A systematic study of the interplay between guest molecule structure and intermolecular interactions in crystalline sponges
Carroll, Robert C.; Harrowven, David C.; Pearce, James E.; Coles, Simon J.; IUCrJ 10 (2023) 497–508; doi:10.1107/S2052252523005146

data_1569423
_publ_section_title
;
 A systematic study of the interplay between guest molecule structure and
 intermolecular interactions in crystalline sponges
;
_journal_issue                   4
_journal_name_full               IUCrJ
_journal_page_first              497
_journal_page_last               508
_journal_paper_doi               10.1107/S2052252523005146
_journal_volume                  10
_journal_year                    2023
_chemical_formula_moiety         'C36 H23 I6 N12 Zn3, 0.99(C14 H14 O)'
_chemical_formula_sum            'C49.98 H38.21 I6 N12 O Zn3'
_chemical_formula_weight         1780.40
_chemical_name_common
'Phenyl Biaryl Alcohol-2-Methyl (absorbed in crystalline sponge)'
_chemical_name_systematic
'2',5-dimethyl-[1,1'-biphenyl]-2-ol (absorbed in crystalline sponge)'
_space_group_crystal_system      monoclinic
_space_group_IT_number           15
_space_group_name_Hall           '-C 2yc'
_space_group_name_H-M_alt        'C 1 2/c 1'
_atom_sites_solution_hydrogens   geom
_atom_sites_solution_primary     dual
_audit_creation_date             2023-04-05
_audit_creation_method
;
Olex2 1.5
(compiled 2023.03.06 svn.rbb2c1857 for OlexSys, GUI svn.r6748)
;
_cell_angle_alpha                90
_cell_angle_beta                 102.449(2)
_cell_angle_gamma                90
_cell_formula_units_Z            8
_cell_length_a                   35.5509(6)
_cell_length_b                   14.9182(3)
_cell_length_c                   30.8851(5)
_cell_measurement_reflns_used    10666
_cell_measurement_temperature    100(2)
_cell_measurement_theta_max      74.0730
_cell_measurement_theta_min      2.9200
_cell_volume                     15995.0(5)
_computing_cell_refinement       'CrysAlisPro 1.171.41.122a (Rigaku OD, 2021)'
_computing_data_collection       'CrysAlisPro 1.171.41.122a (Rigaku OD, 2021)'
_computing_data_reduction        'CrysAlisPro 1.171.41.122a (Rigaku OD, 2021)'
_computing_molecular_graphics    'Olex2 1.5 (Dolomanov et al., 2009)'
_computing_publication_material  'Olex2 1.5 (Dolomanov et al., 2009)'
_computing_structure_refinement  'SHELXL 2018/3 (Sheldrick, 2015)'
_computing_structure_solution    'SHELXT 2014/5 (Sheldrick, 2014)'
_diffrn_ambient_environment      N~2~
_diffrn_ambient_temperature      100(2)
_diffrn_detector                 'hybrid pixel array detector'
_diffrn_detector_area_resol_mean 10.0000
_diffrn_detector_dtime           0.000
_diffrn_detector_type            'Rigaku, HyPix 6000HE'
_diffrn_measured_fraction_theta_full 0.993
_diffrn_measured_fraction_theta_max 0.992
_diffrn_measurement_details
;
List of Runs (angles in degrees, time in seconds):

  # Type    Start    End  Width  t~exp~   \w     \q     \k     \f   Frames
--------------------------------------------------------------------------
  1  \w   -170.00 -93.00   0.50    3.50    -- -103.00 -29.00-173.00  154
  2  \w   -146.00-110.00   0.50    3.50    -- -103.00 -30.00  90.00   72
  3  \w    -67.00 -36.00   0.50    3.50    -- -103.00  61.00 120.00   62
  4  \w    -83.00 -32.00   0.50    3.50    -- -103.00  77.00-120.00  102
  5  \w    -56.00 -31.00   0.50    3.50    -- -103.00  61.00   0.00   50
  6  \w    -69.00 -44.00   0.50    3.50    -- -103.00  61.00 -30.00   50
  7  \w    -67.00 -31.00   0.50    3.50    -- -103.00  61.00  90.00   72
  8  \w    -65.00 -38.00   0.50    3.50    -- -103.00  61.00 150.00   54
