#------------------------------------------------------------------------------ #$Date: 2025-08-19 07:12:48 +0100 (Tue, 19 Aug 2025) $ #$Revision: 301798 $ #$URL: svn://www.crystallography.net/cod/cif/2/01/22/2012248.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_2012248 loop_ _publ_author_name 'Sarkhel, Sanjay' Shefali 'Mathad, Vijayvitthal T.' 'Raj, Kanwal' 'Bhaduri, Amiya P.' 'Maulik, Prakas R.' 'Broder, Charlotte K.' 'Howard, Judith A. K.' _publ_section_title ; Cinnamoyl shikonin ; _journal_issue 10 _journal_name_full 'Acta Crystallographica Section C' _journal_page_first 1199 _journal_page_last 1200 _journal_paper_doi 10.1107/S0108270101011842 _journal_volume 57 _journal_year 2001 _chemical_formula_moiety 'C25 H22 O6' _chemical_formula_sum 'C25 H22 O6' _chemical_formula_weight 418.43 _chemical_melting_point .93E-92 _chemical_name_common 'Cinnamoyl shikonin' _chemical_name_systematic ; 1-(5,8-dihydro-1,4-dihydroxy-5,8-dioxo-2-naphthyl)-4-methylpent-3-en-1-yl cinnamate ; _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' _cell_angle_alpha 90 _cell_angle_beta 90.7630(10) _cell_angle_gamma 90 _cell_formula_units_Z 2 _cell_length_a 6.16770(10) _cell_length_b 15.7416(3) _cell_length_c 10.5141(2) _cell_measurement_reflns_used 510 _cell_measurement_temperature 100(2) _cell_measurement_theta_max 27.35 _cell_measurement_theta_min 4.06 _cell_volume 1020.72(3) _computing_cell_refinement SMART _computing_data_collection 'SMART (Bruker, 1998)' _computing_data_reduction 'SAINT (Bruker, 1998)' _computing_molecular_graphics ; NRCVAX (Gabe et al., 1989), ORTEP (Johnson, 1965) and PLUTO (Motherwell & Clegg, 1978) ; _computing_publication_material SHELXL97 _computing_structure_refinement 'SHELXL97 (Sheldrick, 1997)' _computing_structure_solution 'SHELXS86 (Sheldrick, 1990)' _diffrn_ambient_temperature 100(2) _diffrn_measurement_device_type 'Bruker SMART CCD area-detector' _diffrn_measurement_method '\w scan' _diffrn_radiation_monochromator graphite _diffrn_radiation_source 'fine-focus sealed tube' _diffrn_radiation_type MoK\a _diffrn_radiation_wavelength .71073 _diffrn_reflns_av_R_equivalents .028 _diffrn_reflns_av_sigmaI/netI .036 _diffrn_reflns_limit_h_max 7 _diffrn_reflns_limit_h_min -8 _diffrn_reflns_limit_k_max 20 _diffrn_reflns_limit_k_min -20 _diffrn_reflns_limit_l_max 11 _diffrn_reflns_limit_l_min -13 _diffrn_reflns_number 7463 _diffrn_reflns_theta_full 27.50 _diffrn_reflns_theta_max 27.50 _diffrn_reflns_theta_min 1.94 _diffrn_standards_decay_% 0 _exptl_absorpt_coefficient_mu .097 _exptl_absorpt_correction_T_max 1.000 _exptl_absorpt_correction_T_min .885 _exptl_absorpt_correction_type \y-scan _exptl_absorpt_process_details '(XPREP; Sheldrick, 1994)' _exptl_crystal_colour red _exptl_crystal_density_diffrn 1.361 _exptl_crystal_density_meas ? _exptl_crystal_description block _exptl_crystal_F_000 440 _exptl_crystal_size_max .5 _exptl_crystal_size_mid .1 _exptl_crystal_size_min .1 _refine_diff_density_max .25 _refine_diff_density_min -.25 _refine_ls_extinction_method none _refine_ls_goodness_of_fit_ref 1.093 _refine_ls_hydrogen_treatment mixed _refine_ls_matrix_type full _refine_ls_number_parameters 290 _refine_ls_number_reflns 4357 _refine_ls_number_restraints 1 _refine_ls_restrained_S_all 1.093 _refine_ls_R_factor_all .050 _refine_ls_R_factor_gt .041 _refine_ls_shift/su_max .002 _refine_ls_shift/su_mean .000 _refine_ls_structure_factor_coef Fsqd _refine_ls_weighting_details 'calc w = 1/[\s^2^(Fo^2^)+(0.0219P)^2^+0.7688P] where P=(Fo^2^+2Fc^2^)/3' _refine_ls_weighting_scheme calc _refine_ls_wR_factor_ref .096 _reflns_number_gt 4011 _reflns_number_total 4357 _reflns_threshold_expression I>2\s(I) _cod_data_source_file de1171.cif _cod_data_source_block I _cod_depositor_comments ; The following automatic conversions were performed: '_symmetry_cell_setting' value 'Monoclinic' changed to 'monoclinic' according to '/home/saulius/struct/CIF-dictionaries/cif_core.dic' dictionary named 'cif_core.dic' version 2.4.1 from 2010-06-29. Automatic conversion script Id: cif_fix_enum 1527 2010-12-29 10:47:43Z saulius The following automatic conversions were performed: '_symmetry_cell_setting' value 'Monoclinic' changed to 'monoclinic' according to /home/saulius/struct/CIF-dictionaries/cif_core.dic dictionary named 'cif_core.dic' version 2.4.1 from 2010-06-29. Automatic conversion script Id: cif_fix_values 1715 2011-07-08 13:25:40Z adriana The following automatic conversions were performed: '_exptl_crystal_density_meas' value 'not measured' was changed to '?' - the value is perceived as not measured. Automatic conversion script Id: cif_fix_values 3008 2015-01-20 13:52:24Z robertas ; _cod_original_sg_symbol_H-M 'P 21' _cod_database_code 2012248 _cod_database_fobs_code 2012248 loop_ _symmetry_equiv_pos_as_xyz 'x, y, z' '-x, y+1/2, -z' loop_ _atom_site_label _atom_site_fract_x _atom_site_fract_y _atom_site_fract_z _atom_site_U_iso_or_equiv _atom_site_adp_type _atom_site_calc_flag _atom_site_refinement_flags _atom_site_occupancy _atom_site_disorder_assembly _atom_site_disorder_group _atom_site_type_symbol C1 .6313(4) .08045(14) .4190(2) .0173(4) Uani d . 1 . . C O1 .4586(3) .04035(11) .40111(15) .0225(4) Uani d . 1 . . O C2 .7810(4) .09387(14) .3125(2) .0198(5) Uani d . 