diff --git a/tests/SE/sample_cif/Co_complex.cif b/tests/SE/sample_cif/Co_complex.cif new file mode 100644 index 0000000000..856587078b --- /dev/null +++ b/tests/SE/sample_cif/Co_complex.cif @@ -0,0 +1,582 @@ +data_global + +#======================================================================= + +# 1. SUBMISSION DETAILS + +_publ_contact_author_name 'Professor W. Clegg' +_publ_contact_author_address +; +School of Natural Sciences (Chemistry) +University of Newcastle +Newcastle upon Tyne NE1 7RU +England +; +_publ_contact_author_phone '0191 222 6649' +_publ_contact_author_fax '0191 222 6929' +_publ_contact_author_email w.clegg@ncl.ac.uk +_publ_requested_journal 'Acta Crystallographica E' +_publ_requested_category EM +_publ_requested_coeditor_name ? + +_publ_contact_letter +; +#8 February 2007 + +Please consider this CIF submission for publication in Acta +Crystallographica E as a new-style paper. +All required files have been provided. + +The manuscript has passed the checkcif tests and generates an acceptable +printcif output. + +Yours sincerely +Bill Clegg +; + +#======================================================================= + +# 2. PROCESSING SUMMARY (IUCr Office Use Only) + +_journal_date_recd_electronic 2007-02-08 +_journal_date_to_coeditor ? +_journal_date_from_coeditor 2007-02-15 +_journal_date_accepted 2007-02-15 +_journal_date_printers_first 2007-02-15 +_journal_date_printers_final ? +_journal_date_proofs_out 2007-02-19 +_journal_date_proofs_in ? +_journal_coeditor_name ? +_journal_coeditor_code WN2117 +_journal_paper_category QM +_journal_coeditor_notes +; ? +; +_journal_techeditor_code E070780 +_iucr_compatibility_tag ACTA95 +_journal_techeditor_notes +; ? +; +_journal_coden_ASTM ACSEBH +_journal_name_full 'Acta Crystallographica, Section E' +_journal_year 2007 +_journal_volume 63 +_journal_issue 03 +_journal_page_first m856 +_journal_page_last m856 +_journal_suppl_publ_number ? +_journal_suppl_publ_pages ? + +#============================================================================ + +# 3. TITLE AND AUTHOR LIST + +_publ_section_title +; +trans-Bis(aniline-\kN)dichlorobis(ethanol-\kO)cobalt(II) +; + +loop_ +_publ_author_name +_publ_author_address +'Clegg, William' +; +School of Natural Sciences (Chemistry) +Newcastle University +Newcastle upon Tyne NE1 7RU +England +; +'Martin, Nicola C.' +; +School of Natural Sciences (Chemistry) +Newcastle University +Newcastle upon Tyne NE1 7RU +England +; + +#========================================================================= + +# 4. TEXT + +_publ_section_abstract +; +The title compound, [CoCl~2~(C~6~H~7~N)~2~(C~2~H~6~O)~2~], was obtained +unintentionally as the product of an attempted synthesis of a +polycarboxylate-bridged network complex of cobalt(II) using aniline as a base +to deprotonate the organic acid. The molecule is centrosymmetric, so