#------------------------------------------------------------------------------
#$Date: 2019-11-26 13:06:42 +0200 (Tue, 26 Nov 2019) $
#$Revision: 243407 $
#$URL: file:///home/coder/svn-repositories/cod/cif/4/13/36/4133670.cif $
#------------------------------------------------------------------------------
#
# This file is available in the Crystallography Open Database (COD),
# http://www.crystallography.net/
#
# All data on this site have been placed in the public domain by the
# contributors.
#
data_4133670
loop_
_publ_author_name
'Sun, Tu'
'Wei, Lei'
'Chen, Yichong'
'Ma, Yanhang'
'Zhang, Yue-Biao'
_publ_section_title
;
 Atomic-Level Characterization of Dynamics of a 3D Covalent Organic
 Framework by Cryo-Electron Diffraction Tomography.
;
_journal_issue                   28
_journal_name_full               'Journal of the American Chemical Society'
_journal_page_first              10962
_journal_page_last               10966
_journal_paper_doi               10.1021/jacs.9b04895
_journal_volume                  141
_journal_year                    2019
_chemical_formula_moiety         '0.25(C164 H112 N16)'
_chemical_formula_sum            'C41 H28 N4'
_chemical_formula_weight         576.67
_chemical_name_systematic        COF-300-PMMA_cryo
_space_group_crystal_system      tetragonal
_space_group_IT_number           88
_space_group_name_Hall           '-I 4ad'
_space_group_name_H-M_alt        'I 41/a :2'
_atom_sites_solution_hydrogens   geom
_atom_sites_solution_primary     direct
_audit_creation_date             2019-05-05
_audit_creation_method
;
Olex2 1.2
(compiled 2018.05.29 svn.r3508 for OlexSys, GUI svn.r5506)
;
_cell_angle_alpha                90
_cell_angle_beta                 90
_cell_angle_gamma                90
_cell_formula_units_Z            4
_cell_length_a                   27.300
_cell_length_b                   27.300
_cell_length_c                   7.700
_cell_measurement_temperature    77
_cell_volume                     5738.733
_computing_molecular_graphics    'Olex2 (Dolomanov et al., 2009)'
_computing_publication_material  'Olex2 (Dolomanov et al., 2009)'
_computing_structure_refinement  'XL (Sheldrick, 2008)'
_computing_structure_solution    'ShelXS (Sheldrick, 2008)'
_diffrn_ambient_temperature      77
_diffrn_measured_fraction_theta_full 0.572
_diffrn_measured_fraction_theta_max 0.572
_diffrn_measurement_device_type  'JEOL JEM 2100 Plus with TVIPS CMOS'
_diffrn_radiation_wavelength     0.0251
_diffrn_reflns_av_R_equivalents  0.2740
_diffrn_reflns_av_unetI/netI     0.1908
_diffrn_reflns_Laue_measured_fraction_full 0.572
_diffrn_reflns_Laue_measured_fraction_max 0.572
_diffrn_reflns_limit_h_max       14
_diffrn_reflns_limit_h_min       -13
_diffrn_reflns_limit_k_max       15
_diffrn_reflns_limit_k_min       -16
_diffrn_reflns_limit_l_max       4
_diffrn_reflns_limit_l_min       -4
_diffrn_reflns_number            616
_diffrn_reflns_point_group_measured_fraction_full 0.572
_diffrn_reflns_point_group_measured_fraction_max 0.572
_diffrn_reflns_theta_full        0.479
_diffrn_reflns_theta_max         0.479
_diffrn_reflns_theta_min         0.053
_exptl_absorpt_coefficient_mu    0.040
_exptl_absorpt_correction_type   none
_exptl_crystal_colour            'dull yellowish yellow'
_exptl_crystal_colour_lustre     dull
_exptl_crystal_colour_modifier   yellowish
_exptl_crystal_colour_primary    yellow
_exptl_crystal_density_diffrn    0.667
_exptl_crystal_description       prism
_exptl_crystal_F_000             1208
_exptl_crystal_preparation
'Included of monomer and polymerized in the pore'
_exptl_crystal_recrystallization_method
'Y. B. Zhang, et al. J. Am. Chem. Soc. 2019, 141, 3298.'