1 . . C H2 .7436 .0729 .2324 .024 Uiso calc R 1 . . H C3 .9693(4) .13538(14) .3278(2) .0200(5) Uani d . 1 . . C H3 1.0606 .1411 .2586 .024 Uiso calc R 1 . . H C4 1.0356(3) .17213(14) .4512(2) .0165(4) Uani d . 1 . . C O4 1.2094(3) .21283(10) .46141(15) .0207(3) Uani d . 1 . . O C5 .9503(3) .19095(13) .67999(19) .0146(4) Uani d . 1 . . C O5 1.1341(3) .23606(10) .70031(15) .0184(3) Uani d . 1 . . O H5 1.201(5) .240(2) .629(3) .038(9) Uiso d . 1 . . H C6 .8138(3) .17673(14) .78492(19) .0147(4) Uani d . 1 . . C H6 .8546 .1974 .8645 .018 Uiso calc R 1 . . H C7 .6217(3) .13288(13) .7716(2) .0148(4) Uani d . 1 . . C C8 .5603(3) .10094(13) .6490(2) .0141(4) Uani d . 1 . . C O8 .3717(3) .05787(10) .63994(16) .0190(3) Uani d . 1 . . O H8 .366(5) .038(2) .562(3) .050(10) Uiso d . 1 . . H C9 .6946(3) .11375(13) .5441(2) .0148(4) Uani d . 1 . . C C10 .8928(4) .15915(13) .5599(2) .0139(4) Uani d . 1 . . C C11 .4692(3) .11656(13) .88009(19) .0145(4) Uani d . 1 . . C H11 .3215 .1316 .8532 .017 Uiso calc R 1 . . H O11 .5373(2) .17241(10) .98345(14) .0166(3) Uani d . 1 . . O C12 .4713(4) .02440(14) .9277(2) .0183(4) Uani d . 1 . . C H12A .3679 .0191 .9960 .022 Uiso calc R 1 . . H H12B .4230 -.0124 .8590 .022 Uiso calc R 1 . . H C13 .6898(4) -.00625(15) .9753(2) .0183(4) Uani d . 1 . . C H13 .8110 .0170 .9367 .022 Uiso calc R 1 . . H C14 .7272(4) -.06321(14) 1.0671(2) .0176(4) Uani d . 1 . . C C15 .9552(4) -.08868(17) 1.1043(2) .0264(5) Uani d . 1 . . C H15A .9738 -.1485 1.0902 .040 Uiso calc R 1 . . H H15B .9802 -.0761 1.1926 .040 Uiso calc R 1 . . H H15C 1.0566 -.0576 1.0537 .040 Uiso calc R 1 . . H C16 .5514(4) -.10676(16) 1.1415(2) .0243(5) Uani d . 1 . . C H16A .5406 -.0808 1.2238 .036 Uiso calc R 1 . . H H16B .5865 -.1658 1.1514 .036 Uiso calc R 1 . . H H16C .4155 -.1013 1.0967 .036 Uiso calc R 1 . . H C17 .3800(3) .20142(15) 1.06159(19) .0182(4) Uani d . 1 . . C O17 .1894(3) .18486(13) 1.04712(15) .0268(4) Uani d . 1 . . O C18 .4685(4) .25339(15) 1.1664(2) .0191(4) Uani d . 1 . . C H18 .3771 .2668 1.2331 .023 Uiso calc R 1 . . H C19 .6715(4) .28248(14) 1.1718(2) .0176(4) Uani d . 1 . . C H19 .7571 .2718 1.1014 .021 Uiso calc R 1 . . H C20 .7746(4) .32971(14) 1.2774(2) .0172(4) Uani d . 1 . . C C21 .6812(4) .33297(14) 1.3995(2) .0191(4) Uani d . 1 . . C H21 .5473 .3078 1.4137 .023 Uiso calc R 1 . . H C22 .7910(4) .37412(15) 1.4982(2) .0224(5) Uani d . 1 . . C H22 .7304 .3759 1.5786 .027 Uiso calc R 1 . . H C23 .9904(4) .41266(15) 1.4776(2) .0252(5) Uani d . 1 . . C H23 1.0625 .4398 1.5444 .030 Uiso calc R 1 . . H C24 1.0823(4) .41081(15) 1.3576(2) .0248(5) Uani d . 