pairs of +equivalent ligands lie trans to each other in a slightly distorted +octahedral coordination geometry. Molecules are linked by O---H...Cl and +N---H...Cl hydrogen bonds involving all the potential donors, generating +sheets parallel to (001). The phenyl rings protrude on both sides of these +sheets and have normal hydrophobic contacts with each other, involving no +intercalation or stacking interactions. +; + +_publ_section_comment +; +The molecule of the title complex, (I) (Fig. 1), is centrosymmetric, so pairs +of equivalent ligands lie trans to each other in a slightly distorted +octahedral coordination geometry, cis angles deviating from 90\% by +less than 4\%. + +Molecules are linked by O---H...Cl and N---H...Cl hydrogen bonds involving all +potential donors, generating sheets parallel to (001), as shown in Fig. 2. The +phenyl rings protrude on both sides of these sheets and have normal +hydrophobic contacts with each other, involving no intercalation or stacking +interactions. + +The corresponding four-coordinate complex without ethanol has tetrahedral +geometry (Burrow et al., 1997), with layers of molecules linked +by +N---H...Cl hydrogen bonds. +; + +_publ_section_related_literature +; +The corresponding four-coordinate complex without ethanol has tetrahedral +geometry (Burrow et al., 1997), with layers of molecules linked by N---H...Cl +hydrogen bonds. +; + +_publ_section_exptl_prep +; +The title compound was obtained unintentionally as the product of an attempted +synthesis of a polymeric network complex of cobalt with pyromellitic acid, +using vapour diffusion of aniline into an ethanol solution of cobalt(II) +chloride and pyromellitic acid at room temperature. +; + +_publ_section_exptl_refinement +; +H atoms bonded to N and O atoms were located in a difference map and refined +with distance restraints of O---H = 0.84(2) and N---H = 0.87(2) \%A, and with +U~iso~(H) = 1.2U~eq~(N,O). Other H atoms were positioned +geometrically and refined using a riding model (including free rotation about +the ethanol C---C bond), +with C---H = 0.95--0.99 \%A and +with U~iso~(H) = 1.2 +(1.5 for methyl groups) times U~eq~(C). +; + +_publ_section_references +; +Bruker (2001). SMART and SAINT. Bruker AXS Inc., Madison, +Wisconsin, USA. + +Burrow, R. A., Horner, M., Lang, L. S., Neves, A. & Vencato, I. (1997). +Z. Kristallogr. New Cryst. Struct. 212, 41--41. + +Sheldrick, G. M. (2001). SHELXTL. Version 5.0. Bruker AXS Inc., +Madison, Wisconsin, USA. + +Sheldrick, G. M. (2004). SADABS. University of G\"ottingen, +Germany. +; + + +_publ_section_figure_captions +; +Fig. 1. The molecular structure of (I), with atom labels and 50% probability +displacement ellipsoids for non-H atoms. + +Fig. 2. The packing of (I), viewed down the c axis, showing one layer of +molecules connected by O---H...Cl and N---H...Cl