#------------------------------------------------------------------------------ #$Date: 2013-08-29 18:37:19 +0300 (Thu, 29 Aug 2013) $ #$Revision: 88064 $ #$URL: file:///home/coder/svn-repositories/cod/cif/2/01/44/2014409.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_2014409 loop_ _publ_author_name 'Madhukar Hemamalini' 'Packianathan Thomas Muthiah' 'Daniel E. Lynch' _publ_section_title ; Hydrogen-bonding patterns in trimethoprim picolinate and 2-amino-4,6-dimethylpyrimidinium picolinate hemihydrate ; _journal_coeditor_code SQ1233 _journal_issue 2 _journal_name_full 'Acta Crystallographica Section C' _journal_page_first o107 _journal_page_last o110 _journal_volume 62 _journal_year 2006 _chemical_formula_iupac 'C6 H10 N3 + , C6 H4 N O2 - , 0.5H2 O' _chemical_formula_moiety 'C6 H10 N3 + , C6 H4 N O2 - , 0.5H2 O' _chemical_formula_structural 'C6 H10 N3 + , C6 H4 N O2 - , 0.5H2 O' _chemical_formula_sum 'C12 H15 N4 O2.5' _chemical_formula_weight 255.28 _chemical_name_common ; 2-amino-4,6-dimethylpyrimidinium picolinate hemihydrate ; _chemical_name_systematic ; 2-amino-4,6-dimethylpyrimidin-1-ium pyridine-2-carboxylate hemihydrate ; _space_group_IT_number 15 _symmetry_cell_setting monoclinic _symmetry_space_group_name_Hall '-C 2yc' _symmetry_space_group_name_H-M 'C 1 2/c 1' _atom_sites_solution_hydrogens geom _atom_sites_solution_primary direct _atom_sites_solution_secondary difmap _cell_angle_alpha 90 _cell_angle_beta 102.7400(10) _cell_angle_gamma 90 _cell_formula_units_Z 8 _cell_length_a 15.7666(4) _cell_length_b 8.79800(10) _cell_length_c 18.5038(4) _cell_measurement_reflns_used 2204 _cell_measurement_temperature 120 _cell_measurement_theta_max 25.99 _cell_measurement_theta_min 3.30 _cell_volume 2503.56(9) _computing_cell_refinement 'DENZO and COLLECT' _computing_data_collection 'DENZO (Otwinowski & Minor, 1997) and COLLECT (Nonius, 1998)' _computing_data_reduction 'DENZO and COLLECT' _computing_molecular_graphics 'PLATON (Spek, 2003)' _computing_publication_material PLATON _computing_structure_refinement 'SHELXL97 (Sheldrick, 1997)' _computing_structure_solution 'SHELXS97 (Sheldrick, 1997)' _diffrn_ambient_temperature 120 _diffrn_measured_fraction_theta_full 0.996 _diffrn_measured_fraction_theta_max 0.996 _diffrn_measurement_device_type 'Nonius KappaCCD area-detector' _diffrn_measurement_method '\f and \w' _diffrn_radiation_monochromator graphite _diffrn_radiation_source 'Bruker Nonius FR591 rotating anode' _diffrn_radiation_type MoK\a _diffrn_radiation_wavelength 0.71073 _diffrn_reflns_av_R_equivalents 0.0263 _diffrn_reflns_av_sigmaI/netI 0.0182 _diffrn_reflns_limit_h_max 19 _diffrn_reflns_limit_h_min -19 _diffrn_reflns_limit_k_max 10 _diffrn_reflns_limit_k_min -10 _diffrn_reflns_limit_l_max 22 _diffrn_reflns_limit_l_min -22 _diffrn_reflns_number 16549 _diffrn_reflns_reduction_process ' ?' _diffrn_reflns_theta_full 25.99 _diffrn_reflns_theta_max 25.99 _diffrn_reflns_theta_min 3.30 _diffrn_standards_decay_% 0 _diffrn_standards_number 0 _exptl_absorpt_coefficient_mu 0.098 _exptl_absorpt_correction_type none _exptl_crystal_colour colourless _exptl_crystal_density_diffrn 1.355 _exptl_crystal_density_method 'not measured' _exptl_crystal_description block _exptl_crystal_F_000 1080 _exptl_crystal_size_max 0.4 _exptl_crystal_size_mid 0.2 _exptl_crystal_size_min 0.1 _refine_diff_density_max 0.778 _refine_diff_density_min -0.822 _refine_ls_extinction_coef 0.060(4) _refine_ls_extinction_expression Fc^*^=kFc[1+0.001Fc^2^\l^3^/sin(2\q)]^-1/4^ _refine_ls_extinction_method 'SHELXL97 (Sheldrick, 1997)' _refine_ls_goodness_of_fit_ref 1.255 _refine_ls_hydrogen_treatment constr _refine_ls_matrix_type full _refine_ls_number_parameters 171 _refine_ls_number_reflns 2451 _refine_ls_number_restraints 0 _refine_ls_restrained_S_all 1.255 _refine_ls_R_factor_all 0.0641 _refine_ls_R_factor_gt 0.0601 _refine_ls_shift/su_max 0.000 _refine_ls_shift/su_mean 0.000 _refine_ls_structure_factor_coef Fsqd _refine_ls_weighting_details 'calc w = 1/[\s^2^(Fo^2^)+(0.0834P)^2^+1.0121P] where P=(Fo^2^+2Fc^2^)/3' _refine_ls_weighting_scheme calc _refine_ls_wR_factor_gt 0.1382 _refine_ls_wR_factor_ref 0.1430 _reflns_number_gt 2204 _reflns_number_total 2451 _reflns_threshold_expression I>2\s(I) _[local]_cod_data_source_file sq1233.cif _[local]_cod_data_source_block II _[local]_cod_cif_authors_sg_H-M 'C 2/c' _[local]_cod_chemical_formula_sum_orig 'C12 H15 N4 O2.50' _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 ; _cod_original_cell_volume 2503.55(9) _cod_database_code 2014409 loop_ _symmetry_equiv_pos_as_xyz x,y,z -x,y,1/2-z -x,-y,-z x,-y,1/2+z 1/2+x,1/2+y,z 1/2-x,1/2+y,1/2-z 1/2-x,1/2-y,-z 1/2+x,1/2-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 N1 0.0181(6) 0.0184(6) 0.0161(6) 0.0009(4) 0.0048(5) -0.0014(4) N2 0.0178(6) 0.0228(6) 0.0180(6) -0.0007(4) 0.0043(5) -0.0047(4) N3 0.0214(6) 0.0192(6) 0.0173(6) 0.0005(5) 0.0065(5) -0.0002(4) C2 0.0217(7) 0.0156(7) 0.0146(7) 0.0000(5) 0.0049(5) 0.0029(5) C4 0.0235(7) 0.0180(7) 0.0197(7) 0.0010(5) 0.0091(6) 0.0043(5) C5 0.0181(7) 0.0219(7) 0.0231(7) 0.0004(5) 0.0060(6) 0.0026(6) C6 0.0196(7) 0.0187(7) 0.0182(7) -0.0004(5) 0.0038(5) 0.0046(5) C7 0.0260(7) 0.0266(8) 0.0257(8) 0.0018(6) 0.0121(6) -0.0033(6) C8 0.0217(7) 0.0241(8) 0.0228(7) -0.0015(6) 0.0024(6) -0.0014(6) O1 0.0182(5) 0.0321(6) 0.0247(6) 0.0019(4) 0.0040(4) -0.0080(4) O2 0.0205(5) 0.0359(6) 0.0224(6) -0.0001(4) 0.0038(4) -0.0115(4) N4 0.0223(6) 0.0184(6) 0.0180(6) 0.0009(5) 0.0065(5) -0.0003(4) C9 0.0208(7) 0.0169(7) 0.0148(7) 0.0020(5) 0.0031(5) 0.0012(5) C10 0.0228(7) 0.0239(7) 0.0201(7) 0.0002(6) 0.0018(6) -0.0016(5) C11 0.0358(9) 0.0229(8) 0.0179(7) -0.0016(6) 0.0027(6) -0.0044(5) C12 0.0399(9) 0.0212(7) 0.0199(8) 0.0010(6) 0.0139(6) -0.0017(6) C13 0.0269(8) 0.0205(7) 0.0237(7) 0.0004(6) 0.0119(6) 0.0013(5) C14 0.0196(7) 0.0174(7) 0.0176(7) 0.0009(5) 0.0036(5) 0.0005(5) O1W 0.0824(16) 0.0339(10) 0.0387(11) 0.0000 -0.0120(10) 0.0000 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_type_symbol N1 -0.00471(7) 0.71894(12) 0.48590(6) 0.0174(3) Uani . . 