1 . . C H24 1.2146 .4373 1.3437 .030 Uiso calc R 1 . . H C25 .9745(4) .36890(15) 1.2580(2) .0208(5) Uani d . 1 . . C H25 1.0367 .3671 1.1780 .025 Uiso calc R 1 . . H 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 .0221(11) .0135(10) .0164(10) .0031(9) -.0016(8) .0008(8) O1 .0240(9) .0254(9) .0180(8) -.0034(7) -.0015(7) -.0046(7) C2 .0292(12) .0180(11) .0120(10) .0035(9) .0006(9) .0001(8) C3 .0257(12) .0206(11) .0139(10) .0044(9) .0057(9) .0014(9) C4 .0194(11) .0142(10) .0160(10) .0031(9) .0019(8) .0031(8) O4 .0202(8) .0217(8) .0202(8) -.0016(7) .0039(6) .0024(6) C5 .0150(10) .0114(10) .0174(10) .0004(8) -.0006(8) .0009(8) O5 .0167(8) .0219(8) .0166(7) -.0052(6) .0027(6) -.0011(6) C6 .0171(10) .0146(10) .0122(9) .0008(8) .0002(8) -.0021(8) C7 .0146(10) .0144(10) .0153(10) .0019(8) -.0002(8) .0024(8) C8 .0143(10) .0132(10) .0149(10) .0016(8) -.0012(8) -.0009(8) O8 .0172(8) .0222(8) .0176(8) -.0035(6) -.0011(6) -.0033(6) C9 .0161(10) .0123(9) .0161(10) .0022(8) -.0006(8) -.0012(8) C10 .0173(10) .0137(9) .0108(9) .0011(8) .0023(8) .0013(7) C11 .0137(10) .0184(10) .0115(9) -.0004(8) -.0012(8) -.0002(8) O11 .0146(7) .0217(8) .0134(7) -.0007(6) .0023(6) -.0033(6) C12 .0180(11) .0190(11) .0179(10) -.0033(9) .0008(8) .0032(9) C13 .0164(11) .0226(11) .0161(10) -.0004(9) .0042(8) .0012(9) C14 .0174(11) .0180(11) .0174(10) .0013(9) .0025(8) -.0036(8) C15 .0182(11) .0300(13) .0310(12) .0011(10) -.0001(9) .0119(11) C16 .0213(11) .0255(12) .0262(12) .0007(10) .0030(9) .0089(10) C17 .0181(11) .0239(12) .0129(9) .0019(9) .0032(8) .0035(8) O17 .0160(8) .0456(11) .0189(8) -.0014(8) .0016(6) -.0067(8) C18 .0204(11) .0231(11) .0140(10) .0038(9) .0019(8) -.0010(8) C19 .0225(11) .0185(10) .0119(9) .0017(8) .0036(8) .0000(8) C20 .0209(11) .0138(10) .0168(10) .0028(9) .0008(8) -.0010(9) C21 .0207(11) .0170(10) .0194(11) .0020(9) .0001(8) .0007(9) C22 .0339(13) .0180(11) .0154(10) .0038(10) .0021(9) -.0022(9) C23 .0326(13) .0186(11) .0244(11) .0005(10) -.0055(10) -.0048(10) C24 .0242(12) .0176(11) .0326(12) -.0033(9) -.0014(10) -.0010(10) C25 .0233(11) .0199(11) .0192(10) .0004(9) .0024(9) -.0002(9) loop_ _atom_type_symbol _atom_type_description _atom_type_scat_dispersion_real _atom_type_scat_dispersion_imag _atom_type_scat_source C C .0033 .0016 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' H H .0000 .0000 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' O O .0106 .0060 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' loop_ _geom_angle_atom_site_label_1 _geom_angle_atom_site_label_2 _geom_angle_atom_site_label_3 _geom_angle O1 C1 C9 122.1(2) O1 C1 