_exptl_crystal_size_max          0.006
_exptl_crystal_size_mid          0.001
_exptl_crystal_size_min          0.0006
_refine_diff_density_max         0.584
_refine_diff_density_min         -0.657
_refine_diff_density_rms         0.196
_refine_ls_extinction_method     none
_refine_ls_goodness_of_fit_ref   1.192
_refine_ls_hydrogen_treatment    constr
_refine_ls_matrix_type           full
_refine_ls_number_parameters     60
_refine_ls_number_reflns         253
_refine_ls_number_restraints     241
_refine_ls_restrained_S_all      0.800
_refine_ls_R_factor_all          0.4084
_refine_ls_R_factor_gt           0.4033
_refine_ls_shift/su_max          0.000
_refine_ls_shift/su_mean         0.000
_refine_ls_structure_factor_coef Fsqd
_refine_ls_weighting_details
'w=1/[σ²(Fo²)+(0.2000P)²+3000.0000P] where P=(Fo²+2Fc²)/3'
_refine_ls_weighting_scheme      calc
_refine_ls_wR_factor_gt          0.7484
_refine_ls_wR_factor_ref         0.7525
_reflns_Friedel_coverage         0.000
_reflns_number_gt                218
_reflns_number_total             253
_reflns_threshold_expression     'I > 2σ(I)'
_cod_data_source_file            ja9b04895_si_006.cif
_cod_data_source_block           COF-300-PMMA_Cryo
_cod_original_cell_volume        5738.7
_cod_original_sg_symbol_H-M      'I 41/a'
_cod_database_code               4133670
_shelx_shelxl_version_number     2017/1
_shelx_space_group_comment
;
The symmetry employed for this shelxl refinement is uniquely defined
by the following loop, which should always be used as a source of
symmetry information in preference to the above space-group names.
They are only intended as comments.
;
_shelx_estimated_absorpt_t_max   1.000
_shelx_estimated_absorpt_t_min   1.000
_olex2_refinement_description
;
1. Fixed Uiso
 At 1.2 times of:
  All C(H) groups
2. Restrained distances
 C2-C1 = N1-C5 = C9-C8
 1.5 with sigma of 0.02
 N1-C8
 1.3 with sigma of 0.02
 C1-C3 \\sim C1-C7 \\sim N1-C4 \\sim N1-C6 \\sim C8-C10 \\sim C8-C11
 with sigma of 0.02
 C2-C4 \\sim C6-C2 \\sim C4-C6 \\sim C5-C3 \\sim C5-C7 \\sim C7-C3 \\sim
C9-C11_$1 \\sim C11_$1-C10_$1 ~
 C10_$1-C9 \\sim C9_$1-C10 \\sim C9_$1-C11 \\sim C11-C10
 with sigma of 0.02
 C6-C5 \\sim C7-C6 \\sim C7-C2 \\sim C3-C2 \\sim C4-C3 \\sim C5-C4 \\sim C9-C11
\\sim C11-C10_$1 \\sim C9_$1-
 C10_$1 \\sim C9_$1-C11_$1 \\sim C11_$1-C10 \\sim C9-C10
 with sigma of 0.02
 C2-C1 \\sim N1-C5 \\sim C9-C8
 with sigma of 0.02
3. Restrained planarity
 C2, C6, C7, C5, C4, C3
 with sigma of 0.1
 C9, C10, C11_$1, C9_$1, C10_$1, C11
 with sigma of 0.1
4. Uiso/Uaniso restraints and constraints
Uanis(C5) = Uanis(C4) = Uanis(C3) = Uanis(C2) = Uanis(C7) = Uanis(C6)
Uanis(C11) = Uanis(C9) = Uanis(C10)
5. Rigid body (RIGU) restrains
 C2, C3, C4, C5, C6, C7, C1, N1, C9, C9, C8, C8, C10, C10, C11, C11
 with sigma for 1-2 distances of 0.004 and sigma for 1-3 distances of 0.004
6.a Aromatic/amide H refined with riding coordinates:
 C3(H3), C4(H4), C6(H6), C7(H7), C8(H8), C10(H10), C11(H11)
;
_olex2_exptl_crystal_mounting_method
'copper grid coated with ultrathin carbon film'
_olex2_submission_special_instructions 'No special instructions were received'
loop_
_space_group_symop_operation_xyz
'x, y, z'
'-x+1/2, -y, z+1/2'
'-y+3/4, x+1/4, z+1/4'
'y+3/4, -x+3/4, z+3/4'
'x+1/2, y+1/2, z+1/2'
'-x+1, -y+1/2, z+1'
'-y+5/4, x+3/4, z+3/4'
'y+5/4, -x+5/4, z+5/4'
'-x, -y, -z'
'x-1/2, y, -z-1/2'
'y-3/4, -x-1/4, -z-1/4'
'-y-3/4, x-3/4, -z-3/4'
'-x+1/2, -y+1/2, -z+1/2'
'x, y+1/2, -z'
'y-1/4, -x+1/4, -z+1/4'
'-y-1/4, x-1/4, -z-1/4'
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_site_symmetry_order
_atom_site_calc_flag
_atom_site_refinement_flags_posn
_atom_site_refinement_flags_adp
_atom_site_refinement_flags_occupancy
C2 C -0.0004(17) 0.2939(15) 0.743(7) 0.08(2) Uani 1 1 d D U .