  9  \w     89.00 123.00   0.50    3.50    --  101.75  29.00 -12.00   68
 10  \w     29.00  54.00   0.50    3.50    --  101.75 -61.00   0.00   50
 11  \w     32.00  72.00   0.50    3.50    --  101.75 -61.00-180.00   80
 12  \w     37.00  63.00   0.50    3.50    --  101.75 -61.00-150.00   52
 13  \w     29.00  93.00   0.50    3.50    --  101.75 -77.00   0.00  128
 14  \w     29.00  69.00   0.50    3.50    --  101.75 -61.00-120.00   80
 15  \w     70.00 106.00   0.50    3.50    --  101.75 -77.00  30.00   72
 16  \w     30.00  66.00   0.50    3.50    --  101.75 -77.00  30.00   72
 17  \w     44.00  71.00   0.50    3.50    --  101.75 -61.00 -60.00   54
 18  \w     31.00  67.00   0.50    3.50    --  101.75 -61.00 -90.00   72
 19  \w    -24.00  12.00   0.50    0.75    --  -46.61  29.00 -12.00   72
 20  \w   -101.00 -42.00   0.50    0.75    --  -46.61 -29.00-173.00  118
 21  \w     34.00 120.00   0.50    0.75    --   46.61  29.00 -12.00  172
 22  \w    -20.00   5.00   0.50    0.75    --   46.61 -29.00-173.00   50
 23  \w    -37.00  24.00   0.50    0.75    --  -46.61  37.00 150.00  122
 24  \w    -20.00  22.00   0.50    0.75    --  -46.61  19.00 120.00   84
;
_diffrn_measurement_device       'four-circle diffractometer'
_diffrn_measurement_device_details
'Rigaku Oxford Difffraction, UG2 \k goniometer'
_diffrn_measurement_device_type
'Rigaku 007HF equipped with Varimax confocal mirrors and a UG2 goniometer and HyPix 6000HE detector'
_diffrn_measurement_method       'profile data from \w-scans'
_diffrn_measurement_specimen_support 'MiTeGen loops'
_diffrn_orient_matrix_type
'CrysAlisPro convention (1999,Acta A55,543-557)'
_diffrn_orient_matrix_UB_11      0.0096906000
_diffrn_orient_matrix_UB_12      -0.0018649000
_diffrn_orient_matrix_UB_13      0.0510905000
_diffrn_orient_matrix_UB_21      -0.0400624000
_diffrn_orient_matrix_UB_22      -0.0396741000
_diffrn_orient_matrix_UB_23      -0.0002319000
_diffrn_orient_matrix_UB_31      0.0164740000
_diffrn_orient_matrix_UB_32      -0.0952618000
_diffrn_orient_matrix_UB_33      -0.0009028000
_diffrn_radiation_collimation    0.3
_diffrn_radiation_monochromator  'Varimax focusing mirrors'
_diffrn_radiation_probe          x-ray
_diffrn_radiation_type           'Cu K\a'
_diffrn_radiation_wavelength     1.54184
_diffrn_reflns_av_R_equivalents  0.0311
_diffrn_reflns_av_unetI/netI     0.0239
_diffrn_reflns_Laue_measured_fraction_full 0.993
_diffrn_reflns_Laue_measured_fraction_max 0.992
_diffrn_reflns_limit_h_max       42
_diffrn_reflns_limit_h_min       -37
_diffrn_reflns_limit_k_max       14
_diffrn_reflns_limit_k_min       -17
_diffrn_reflns_limit_l_max       37
_diffrn_reflns_limit_l_min       -37
_diffrn_reflns_number            46808
_diffrn_reflns_point_group_measured_fraction_full 0.993
_diffrn_reflns_point_group_measured_fraction_max 0.992
_diffrn_reflns_theta_full        67.684
_diffrn_reflns_theta_max         68.248
_diffrn_reflns_theta_min         2.546
_diffrn_source                   'Rotating anode'
_diffrn_source_current           30.0
_diffrn_source_power             1.2
_diffrn_source_target            Cu
_diffrn_source_type              'Rigaku 007 HF'
_diffrn_source_voltage           40.0
_exptl_absorpt_coefficient_mu    19.505
_exptl_absorpt_correction_T_max  0.426
_exptl_absorpt_correction_T_min  0.109
_exptl_absorpt_correction_type   analytical
_exptl_absorpt_process_details
;
CrysAlisPro 1.171.41.122a (Rigaku Oxford Diffraction, 2021)
Analytical numeric absorption correction using a multifaceted crystal
model based on expressions derived by R.C. Clark & J.S. Reid.