C2 119.9(2) C9 C1 C2 118.0(2) C3 C2 C1 121.9(2) C3 C2 H2 119.1 C1 C2 H2 119.1 C2 C3 C4 121.8(2) C2 C3 H3 119.1 C4 C3 H3 119.1 O4 C4 C10 121.78(19) O4 C4 C3 120.26(19) C10 C4 C3 117.96(19) O5 C5 C10 122.15(18) O5 C5 C6 117.80(18) C10 C5 C6 120.05(18) C5 O5 H5 108(2) C7 C6 C5 121.37(19) C7 C6 H6 119.3 C5 C6 H6 119.3 C6 C7 C8 119.01(19) C6 C7 C11 123.53(18) C8 C7 C11 117.46(18) O8 C8 C9 122.29(18) O8 C8 C7 117.28(18) C9 C8 C7 120.43(19) C8 O8 H8 106(2) C8 C9 C10 119.70(18) C8 C9 C1 120.14(19) C10 C9 C1 120.15(19) C5 C10 C9 119.44(18) C5 C10 C4 120.37(19) C9 C10 C4 120.19(18) O11 C11 C7 106.56(16) O11 C11 C12 109.04(16) C7 C11 C12 113.88(18) O11 C11 H11 109.1 C7 C11 H11 109.1 C12 C11 H11 109.1 C17 O11 C11 116.98(16) C13 C12 C11 114.42(18) C13 C12 H12A 108.7 C11 C12 H12A 108.7 C13 C12 H12B 108.7 C11 C12 H12B 108.7 H12A C12 H12B 107.6 C14 C13 C12 126.8(2) C14 C13 H13 116.6 C12 C13 H13 116.6 C13 C14 C16 124.2(2) C13 C14 C15 121.1(2) C16 C14 C15 114.71(19) C14 C15 H15A 109.5 C14 C15 H15B 109.5 H15A C15 H15B 109.5 C14 C15 H15C 109.5 H15A C15 H15C 109.5 H15B C15 H15C 109.5 C14 C16 H16A 109.5 C14 C16 H16B 109.5 H16A C16 H16B 109.5 C14 C16 H16C 109.5 H16A C16 H16C 109.5 H16B C16 H16C 109.5 O17 C17 O11 123.4(2) O17 C17 C18 124.3(2) O11 C17 C18 112.29(18) C19 C18 C17 124.1(2) C19 C18 H18 117.9 C17 C18 H18 117.9 C18 C19 C20 126.9(2) C18 C19 H19 116.5 C20 C19 H19 116.5 C25 C20 C21 119.2(2) C25 C20 C19 119.09(19) C21 C20 C19 121.7(2) C22 C21 C20 119.6(2) C22 C21 H21 120.2 C20 C21 H21 120.2 C21 C22 C23 120.7(2) C21 C22 H22 119.7 C23 C22 H22 119.7 C22 C23 C24 120.2(2) C22 C23 H23 119.9 C24 C23 H23 119.9 C23 C24 C25 119.6(2) C23 C24 H24 120.2 C25 C24 H24 120.2 C20 C25 C24 120.7(2) C20 C25 H25 119.6 C24 C25 H25 119.6 loop_ _geom_bond_atom_site_label_1 _geom_bond_atom_site_label_2 _geom_bond_site_symmetry_2 _geom_bond_distance _geom_bond_publ_flag C1 O1 . 1.250(3) ? C1 C9 . 1.464(3) ? C1 C2 . 1.476(3) ? C2 C3 . 1.340(3) ? C2 H2 . .9300 ? C3 C4 . 1.474(3) ? C3 H3 . .9300 ? C4 O4 . 1.252(3) ? C4 C10 . 1.467(3) ? C5 O5 . 1.352(3) ? C5 C10 . 1.400(3) ? C5 C6 . 1.414(3) ? O5 H5 . .87(3) ? C6 C7 . 1.377(3) ? C6 H6 . .9300 ? C7 C8 . 1.430(3) ? C7 C11 . 1.510(3) ? C8 O8 . 1.349(3) ? C8 C9 . 1.403(3) ? O8 H8 . .88(4) ? C9 C10 . 1.424(3) ? C11 O11 . 1.455(2) ? C11 C12 . 1.535(3) ? C11 H11 . .9800 ? O11 C17 . 1.358(3) ? C12 C13 . 1.511(3) ? C12 H12A . .9700 ? C12 H12B . .9700 ? C13 C14 . 1.335(3) ? C13 H13 . .9300 ? C14 C16 . 1.510(3) ? C14 C15 . 1.509(3) ? C15 H15A . .9600 ? C15 H15B . .9600 ? C15 H15C . .9600 ? C16 H16A . .9600 ? C16 H16B . .9600 ? C16 H16C . .9600 ? C17 O17 . 1.212(3) ? C17 C18 . 