C3 C 0.0365(19) 0.2994(18) 0.870(8) 0.08(2) Uani 1 1 d D U .
H3 H 0.062295 0.276107 0.876936 0.101 Uiso 1 1 calc R . .
C4 C 0.035(2) 0.339(2) 0.985(8) 0.08(2) Uani 1 1 d D U .
H4 H 0.061078 0.343588 1.066704 0.101 Uiso 1 1 calc R . .
C5 C -0.004(2) 0.373(3) 0.980(8) 0.08(2) Uani 1 1 d D U .
C6 C -0.040(2) 0.368(2) 0.852(7) 0.08(2) Uani 1 1 d D U .
H6 H -0.065936 0.391152 0.843846 0.101 Uiso 1 1 calc R . .
C7 C -0.0387(19) 0.3282(16) 0.735(6) 0.08(2) Uani 1 1 d D U .
H7 H -0.063649 0.324600 0.649473 0.101 Uiso 1 1 calc R . .
C1 C 0.000000 0.250000 0.625000 0.11(4) Uani 1 4 d DS TU P
N1 N -0.011(3) 0.408(4) 1.126(11) 0.14(5) Uani 1 1 d D U .
C9 C 0.009(4) 0.461(2) 1.386(6) 0.13(4) Uani 1 1 d D U .
C8 C 0.013(4) 0.417(3) 1.270(10) 0.11(5) Uani 1 1 d D U .
H8 H 0.036003 0.392069 1.304629 0.135 Uiso 1 1 calc R . .
C10 C 0.025(4) 0.4583(19) 1.559(7) 0.13(4) Uani 1 1 d D U .
H10 H 0.042587 0.430205 1.598172 0.159 Uiso 1 1 calc R . .
C11 C -0.017(4) 0.502(2) 1.327(6) 0.13(4) Uani 1 1 d D U .
H11 H -0.027797 0.504090 1.210624 0.159 Uiso 1 1 calc R . .
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'
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
C3 C2 C1 119.9(13) . .
C7 C2 C3 119.7(11) . .
C7 C2 C1 120.4(13) . .
C4 C3 C2 120.2(12) . .
C3 C4 C5 120.1(12) . .
C4 C5 N1 119.7(14) . .
C6 C5 C4 119.7(11) . .
C6 C5 N1 120.0(14) . .
C7 C6 C5 120.1(12) . .
C2 C7 C6 120.2(12) . .
C2 C1 C2 111(3) 6_454 15_556
C2 C1 C2 111(3) 12_667 6_454
C2 C1 C2 111(3) . 15_556
C2 C1 C2 106(5) 12_667 15_556
C2 C1 C2 111(3) . 12_667
C2 C1 C2 106(5) . 6_454
C8 N1 C5 133(6) . .
C10 C9 C8 119.9(13) . .
C10 C9 C11 119.9(9) . .
C11 C9 C8 119.9(13) . .
N1 C8 C9 127(7) . .
C11 C10 C9 120.0(10) 9_568 .
C10 C11 C9 120.0(10) 9_568 .
loop_
_geom_bond_atom_site_label_1
_geom_bond_atom_site_label_2
_geom_bond_distance
_geom_bond_site_symmetry_2
C2 C3 1.41(3) .
C2 C7 1.41(3) .
C2 C1 1.506(15) .
C3 C4 1.40(3) .
C4 C5 1.41(3) .
C5 C6 1.41(3) .
C5 N1 1.505(16) .
C6 C7 1.41(3) .
N1 C8 1.30(2) .
C9 C8 1.506(16) .
C9 C10 1.41(3) .
C9 C11 1.41(3) .
C10 C11 1.41(3) 9_568