(Clark, R. C. & Reid, J. S. (1995). Acta Cryst. A51, 887-897)
Empirical absorption correction using spherical harmonics,
implemented in SCALE3 ABSPACK scaling algorithm.
;
_exptl_crystal_colour            colourless
_exptl_crystal_colour_primary    colourless
_exptl_crystal_density_diffrn    1.479
_exptl_crystal_description       block
_exptl_crystal_F_000             6705
_exptl_crystal_size_max          0.23
_exptl_crystal_size_mid          0.12
_exptl_crystal_size_min          0.05
_refine_diff_density_max         1.104
_refine_diff_density_min         -0.791
_refine_diff_density_rms         0.165
_refine_ls_extinction_method     none
_refine_ls_goodness_of_fit_ref   1.047
_refine_ls_hydrogen_treatment    constr
_refine_ls_matrix_type           full
_refine_ls_number_parameters     993
_refine_ls_number_reflns         14532
_refine_ls_number_restraints     340
_refine_ls_restrained_S_all      1.043
_refine_ls_R_factor_all          0.0635
_refine_ls_R_factor_gt           0.0580
_refine_ls_shift/su_max          0.004
_refine_ls_shift/su_mean         0.000
_refine_ls_structure_factor_coef Fsqd
_refine_ls_weighting_details
'w=1/[\s^2^(Fo^2^)+(0.1243P)^2^+43.6006P] where P=(Fo^2^+2Fc^2^)/3'
_refine_ls_weighting_scheme      calc
_refine_ls_wR_factor_gt          0.1873
_refine_ls_wR_factor_ref         0.1913
_reflns_Friedel_coverage         0.000
_reflns_number_gt                12444
_reflns_number_total             14532
_reflns_threshold_expression     'I > 2\s(I)'
_cod_data_source_file            lt5059.cif
_cod_data_source_block           PBA-2-Methyl_CrystallineSponge
_cod_database_code               1569423
_shelx_shelxl_version_number     2018/3
_chemical_oxdiff_formula         '(Zn3 I6 N12 H24 C36) (C14 H14 O2)2 (C6 H12)3'
_chemical_oxdiff_usercomment     'Methoxy Biaryl 2'
_shelx_estimated_absorpt_t_max   0.442
_shelx_estimated_absorpt_t_min   0.094
_reflns_odcompleteness_completeness 99.17
_reflns_odcompleteness_iscentric 1
_reflns_odcompleteness_theta     68.13
_olex2_refinement_description
;
1. Fixed Uiso
 At 1.2 times of:
  All C(H) groups
 At 1.5 times of:
  All C(H,H,H) groups, All O(H) groups
2. Restrained distances
 O2A-C12A
 1.38 with sigma of 0.02
 C4C-C7C
 1.54 with sigma of 0.02
 C7B-C4B
 1.54 with sigma of 0.02
 C13B-C8B
 1.54 with sigma of 0.02
 C13C-C8C
 1.54 with sigma of 0.02
 O1A-C5A
 1.38 with sigma of 0.02
 O1C-C5C
 1.38 with sigma of 0.02
 C16A-C9A
 1.54 with sigma of 0.02
 C14B-C2B
 1.54 with sigma of 0.02
 C14C-C2C
 1.54 with sigma of 0.02
 O1B-C5B
 1.38 with sigma of 0.02
 C1B-C14B
 2.5 with sigma of 0.04
 C3B-C14B
 2.5 with sigma of 0.04
 C6B-O1B
 2.4 with sigma of 0.04
 C3C-C14C
 2.5 with sigma of 0.04
 C1C-C14C
 2.5 with sigma of 0.04
 C4B-O1B
 2.4 with sigma of 0.04