1.472(3) ? C18 C19 . 1.334(3) ? C18 H18 . .9300 ? C19 C20 . 1.474(3) ? C19 H19 . .9300 ? C20 C25 . 1.396(3) ? C20 C21 . 1.415(3) ? C21 C22 . 1.391(3) ? C21 H21 . .9300 ? C22 C23 . 1.391(4) ? C22 H22 . .9300 ? C23 C24 . 1.390(4) ? C23 H23 . .9300 ? C24 C25 . 1.398(3) ? C24 H24 . .9300 ? C25 H25 . .9300 ? loop_ _geom_hbond_atom_site_label_D _geom_hbond_atom_site_label_H _geom_hbond_atom_site_label_A _geom_hbond_site_symmetry_A _geom_hbond_distance_DH _geom_hbond_distance_HA _geom_hbond_distance_DA _geom_hbond_angle_DHA _geom_hbond_publ_flag O5 H5 O4 . .87(3) 1.81(3) 2.587(2) 148(3) y O8 H8 O1 . .88(4) 1.79(3) 2.589(2) 150(3) y C3 H3 O17 1_654 .93 2.469 3.356(3) 160 y C11 H11 O5 1_455 .98 2.564 3.359(3) 138 y C16 H16A O1 1_556 .96 2.719 3.631(3) 159 y C21 H21 O4 1_456 .93 2.619 3.538(3) 170 y 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 O1 C1 C2 C3 -179.0(2) ? C9 C1 C2 C3 -.3(3) yes C1 C2 C3 C4 -1.7(3) yes C2 C3 C4 O4 -177.8(2) ? C2 C3 C4 C10 2.4(3) yes O5 C5 C6 C7 178.7(2) ? C10 C5 C6 C7 -.9(3) yes C5 C6 C7 C8 .3(3) yes C5 C6 C7 C11 -179.47(19) ? C6 C7 C8 O8 179.60(19) ? C11 C7 C8 O8 -.7(3) ? C6 C7 C8 C9 .3(3) yes C11 C7 C8 C9 -179.92(19) ? O8 C8 C9 C10 -179.47(19) ? C7 C8 C9 C10 -.2(3) yes O8 C8 C9 C1 .4(3) ? C7 C8 C9 C1 179.65(19) ? O1 C1 C9 C8 .2(3) ? C2 C1 C9 C8 -178.53(19) ? O1 C1 C9 C10 -179.9(2) ? C2 C1 C9 C10 1.4(3) yes O5 C5 C10 C9 -178.60(19) ? C6 C5 C10 C9 1.0(3) yes O5 C5 C10 C4 1.6(3) ? C6 C5 C10 C4 -178.74(19) ? C8 C9 C10 C5 -.4(3) yes C1 C9 C10 C5 179.7(2) ? C8 C9 C10 C4 179.33(19) ? C1 C9 C10 C4 -.6(3) yes O4 C4 C10 C5 -1.3(3) ? C3 C4 C10 C5 178.50(19) ? O4 C4 C10 C9 178.93(19) ? C3 C4 C10 C9 -1.3(3) yes C6 C7 C11 O11 14.0(3) ? C8 C7 C11 O11 -165.76(17) ? C6 C7 C11 C12 -106.3(2) ? C8 C7 C11 C12 74.0(2) ? C7 C11 O11 C17 148.35(17) yes C12 C11 O11 C17 -88.3(2) ? O11 C11 C12 C13 -59.5(2) ? C7 C11 C12 C13 59.3(2) ? C11 C12 C13 C14 148.8(2) ? C12 C13 C14 C16 -.8(4) ? C12 C13 C14 C15 179.4(2) ? C11 O11 C17 O17 -1.9(3) ? C11 O11 C17 C18 176.89(18) yes O17 C17 C18 C19 -169.2(2) ? O11 C17 C18 C19 12.0(3) yes C17 C18 C19 C20 -175.6(2) yes C18 C19 C20 C25 -168.2(2) ? C18 C19 C20 C21 14.8(3) ? C25 C20 C21 C22 -.8(3) yes C19 C20 C21 C22 176.2(2) ? C20 C21 C22 C23 .6(3) yes C21 C22 C23 C24 .3(4) yes C22 C23 C24 C25 -.9(4) yes C21 C20 C25 C24 .1(3) yes C19 C20 C25 C24 -176.9(2) ? C23 C24 C25 C20 .7(4) yes C6 C7 C11 C12 -106.3(2) ? C7 C11 C12 C13 59.3(2) ? C11 C12 C13 C14 148.8(2) ? C12 C13 C14 C15 179.4(2) ? C12 C13 C14 C16 -.8(4) ? loop_ _cod_related_entry_id _cod_related_entry_database _cod_related_entry_code 1 ChemSpider 30652330 2 PubChem 71519850