiso calc PR 0.126(8) 2 H N1 0.0879(5) 0.8341(2) 0.8906(2) 0.0319(6) Uani d . 1 . N C2 0.2818(6) 0.7984(2) 0.9681(3) 0.0340(7) Uani d . 1 . C O2 0.4308(4) 0.7500(2) 0.9237(2) 0.0479(7) Uani d . 1 . O N3 0.2926(5) 0.8240(2) 1.1009(3) 0.0410(7) Uani d . 1 . N H3 0.411(5) 0.8017(10) 1.153(2) 0.042(10) Uiso calc R 1 . H C4 0.1402(6) 0.8806(2) 1.1633(3) 0.0368(8) Uani d . 1 . C O4 0.1812(5) 0.8982(2) 1.2825(2) 0.0550(7) Uani d . 1 . O C5 -0.0610(6) 0.9142(2) 1.0766(3) 0.0375(8) Uani d . 1 . C C5M -0.2368(7) 0.9754(3) 1.1377(4) 0.0514(10) Uani d . 1 . C H5M1 -0.145(2) 1.0273(14) 1.178(2) 0.060(12) Uiso calc R 1 . H H5M2 -0.322(4) 0.9443(9) 1.211(2) 0.066(13) Uiso calc R 1 . H H5M3 -0.361(4) 0.9958(14) 1.0654(17) 0.074(14) Uiso calc R 1 . H C6 -0.0762(6) 0.8892(2) 0.9475(3) 0.0337(7) Uani d . 1 . C H6 -0.217(5) 0.9120(8) 0.888(2) 0.030(8) Uiso calc R 1 . H loop_ _atom_type_symbol _atom_type_description _atom_type_scat_dispersion_real _atom_type_scat_dispersion_imag _atom_type_scat_source C C 0.0033 0.0016 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' H H 0.0000 0.0000 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' O O 0.0106 0.0060 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' N N 0.0061 0.0033 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' loop_ _diffrn_standard_refln_index_h _diffrn_standard_refln_index_k _diffrn_standard_refln_index_l 1 1 -1 0 1 2 1 3 0 2 8 -2 2 4 4 3 3 3 loop_ _geom_angle_atom_site_label_1 _geom_angle_atom_site_label_2 _geom_angle_atom_site_label_3 _geom_angle _geom_angle_publ_flag O4' C1' N1 107.8(2) yes O4' C1' C2' 107.2(2) yes N1 C1' C2' 115.8(2) yes O4' C1' H1' 108.65(15) ? N1 C1' H1' 108.6(2) ? C2' C1' H1' 108.6(2) ? N2" C2' C1' 111.1(3) yes N2" C2' C3' 107.5(3) yes C1' C2' C3' 101.9(3) yes N2" C2' H2' 111.9(2) ? C1' C2' H2' 111.9(2) ? C3' C2' H2' 111.9(2) ? C4' C3' C3" 115.3(3) yes C4' C3' C2' 105.3(2) yes C3" C3' C2' 100.7(2) yes C4' C3' H3' 111.6(2) ? C3" C3' H3' 111.6(2) ? C2' C3' H3' 111.6(2) ? O4' C4' C5' 109.5(3) yes O4' C4' C3' 105.3(2) yes C5' C4' C3' 114.9(3) yes O4' C4' H4' 109.02(15) ? C5' C4' H4' 109.0(2) ? C3' C4' H4' 109.0(2) ? C1' O4' C4' 111.0(2) yes O5' C5' C4' 111.1(3) yes O5' C5' H5'1 109.4(2) ? C4' C5' H5'1 109.4(2) ? O5' C5' H5'2 109.4(2) ? C4' C5' H5'2 109.4(2) ? H5'1 C5' H5'2 108.0 ? C5' O5' H5' 109.5(2) ? N2" C2" H2" 109.5(2) ? N2" C2" H2"2 109.5(2) ? H2" C2" H2"2 109.5 ? N2" C2" H2"3 109.5(2) ? H2" C2" H2"3 109.5 ? H2"2 C2" H2"3 109.5 ? C2' N2" O3" 102.5(3) yes C2' N2" C2" 111.9(3) yes O3" N2" C2" 108.7(3) yes C3" O3" N2" 108.8(2) yes O3" C3" C4" 112.8(3) yes O3" C3" C3' 108.0(2) yes C4" C3" C3' 112.6(3) yes O3" C3" H3" 107.7(2) ? C4" C3" H3" 107.7(2) ? C3' C3" H3" 107.7(2) ? O4"A C4" O5"A 124.2(4) yes O4"B C4" O5"B 125.3(12) yes O4"B C4" C3" 130.1(13) yes O4"A C4" C3" 121.7(4) yes O5"A C4" C3" 114.1(3) yes O5"B C4" C3" 104.4(7) yes C4" O5"A C5"A 118.1(4) yes O5"A C5"A C6"A 111.4(5) yes O5"A C5"A H5" 109.4(3) ? C6"A C5"A H5" 109.4(4) ? O5"A C5"A H5"2 109.4(3) ? C6"A C5"A H5"2 109.4(3) ? H5" C5"A H5"2 108.0 ? C5"A C6"A H6" 109.5(3) ? C5"A C6"A H6"2 109.5(3) ? H6" C6"A H6"2 109.5 ? C5"A C6"A H6"3 109.5(3) ? H6" C6"A H6"3 109.5 ? H6"2 C6"A H6"3 109.5 ? C4" O5"B C5"B 117.9(11) yes O5"B C5"B C6"B 111.7(11) yes O5"B C5"B H5"3 109.3(10) ? C6"B C5"B H5"3 109.