hydrogen bonds (dashed +lines). H atoms not involved in hydrogen bonding have been omitted. +; + +_publ_section_table_legends +; +Table 1. Selected geometric parameters (\%A, \%). + +Table 2. Hydrogen bonding geometry (\%A, \%). +; +_publ_section_acknowledgements +; +The authors thank the EPSRC for financial support. +; + +#============================================================================== + +data_I + +#============================================================================== + +# 5. GENERAL AND CHEMICAL DATA + +_audit_creation_method SHELXL97 + + +_chemical_name_systematic +; +trans-Bis(aniline-\kN)dichlorobis(ethanol-\kO)cobalt(II) +; +_chemical_name_common ? +_chemical_melting_point ? +_chemical_compound_source ? +_chemical_formula_iupac '[Co Cl2 (C6 H7 N)2 (C2 H6 O)2]' +_chemical_formula_moiety 'C16 H26 Cl2 Co N2 O2' +_chemical_formula_sum 'C16 H26 Cl2 Co N2 O2' +_chemical_formula_weight 408.22 + +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' + 'N' 'N' 0.0061 0.0033 + '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' + 'Cl' 'Cl' 0.1484 0.1585 + 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' + 'Co' 'Co' 0.3494 0.9721 + 'International Tables Vol C Tables 4.2.6.8 and 6.1.1.4' + +#============================================================================== + +# 6. CRYSTAL DATA + +_symmetry_cell_setting triclinic +_symmetry_space_group_name_H-M 'P -1' + +loop_ + _symmetry_equiv_pos_as_xyz + 'x, y, z' + '-x, -y, -z' + +_cell_length_a 5.8166(16) +_cell_length_b 6.8339(19) +_cell_length_c 12.263(3) +_cell_angle_alpha 87.642(5) +_cell_angle_beta 81.726(5) +_cell_angle_gamma 73.017(5) +_cell_volume 461.3(2) +_cell_formula_units_Z 1 +_cell_measurement_temperature 160(2) +_cell_measurement_reflns_used 2052 +_cell_measurement_theta_min 3.12 +_cell_measurement_theta_max 28.64 + +_exptl_crystal_description block +_exptl_crystal_colour pink +_exptl_crystal_size_max 0.30 +_exptl_crystal_size_mid 0.20 +_exptl_crystal_size_min 0.04 +_exptl_crystal_density_meas ? +_exptl_crystal_density_diffrn 1.469 +_exptl_crystal_density_method 'not measured' +_exptl_crystal_F_000 213 +_exptl_absorpt_coefficient_mu 1.229 +_exptl_absorpt_correction_type multi-scan +_exptl_absorpt_correction_T_min 0.710 +_exptl_absorpt_correction_T_max 0.950 +_exptl_absorpt_process_details '(SADABS; Sheldrick, 2004)' + +#============================================================================== + +# 7. EXPERIMENTAL DATA + +_exptl_special_details +; +; + +_diffrn_ambient_temperature 160(2) +_diffrn_radiation_wavelength 0.71073 +_diffrn_radiation_type MoK\a +_diffrn_radiation_source 'sealed tube' +_diffrn_radiation_monochromator graphite +_diffrn_measurement_device_type 'Bruker SMART 1K CCD area-detector' +_diffrn_measurement_method 'thin-slice \w' +_diffrn_detector_area_resol_mean 8.192 +_diffrn_standards_number 