1.000 N N2 0.13114(7) 0.79667(13) 0.54980(6) 0.0195(3) Uani . . 1.000 N N3 0.01063(8) 0.89924(13) 0.58351(6) 0.0190(3) Uani . . 1.000 N C2 0.04584(9) 0.80507(14) 0.54005(7) 0.0172(4) Uani . . 1.000 C C4 -0.07541(9) 0.90978(15) 0.56940(8) 0.0197(4) Uani . . 1.000 C C5 -0.13012(9) 0.82756(16) 0.51217(8) 0.0208(4) Uani . . 1.000 C C6 -0.09286(9) 0.72949(15) 0.47096(8) 0.0189(4) Uani . . 1.000 C C7 -0.11364(10) 1.01425(18) 0.61770(8) 0.0251(4) Uani . . 1.000 C C8 -0.14136(9) 0.63004(17) 0.41025(8) 0.0233(4) Uani . . 1.000 C O1 0.06155(6) 0.55173(12) 0.39158(6) 0.0251(3) Uani . . 1.000 O O2 0.19643(7) 0.59392(13) 0.45783(6) 0.0264(3) Uani . . 1.000 O N4 0.26418(7) 0.48590(13) 0.34444(6) 0.0192(3) Uani . . 1.000 N C9 0.17995(9) 0.46233(15) 0.34366(7) 0.0176(4) Uani . . 1.000 C C10 0.12663(10) 0.37113(17) 0.29108(8) 0.0227(4) Uani . . 1.000 C C11 0.16146(11) 0.30355(17) 0.23621(8) 0.0260(5) Uani . . 1.000 C C12 0.24774(11) 0.32921(16) 0.23601(8) 0.0259(5) Uani . . 1.000 C C13 0.29686(10) 0.41996(16) 0.29116(8) 0.0227(4) Uani . . 1.000 C C14 0.14375(9) 0.54243(15) 0.40325(8) 0.0183(4) Uani . . 1.000 C O1W 0.00000 0.7153(2) 0.25000 0.0556(7) Uani . . 1.000 O H1 0.02020 0.65550 0.46020 0.0210 Uiso . R 1.000 H H2A 0.16470 0.85190 0.58430 0.0230 Uiso . R 1.000 H H2B 0.15450 0.73580 0.52180 0.0230 Uiso . R 1.000 H H5 -0.19140 0.84000 0.50250 0.0250 Uiso . R 1.000 H H7A -0.13480 0.95450 0.65480 0.0300 Uiso . R 1.000 H H7B -0.16210 1.07090 0.58720 0.0300 Uiso . R 1.000 H H7C -0.06900 1.08570 0.64270 0.0300 Uiso . R 1.000 H H8A -0.11540 0.63850 0.36690 0.0280 Uiso . R 1.000 H H8B -0.20230 0.66210 0.39680 0.0280 Uiso . R 1.000 H H8C -0.13820 0.52430 0.42720 0.0280 Uiso . R 1.000 H H10 0.06750 0.35530 0.29270 0.0270 Uiso . R 1.000 H H11 0.12650 0.24090 0.19960 0.0310 Uiso . R 1.000 H H12 0.27310 0.28560 0.19880 0.0310 Uiso . R 1.000 H H13 0.35640 0.43610 0.29110 0.0270 Uiso . R 1.000 H H1W 0.01610 0.64410 0.29200 0.0670 Uiso . R 1.000 H loop_ _geom_bond_atom_site_label_1 _geom_bond_atom_site_label_2 _geom_bond_site_symmetry_1 _geom_bond_site_symmetry_2 _geom_bond_distance _geom_bond_publ_flag O1 C14 . . 1.2687(18) yes O2 C14 . . 1.2430(18) yes O1W H1W . . 0.9868 no O1W H1W . 2_555 0.9868 no N1 C2 . . 1.3642(17) yes N1 C6 . . 1.3591(18) yes N2 C2 . . 1.3190(18) yes N3 C4 . . 1.3270(19) yes N3 C2 . . 1.3558(18) yes N1 H1 . . 0.8799 no N2 H2A . . 0.8801 no N2 H2B . . 0.8804 no N4 C13 . . 1.3409(19) yes N4 C9 . . 1.3410(18) yes C4 C5 . . 1.409(2) no C4 C7 . . 