 C6C-O1C
 2.4 with sigma of 0.04
 C4C-O1C
 2.4 with sigma of 0.04
 C12C-C4C \\sim C4C-C8C
 with sigma of 0.04
 C3C-C7C \\sim C7C-C5C
 with sigma of 0.04
 I402-Zn41 \\sim I302-Zn31
 with sigma of 0.02
 I401-Zn41 \\sim I301-Zn31
 with sigma of 0.02
 I401-N301 \\sim I301-N301
 with sigma of 0.04
 Zn41-N301 \\sim Zn31-N301
 with sigma of 0.02
 I402-I401 \\sim I302-I301
 with sigma of 0.04
 I402-N301 \\sim I302-N301
 with sigma of 0.04
 I303-N306 \\sim I403-N306
 with sigma of 0.04
 I304-N306 \\sim I404-N306
 with sigma of 0.04
 I303-Zn32 \\sim I403-Zn42
 with sigma of 0.02
 I304-Zn32 \\sim I404-Zn42
 with sigma of 0.02
 I303-N307 \\sim I403-N307
 with sigma of 0.04
 Zn32-N306 \\sim Zn42-N306
 with sigma of 0.02
 I304-N307 \\sim I404-N307
 with sigma of 0.04
 Zn32-N307 \\sim Zn42-N307
 with sigma of 0.02
 I303-I304 \\sim I403-I404
 with sigma of 0.04
 I405-I406 \\sim I305-I306
 with sigma of 0.04
 I405-N312 \\sim I305-N312
 with sigma of 0.04
 I405-Zn43 \\sim I305-Zn33
 with sigma of 0.02
 I406-N312 \\sim I306-N312
 with sigma of 0.04
 I406-Zn43 \\sim I306-Zn33
 with sigma of 0.02
 Zn43-N312 \\sim Zn33-N312
 with sigma of 0.02
3. Restrained planarity
 C3C, C2C, C1C, C14C
 with sigma of 0.1
 C7C, C8C, C9C, C13C
 with sigma of 0.1
 C3B, C2B, C1B, C14B
 with sigma of 0.1
4. Uiso/Uaniso restraints and constraints
C16A \\sim C9A \\sim C10A \\sim C11A \\sim C12A \\sim C8A \\sim C7A \\sim C4A
\\sim C5A \\sim O1A \\sim C6A \\sim C1A \\sim C2A \\sim C3A \\sim C15A \\sim
C14A: within 1.7A with sigma of 0.04 and sigma for terminal atoms of 0.08
within 1.7A
C9C \\sim C7C \\sim C12C \\sim C8C \\sim C4C \\sim C11C \\sim C13C \\sim C5C
\\sim C3C \\sim C10C \\sim C6C \\sim O1C \\sim C2C \\sim C1C \\sim C14C: within
1.7A with sigma of 0.02 and sigma for terminal atoms of 0.04 within 1.7A
C2B \\sim O1B \\sim C5B \\sim C4B \\sim C6B \\sim C3B \\sim C7B \\sim C1B \\sim
C12B \\sim C8B \\sim C14B \\sim C11B \\sim C9B \\sim C13B \\sim C10B: within
1.7A with sigma of 0.04 and sigma for terminal atoms of 0.08 within 1.7A
5. Others
 1*[Sof(I303)+Sof(I304)+Sof(Zn32)]+1*[Sof(I403)+Sof(Zn42)+Sof(I404)]+1*
 [Sof(I503)+Sof(I504)+Sof(Zn52)]=1 with esd of 0.00001
 Sof(I303)=Sof(I304)=Sof(Zn32)=FVAR(1)
 Sof(I403)=Sof(Zn42)=Sof(I404)=FVAR(2)
 Sof(I503)=Sof(I504)=Sof(Zn52)=FVAR(3)
 Fixed Sof: I402(0.44653) I405(0.29791) I406(0.29791) I401(0.44653)
 Zn41(0.44653) Zn43(0.29791) I302(0.5337) Zn31(0.5337) I301(0.5337)
 I306(0.65565) Zn33(0.65565) I305(0.65565) I502(0.01975) I501(0.01975)
 Zn51(0.01975) I506(0.04642) I505(0.04642) Zn53(0.04642) C4A(0.49866)
 C3A(0.49866) H3A(0.24933) C2A(0.49866) H2A(0.24933) C1A(0.49866) H1A(0.49866)
 C6A(0.49866) H6A(0.49866) C5A(0.49866) H5A(0.24933) C7A(0.49866) C8A(0.49866)