(2) ? O5"B C5"B H5"4 109.3(14) ? C6"B C5"B H5"4 109.(2) ? H5"3 C5"B H5"4 107.9 ? C5"B C6"B H6"4 110.(2) ? C5"B C6"B H6"5 109.5(14) ? H6"4 C6"B H6"5 109.5 ? C5"B C6"B H6"6 110.(2) ? H6"4 C6"B H6"6 109.47(6) ? H6"5 C6"B H6"6 109.47(6) ? C6 N1 C2 121.0(2) yes C6 N1 C1' 120.9(3) yes C2 N1 C1' 118.0(3) yes O2 C2 N3 122.3(3) yes O2 C2 N1 123.9(3) yes N3 C2 N1 113.8(3) yes C2 N3 C4 128.2(3) yes C2 N3 H3 115.9(2) ? C4 N3 H3 115.9(2) ? O4 C4 N3 119.5(3) yes O4 C4 C5 125.7(3) yes N3 C4 C5 114.8(3) yes C6 C5 C4 117.8(3) yes C6 C5 C5M 124.2(3) yes C4 C5 C5M 118.0(3) yes C5 C5M H5M1 109.5(2) ? C5 C5M H5M2 109.5(2) ? H5M1 C5M H5M2 109.5 ? C5 C5M H5M3 109.5(2) ? H5M1 C5M H5M3 109.5 ? H5M2 C5M H5M3 109.5 ? C5 C6 N1 124.3(3) yes C5 C6 H6 117.9(2) ? N1 C6 H6 117.9(2) ? loop_ _geom_bond_atom_site_label_1 _geom_bond_atom_site_label_2 _geom_bond_distance _geom_bond_publ_flag C1' O4' 1.432(4) yes C1' N1 1.457(3) yes C1' C2' 1.528(4) yes C1' H1' 0.97(4) ? C2' N2" 1.446(5) yes C2' C3' 1.542(4) yes C2' H2' 0.98(3) ? C3' C4' 1.514(5) yes C3' C3" 1.525(4) yes C3' H3' 0.96(3) ? C4' O4' 1.462(4) yes C4' C5' 1.501(5) yes C4' H4' 0.94(4) ? C5' O5' 1.424(4) yes C5' H5'1 0.97(3) ? C5' H5'2 0.97(3) ? O5' H5' 0.79(5) ? C2" N2" 1.461(5) yes C2" H2" 0.95(2) ? C2" H2"2 0.95(2) ? C2" H2"3 0.95(2) ? N2" O3" 1.460(4) yes O3" C3" 1.442(4) yes C3" C4" 1.524(5) yes C3" H3" 1.03(4) ? C4" O4"B 1.180(10) yes C4" O4"A 1.182(5) yes C4" O5"A 1.319(5) yes C4" O5"B 1.326(10) yes O5"A C5"A 1.459(5) yes C5"A C6"A 1.466(7) yes C5"A H5" 0.96(4) ? C5"A H5"2 0.96(4) ? C6"A H6" 0.96 ? C6"A H6"2 0.96 ? C6"A H6"3 0.96 ? O5"B C5"B 1.459(11) yes C5"B C6"B 1.462(12) yes C5"B H5"3 0.97 ? C5"B H5"4 0.97 ? C6"B H6"4 0.96 ? C6"B H6"5 0.96 ? C6"B H6"6 0.9600(11) ? N1 C6 1.383(4) yes N1 C2 1.390(4) yes C2 O2 1.209(4) yes C2 N3 1.373(4) yes N3 C4 1.381(4) yes N3 H3 0.87(4) ? C4 O4 1.220(4) yes C4 C5 1.456(5) yes C5 C6 1.335(4) yes C5 C5M 1.503(5) yes C5M H5M1 1.01(2) ? C5M H5M2 1.01(2) ? C5M H5M3 1.01(2) ? C6 H6 1.01(3) ? loop_ _geom_torsion_atom_site_label_1 _geom_torsion_atom_site_label_2 _geom_torsion_atom_site_label_3 _geom_torsion_atom_site_label_4 _geom_torsion _geom_torsion_publ_flag C1' C2' C3' C4' -30.3(3) yes C3' C4' O4' C1' -6.7(3) yes O4' C1' C2' C3' 26.6(3) yes C2' C1' N1 C2 117.6(3) yes C2' N2" O3" C3" -31.2(3) yes O3" C3" C3' C2' 7.3(3) yes C3' C3" C4" O5"A -152.5(4) yes C3" C4" O5"A C5"A -173.8(4) yes C4" O5"A C5"A C6"A 84.4(6) yes C2' C3' C4' O4' 23.4(3) yes C4' O4' C1' C2' -13.0(3) yes O4' C1' N1 C6 54.3(3) yes C3' C2' N2" O3" 35.9(3) yes N2" O3" C3" C3' 14.4(3) yes C3" C3' C2' N2" -27.0(3) yes C3' C3" C4" O5"B 165.0(10) yes C3" C4" O5"B C5"B -168(2) yes C4" O5"B C5"B C6"B -67(3) yes