0 +_diffrn_standards_interval_count ? +_diffrn_standards_interval_time ? +_diffrn_standards_decay_% ? +_diffrn_reflns_number 2296 +_diffrn_reflns_av_R_equivalents 0.0271 +_diffrn_reflns_av_sigmaI/netI 0.0480 +_diffrn_reflns_limit_h_min -6 +_diffrn_reflns_limit_h_max 6 +_diffrn_reflns_limit_k_min -8 +_diffrn_reflns_limit_k_max 7 +_diffrn_reflns_limit_l_min -14 +_diffrn_reflns_limit_l_max 14 +_diffrn_reflns_theta_min 1.68 +_diffrn_reflns_theta_max 25.00 +_reflns_number_total 1583 +_reflns_number_gt 1278 +_reflns_threshold_expression I>2\s(I) + +_computing_data_collection 'SMART (Bruker, 2001)' +_computing_cell_refinement 'SAINT (Bruker, 2001)' +_computing_data_reduction 'SAINT' +_computing_structure_solution 'SHELXTL (Sheldrick, 2001)' +_computing_structure_refinement SHELXTL +_computing_molecular_graphics SHELXTL +_computing_publication_material 'SHELXTL and local programs' + +#============================================================================== + +# 8. REFINEMENT DATA + +_refine_special_details +; +; + +_refine_ls_structure_factor_coef Fsqd +_refine_ls_matrix_type full +_refine_ls_weighting_scheme calc +_refine_ls_weighting_details + 'w = 1/[\s^2^(Fo^2^)+(0.0677P)^2^] where P=(Fo^2^+2Fc^2^)/3' +_atom_sites_solution_primary direct +_atom_sites_solution_secondary difmap +_atom_sites_solution_hydrogens mixed +_refine_ls_hydrogen_treatment mixed +_refine_ls_extinction_method none +_refine_ls_extinction_coef ? +_refine_ls_number_reflns 1583 +_refine_ls_number_parameters 116 +_refine_ls_number_restraints 3 +_refine_ls_R_factor_all 0.0509 +_refine_ls_R_factor_gt 0.0401 +_refine_ls_wR_factor_ref 0.1050 +_refine_ls_wR_factor_gt 0.1004 +_refine_ls_goodness_of_fit_ref 1.028 +_refine_ls_restrained_S_all 1.027 +_refine_ls_shift/su_max 0.000 +_refine_ls_shift/su_mean 0.000 +_diffrn_measured_fraction_theta_max 0.983 +_diffrn_reflns_theta_full 25.00 +_diffrn_measured_fraction_theta_full 0.983 +_refine_diff_density_max 0.819 +_refine_diff_density_min -0.948 + +#============================================================================== + +# 9. ATOMIC COORDINATES AND DISPLACEMENT PARAMETERS + +loop_ + _atom_site_label + _atom_site_type_symbol + _atom_site_fract_x + _atom_site_fract_y + _atom_site_fract_z + _atom_site_U_iso_or_equiv + _atom_site_adp_type + _atom_site_occupancy + _atom_site_symmetry_multiplicity + _atom_site_calc_flag + _atom_site_refinement_flags + _atom_site_disorder_assembly + _atom_site_disorder_group +Co Co 0.5000 0.5000 0.5000 0.0127(2) Uani 1 2 d S . . +Cl Cl 0.26740(13) 0.26735(11) 0.45695(6) 0.0178(2) Uani 1 1 d . . . +O O 0.2256(4) 0.5979(3) 0.63639(18) 0.0165(5) Uani 1 1 d D . . +H1O H 0.095(4) 0.608(5) 0.613(3) 0.020 Uiso 1 1 d D . . +C1 C 0.2075(6) 0.7554(5) 0.7133(3) 0.0215(8) Uani 1 1 d . . . +H1A H 0.1462 0.8907 0.6787 0.026 Uiso 1 1 calc R . . +H1B H 0.3710 0.7442 0.7319 0.026 Uiso 