 H8A(0.24933) C9A(0.49866) H9A(0.24933) C10A(0.49866) H10A(0.49866)
 C11A(0.49866) H11A(0.49866) C12A(0.49866) H12A(0.24933) O1A(0.24933)
 H1AA(0.24933) O2A(0.24933) H2AA(0.24933) C14A(0.24933) H14A(0.24933)
 H14B(0.24933) H14C(0.24933) C7C(0.3) C12C(0.3) H12C(0.3) C11C(0.3) H11C(0.3)
 C10C(0.3) H10C(0.3) C9C(0.3) H9C(0.3) C8C(0.3) C4C(0.3) C5C(0.3) C6C(0.3)
 H6C(0.3) C1C(0.3) H1C(0.3) C2C(0.3) C3C(0.3) H3C(0.3) O1C(0.3) H1CA(0.3)
 O1B(0.2) H1B(0.2) C14B(0.2) H14G(0.2) H14H(0.2) H14I(0.2) C4B(0.2) C3B(0.2)
 H3B(0.2) C2B(0.2) C1B(0.2) H1BA(0.2) C6B(0.2) H6B(0.2) C5B(0.2) C13C(0.3)
 H13D(0.3) H13E(0.3) H13F(0.3) C14C(0.3) H14D(0.3) H14E(0.3) H14F(0.3) C7B(0.2)
 C12B(0.2) H12B(0.2) C11B(0.2) H11B(0.2) C10B(0.2) H10B(0.2) C9B(0.2) H9B(0.2)
 C8B(0.2) C13B(0.2) H13G(0.2) H13H(0.2) H13I(0.2) C15A(0.24933) H15A(0.24933)
 H15B(0.24933) H15C(0.24933) C13A(0.24933) H13A(0.24933) H13B(0.24933)
 H13C(0.24933) C16A(0.24933) H16A(0.24933) H16B(0.24933) H16C(0.24933)
 Fixed Uiso: I501(0.08)
6.a Aromatic/amide H refined with riding coordinates:
 C304(H304), C329(H329), C336(H336), C328(H328), C318(H318), C314(H314),
 C315(H315), C320(H320), C311(H311), C319(H319), C305(H305), C317(H317),
 C312(H312), C302(H302), C331(H331), C335(H335), C313(H313), C310(H310),
 C330(H330), C301(H301), C332(H332), C333(H333), C323(H323), C322(H322),
 C3A(H3A), C2A(H2A), C1A(H1A), C6A(H6A), C5A(H5A), C8A(H8A), C9A(H9A),
 C10A(H10A), C11A(H11A), C12A(H12A), C12C(H12C), C11C(H11C), C10C(H10C),
 C9C(H9C), C6C(H6C), C1C(H1C), C3C(H3C), C3B(H3B), C1B(H1BA), C6B(H6B),
 C12B(H12B), C11B(H11B), C10B(H10B), C9B(H9B)
6.b Fitted hexagon refined as free rotating group:
 C4A(C3A,C2A,C1A,C6A,C5A), C7A(C8A,C9A,C10A,C11A,C12A), C7C(C12C,C11C,C10C,C9C,
 C8C), C4C(C5C,C6C,C1C,C2C,C3C), C4B(C3B,C2B,C1B,C6B,C5B), C7B(C12B,C11B,C10B,
 C9B,C8B)
6.c Tetrahedral OH refined with everything fixed:
 O1A(H1AA), O2A(H2AA), O1C(H1CA), O1B(H1B)
6.d Idealised Me refined with everything fixed:
 C14A(H14A,H14B,H14C), C14B(H14G,H14H,H14I), C13C(H13D,H13E,H13F), C14C(H14D,
 H14E,H14F), C13B(H13G,H13H,H13I), C15A(H15A,H15B,H15C), C13A(H13A,H13B,H13C),
 C16A(H16A,H16B,H16C)
;
_shelx_res_checksum              85738
_shelx_hkl_checksum              70876
_olex2_date_sample_data_collection 2022-09-05
_olex2_date_sample_submission    2022-09-05
_olex2_submission_original_sample_id 'Phenyl Biaryl Alcohol-2-Methyl'
_olex2_submission_special_instructions 'No special instructions were received'
_oxdiff_exptl_absorpt_empirical_details
;
Empirical correction (ABSPACK) includes:
- Absorption correction using spherical harmonics
- Frame scaling
- Detector area scaling
- B-factor correction
;
_oxdiff_exptl_absorpt_empirical_full_max 15.016
_oxdiff_exptl_absorpt_empirical_full_min 0.215