1.498(2) no C5 C6 . . 1.367(2) no C6 C8 . . 1.494(2) no C5 H5 . . 0.9493 no C7 H7C . . 0.9803 no C7 H7A . . 0.9798 no C7 H7B . . 0.9801 no C8 H8A . . 0.9805 no C8 H8C . . 0.9795 no C8 H8B . . 0.9794 no C9 C14 . . 1.5218(19) no C9 C10 . . 1.392(2) no C10 C11 . . 1.390(2) no C11 C12 . . 1.380(2) no C12 C13 . . 1.389(2) no C10 H10 . . 0.9496 no C11 H11 . . 0.9497 no C12 H12 . . 0.9500 no C13 H13 . . 0.9497 no loop_ _atom_type_symbol _atom_type_description _atom_type_scat_dispersion_real _atom_type_scat_dispersion_imag _atom_type_scat_source 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' H H 0.0000 0.0000 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' C C 0.0033 0.0016 '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_site_symmetry_3 _geom_angle _geom_angle_publ_flag H1W O1W H1W 2_555 101.19 no C2 N1 C6 . 121.13(12) yes C2 N3 C4 . 117.42(12) yes C2 N1 H1 . 119.42 no C6 N1 H1 . 119.45 no H2A N2 H2B . 120.01 no C2 N2 H2A . 120.00 no C2 N2 H2B . 119.99 no C9 N4 C13 . 117.73(12) yes N1 C2 N2 . 118.83(12) yes N1 C2 N3 . 121.72(13) yes N2 C2 N3 . 119.45(12) yes C5 C4 C7 . 120.20(13) no N3 C4 C7 . 116.99(12) yes N3 C4 C5 . 122.80(13) yes C4 C5 C6 . 118.43(13) no C5 C6 C8 . 125.26(13) no N1 C6 C8 . 116.34(12) yes N1 C6 C5 . 118.40(13) yes C6 C5 H5 . 120.82 no C4 C5 H5 . 120.75 no C4 C7 H7B . 109.49 no H7A C7 H7B . 109.49 no H7A C7 H7C . 109.48 no C4 C7 H7C . 109.48 no C4 C7 H7A . 109.44 no H7B C7 H7C . 109.45 no C6 C8 H8B . 109.46 no C6 C8 H8C . 109.51 no H8A C8 H8C . 109.46 no H8B C8 H8C . 109.43 no C6 C8 H8A . 109.50 no H8A C8 H8B . 109.47 no N4 C9 C14 . 116.70(12) yes C10 C9 C14 . 120.55(13) no N4 C9 C10 . 122.74(13) yes C9 C10 C11 . 118.84(15) no C10 C11 C12 . 118.72(14) no C11 C12 C13 . 118.84(14) no N4 C13 C12 . 123.12(15) yes O1 C14 O2 . 126.11(14) yes O2 C14 C9 . 117.86(13) yes O1 C14 C9 . 116.03(12) yes C9 C10 H10 . 120.56 no C11 C10 H10 . 120.60 no C12 C11 H11 . 120.70 no C10 C11 H11 . 120.58 no C11 C12 H12 . 120.57 no C13 C12 H12 . 120.59 no N4 C13 H13 . 118.45 no C12 C13 H13 . 118.43 no loop_ _geom_contact_atom_site_label_1 _geom_contact_atom_site_label_2 _geom_contact_distance _geom_contact_site_symmetry_2 _geom_contact_publ_flag O1 O1W 2.9588(14) . no O1 N1 2.6657(15) . no O1 C8 3.3640(18) . no O1 O1W 2.9588(14) . no O1W O1 2.9588(14) . no O1W O1 2.9588(14) 2_555 no O2 N2 2.8125(16) . no O2 N2 2.9166(16) 7_566 no O2 N4 2.7267(16) . no O2 C8 3.3955(18) 3_566 no O1 H10 2.5335 . no O1 H8A 2.8307 . no O1 H1W 1.9967 . no O1 H1 1.7989 . no O1W H7C 2.6904 4_574 no O1W H7C 2.6904 3_576 no O2 H8C 2.7041 3_566 no O2 H1 2.8407 . no O2 H2B 1.9343 . no O2 H7B 2.8968 5_545 no O2 H2B 2.7422 7_566 no O2 H5 2.8560 5_545 no O2 H2A 2.5262 7_566 no N1 O1 2.6657(15) . no N1 C14 3.4363(18) . no N2 N4 2.9645(16) 7_566 no N2 O2 2.8125(16) . no N2 C4 3.3841(18) 3_576 no N2 O2 2.9166(16) 7_566 no