1 1 calc R . . +C2 C 0.0399(7) 0.7412(6) 0.8177(3) 0.0291(9) Uani 1 1 d . . . +H2A H -0.1218 0.7512 0.7995 0.044 Uiso 1 1 calc R . . +H2B H 0.0287 0.8532 0.8674 0.044 Uiso 1 1 calc R . . +H2C H 0.1041 0.6099 0.8539 0.044 Uiso 1 1 calc R . . +N N 0.2846(5) 0.7522(4) 0.4102(2) 0.0158(6) Uani 1 1 d D . . +H1C H 0.293(7) 0.860(3) 0.444(3) 0.019 Uiso 1 1 d D . . +H1D H 0.139(3) 0.743(5) 0.432(3) 0.019 Uiso 1 1 d D . . +C3 C 0.3387(6) 0.7559(4) 0.2928(3) 0.0153(7) Uani 1 1 d . . . +C4 C 0.5275(6) 0.8296(5) 0.2440(3) 0.0225(8) Uani 1 1 d . . . +H4 H 0.6184 0.8803 0.2885 0.027 Uiso 1 1 calc R . . +C5 C 0.5829(7) 0.8292(5) 0.1308(3) 0.0267(8) Uani 1 1 d . . . +H5 H 0.7112 0.8811 0.0979 0.032 Uiso 1 1 calc R . . +C6 C 0.4557(7) 0.7549(5) 0.0649(3) 0.0292(9) Uani 1 1 d . . . +H6 H 0.4958 0.7547 -0.0130 0.035 Uiso 1 1 calc R . . +C7 C 0.2666(7) 0.6797(5) 0.1139(3) 0.0274(8) Uani 1 1 d . . . +H7 H 0.1777 0.6273 0.0692 0.033 Uiso 1 1 calc R . . +C8 C 0.2086(6) 0.6813(5) 0.2273(3) 0.0209(8) Uani 1 1 d . . . +H8 H 0.0789 0.6311 0.2603 0.025 Uiso 1 1 calc R . . + +loop_ + _atom_site_aniso_label + _atom_site_aniso_U_11 + _atom_site_aniso_U_22 + _atom_site_aniso_U_33 + _atom_site_aniso_U_23 + _atom_site_aniso_U_13 + _atom_site_aniso_U_12 +Co 0.0061(3) 0.0094(3) 0.0209(4) -0.0010(2) -0.0035(2) 0.0015(2) +Cl 0.0090(4) 0.0140(4) 0.0297(5) -0.0037(3) -0.0050(3) -0.0008(3) +O 0.0090(12) 0.0161(11) 0.0240(13) -0.0030(9) -0.0058(10) -0.0006(9) +C1 0.0161(18) 0.0168(17) 0.031(2) -0.0049(14) -0.0039(15) -0.0030(14) +C2 0.029(2) 0.0248(19) 0.031(2) -0.0067(16) 0.0007(17) -0.0056(16) +N 0.0097(14) 0.0112(13) 0.0248(16) -0.0015(11) -0.0049(12) 0.0009(11) +C3 0.0124(17) 0.0069(14) 0.0227(17) 0.0009(12) -0.0032(13) 0.0036(12) +C4 0.0173(19) 0.0158(16) 0.035(2) 0.0042(14) -0.0069(15) -0.0046(14) +C5 0.0185(19) 0.0197(18) 0.036(2) 0.0078(15) 0.0019(16) 0.0002(15) +C6 0.030(2) 0.0197(18) 0.028(2) 0.0035(15) -0.0001(16) 0.0065(16) +C7 0.030(2) 0.0189(17) 0.032(2) -0.0043(15) -0.0120(16) -0.0016(15) +C8 0.0184(18) 0.0155(17) 0.0280(19) -0.0004(14) -0.0042(14) -0.0030(14) + +#============================================================================== + +# 10. GEOMETRY + +_geom_special_details +; + ? +; + +loop_ + _geom_bond_atom_site_label_1 + _geom_bond_atom_site_label_2 + _geom_bond_distance + _geom_bond_site_symmetry_2 + _geom_bond_publ_flag +Co Cl 2.4836(9) . y +Co Cl 2.4835(9) 2_666 ? +Co O 2.120(2) . y +Co O 2.120(2) 2_666 ? +Co N 2.175(3) . y +Co N 2.175(3) 2_666 ? +O H1O 0.833(10) . ? +O C1 1.431(4) . ? +C1 H1A 0.990 . ? +C1 H1B 0.990 . ? +C1 C2 1.512(5) . ? +C2 H2A 0.980 . ? +C2 H2B 0.980 . ? +C2 H2C 0.980 . ? +N H1C 0.873(10) . ? +N H1D 0.869(10) . ? +N C3 1.431(4) . ? +C3 C4 1.388(5) . ? +C3 C8 1.382(5) . ? +C4 H4 0.950 . ? +C4 C5 1.378(5) . ? +C5 H5 0.950 . ? +C5 C6 1.372(6) . ? +C6 H6 0.950 . ? +C6 C7 1.396(6) . ? +C7 H7 0.950 . ? +C7 C8 1.383(5) . ? +C8 H8 0.950 . ? + +loop_ + _geom_angle_atom_site_label_1 + _geom_angle_atom_site_label_2 + _geom_angle_atom_site_label_3 + _geom_angle + _geom_angle_site_symmetry_1 + _geom_angle_site_symmetry_3 + _geom_angle_publ_flag +Cl Co Cl 180 . 