N3 C2 3.4482(17) 3_576 no N4 O2 2.7267(16) . no N4 C12 3.3543(18) 6_555 no N4 N2 2.9645(16) 7_566 no N2 H8C 2.8543 3_566 no N2 H11 2.8084 4_565 no N2 H7B 2.9271 3_576 no N3 H11 2.7823 4_565 no N4 H12 2.7804 6_555 no N4 H2A 2.0929 7_566 no C2 C4 3.3210(19) 3_576 no C2 N3 3.4482(17) 3_576 no C4 C2 3.3210(19) 3_576 no C4 N2 3.3841(18) 3_576 no C6 C14 3.551(2) 3_566 no C8 C13 3.371(2) 5_455 no C8 O1 3.3640(18) . no C8 O2 3.3955(18) 3_566 no C11 C13 3.496(2) 6_545 no C12 N4 3.3543(18) 6_545 no C13 C8 3.371(2) 5_545 no C13 C11 3.496(2) 6_555 no C14 C6 3.551(2) 3_566 no C14 N1 3.4363(18) . no C2 H11 2.9734 4_565 no C9 H2A 3.0012 7_566 no C9 H1W 3.0093 . no C9 H12 3.0840 6_555 no C10 H7A 3.0282 3_566 no C10 H1W 2.9695 . no C13 H8B 2.9928 5_545 no C13 H8A 3.0257 5_545 no C13 H11 3.0612 6_555 no C13 H2A 3.0151 7_566 no C14 H2B 2.7516 . no C14 H1 2.6077 . no C14 H1W 2.6946 . no H1 C14 2.6077 . no H1 O1 1.7989 . no H1 H2B 2.2842 . no H1 O2 2.8407 . no H1 H8A 2.4384 . no H1W C14 2.6946 . no H1W C10 2.9695 . no H1W C9 3.0093 . no H1W O1 1.9967 . no H2A O2 2.5262 7_566 no H2A C13 3.0151 7_566 no H2A H11 2.4795 4_565 no H2A C9 3.0012 7_566 no H2A N4 2.0929 7_566 no H2B H8C 2.5100 3_566 no H2B O2 2.7422 7_566 no H2B H1 2.2842 . no H2B C14 2.7516 . no H2B O2 1.9343 . no H5 H8B 2.4812 . no H5 O2 2.8560 5_455 no H5 H7B 2.5450 . no H5 H5 2.4198 7_466 no H7A C10 3.0282 3_566 no H7B N2 2.9271 3_576 no H7B O2 2.8968 5_455 no H7B H5 2.5450 . no H7C O1W 2.6904 4_575 no H7C O1W 2.6904 3_576 no H8A H1 2.4384 . no H8A O1 2.8307 . no H8A C13 3.0257 5_455 no H8B H5 2.4812 . no H8B C13 2.9928 5_455 no H8C H2B 2.5100 3_566 no H8C N2 2.8543 3_566 no H8C O2 2.7040 3_566 no H10 O1 2.5335 . no H10 H10 2.3546 2_555 no H11 N3 2.7823 4_564 no H11 C2 2.9734 4_564 no H11 H2A 2.4795 4_564 no H11 C13 3.0612 6_545 no H11 N2 2.8084 4_564 no H12 N4 2.7804 6_545 no H12 C9 3.0840 6_545 no 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 N1 H1 O1 . 0.88 1.80 2.6657(15) 168 yes O1W H1W O1 . 0.99 2.00 2.9588(14) 164 yes N2 H2A O2 7_566 0.88 2.53 2.9166(16) 108 yes N2 H2A N4 7_566 0.88 2.09 2.9645(16) 170 yes N2 H2B O2 . 0.88 1.93 2.8125(16) 175 yes 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 C6 N1 C2 N2 -176.44(12) no C6 N1 C2 N3 3.15(19) no C2 N1 C6 C5 -0.75(19) no C2 N1 C6 C8 179.76(12) no C4 N3 C2 N1 -2.83(18) no C4 N3 C2 N2 176.76(12) no C2 N3 C4 C5 0.3(2) no C2 N3 C4 C7 -179.95(13) no C9 N4 C13 C12 -0.1(2) no C13 N4 C9 C10 1.1(2) no C13 N4 C9 C14 -178.13(12) no N3 C4 C5 C6 2.0(2) no C7 C4 C5 C6 -177.79(13) no C4 C5 C6 C8 177.75(13) no C4 C5 C6 N1 -1.7(2) no N4 C9 C10 C11 -1.2(2) no C14 C9 C10 C11 178.09(13) no N4 C9 C14 O2 -16.38(18) no C10 C9 C14 O1 -16.52(19) no C10 C9 C14 O2 164.34(13) no N4 C9 C14 O1 162.77(12) no C9 C10 C11 C12 0.1(2) no C10 C11 C12 C13 0.8(2) no C11 C12 C13 N4 -0.9(2) no _cod_database_fobs_code 2014409