2_666 ? +Cl Co O 86.06(6) . . y +Cl Co O 86.06(7) 2_666 2_666 ? +Cl Co O 93.94(7) 2_666 . ? +Cl Co O 93.94(6) . 2_666 ? +Cl Co N 92.33(8) . . y +Cl Co N 87.67(8) 2_666 . ? +Cl Co N 92.33(8) 2_666 2_666 ? +Cl Co N 87.67(8) . 2_666 ? +O Co O 180 . 2_666 ? +O Co N 86.22(10) . . y +O Co N 93.78(10) 2_666 . ? +O Co N 86.22(10) 2_666 2_666 ? +O Co N 93.78(10) . 2_666 ? +N Co N 180 . 2_666 ? +Co O H1O 106(3) . . ? +Co O C1 126.4(2) . . ? +H1O O C1 113(3) . . ? +O C1 H1A 109.3 . . ? +O C1 H1B 109.3 . . ? +O C1 C2 111.8(3) . . ? +H1A C1 H1B 107.9 . . ? +H1A C1 C2 109.3 . . ? +H1B C1 C2 109.3 . . ? +C1 C2 H2A 109.5 . . ? +C1 C2 H2B 109.5 . . ? +C1 C2 H2C 109.5 . . ? +H2A C2 H2B 109.5 . . ? +H2A C2 H2C 109.5 . . ? +H2B C2 H2C 109.5 . . ? +Co N H1C 103(2) . . ? +Co N H1D 101(2) . . ? +Co N C3 118.62(19) . . ? +H1C N H1D 106(3) . . ? +H1C N C3 115(2) . . ? +H1D N C3 112(2) . . ? +N C3 C4 119.9(3) . . ? +N C3 C8 120.5(3) . . ? +C4 C3 C8 119.6(3) . . ? +C3 C4 H4 120.1 . . ? +C3 C4 C5 119.9(3) . . ? +H4 C4 C5 120.1 . . ? +C4 C5 H5 119.5 . . ? +C4 C5 C6 121.1(4) . . ? +H5 C5 C6 119.5 . . ? +C5 C6 H6 120.4 . . ? +C5 C6 C7 119.1(4) . . ? +H6 C6 C7 120.4 . . ? +C6 C7 H7 119.9 . . ? +C6 C7 C8 120.1(3) . . ? +H7 C7 C8 119.9 . . ? +C3 C8 C7 120.2(3) . . ? +C3 C8 H8 119.9 . . ? +C7 C8 H8 119.9 . . ? + +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_site_symmetry_1 + _geom_torsion_site_symmetry_2 + _geom_torsion_site_symmetry_3 + _geom_torsion_site_symmetry_4 + _geom_torsion_publ_flag +Cl Co O C1 -177.0(2) . . . . ? +Cl Co O C1 3.0(2) 2_666 . . . ? +N Co O C1 -84.4(2) . . . . ? +N Co O C1 95.6(2) 2_666 . . . ? +Co O C1 C2 -162.3(2) . . . . ? +Cl Co N C3 -79.7(2) . . . . ? +Cl Co N C3 100.3(2) 2_666 . . . ? +O Co N C3 -165.6(2) . . . . ? +O Co N C3 14.4(2) 2_666 . . . ? +Co N C3 C4 -81.7(3) . . . . ? +Co N C3 C8 96.5(3) . . . . ? +N C3 C4 C5 178.7(3) . . . . ? +C8 C3 C4 C5 0.4(5) . . . . ? +C3 C4 C5 C6 -0.6(5) . . . . ? +C4 C5 C6 C7 0.3(5) . . . . ? +C5 C6 C7 C8 0.3(5) . . . . ? +N C3 C8 C7 -178.1(3) . . . . ? +C4 C3 C8 C7 0.2(5) . . . . ? +C6 C7 C8 C3 -0.5(5) . . . . ? + +loop_ + _geom_hbond_atom_site_label_D + _geom_hbond_atom_site_label_H + _geom_hbond_atom_site_label_A + _geom_hbond_distance_DH + _geom_hbond_distance_HA + _geom_hbond_distance_DA + _geom_hbond_angle_DHA + _geom_hbond_site_symmetry_A + _geom_hbond_publ_flag +O H1O Cl 0.833(10) 2.306(14) 3.114(2) 163(3) 2_566 y +N H1C Cl 0.873(10) 2.756(18) 3.560(3) 154(3) 1_565 y +N H1D Cl 0.869(10) 2.574(13) 3.422(3) 165(3) 2_566 y + +#===================== End of CIF submission ================================= + + + + + +