data_5QD8 # _model_server_result.job_id U69gg-LuaNWdbLKTV6Jt2Q _model_server_result.datetime_utc '2024-12-21 16:40:26' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5qd8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 5QD8 # _exptl.entry_id 5QD8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 557.807 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3S,14R,16S)-16-[(1R)-2-{[(4S)-2,2-dimethyl-6-(propan-2-yl)-3,4-dihydro-2H-1-benzopyran-4-yl]amino}-1-hydroxyethyl]-3,4,14-trimethyl-1,4-diazacyclohexadecane-2,5-dione _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 103.97 _cell.angle_gamma 90 _cell.entry_id 5QD8 _cell.length_a 82.678 _cell.length_b 105.557 _cell.length_c 99.941 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QD8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,G 1 1 B,E,H 2 1 C,F,I 3 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 171 A CYS 155 1_555 A SG CYS 375 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf2 A SG CYS 233 A CYS 217 1_555 A SG CYS 398 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf3 A SG CYS 285 A CYS 269 1_555 A SG CYS 335 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 B SG CYS 171 B CYS 155 1_555 B SG CYS 375 B CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 B SG CYS 233 B CYS 217 1_555 B SG CYS 398 B CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf6 B SG CYS 285 B CYS 269 1_555 B SG CYS 335 B CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf7 C SG CYS 171 C CYS 155 1_555 C SG CYS 375 C CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf8 C SG CYS 233 C CYS 217 1_555 C SG CYS 398 C CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf9 C SG CYS 285 C CYS 269 1_555 C SG CYS 335 C CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? # _chem_comp.formula 'C33 H55 N3 O4' _chem_comp.formula_weight 557.807 _chem_comp.id E6V _chem_comp.mon_nstd_flag . _chem_comp.name (3S,14R,16S)-16-[(1R)-2-{[(4S)-2,2-dimethyl-6-(propan-2-yl)-3,4-dihydro-2H-1-benzopyran-4-yl]amino}-1-hydroxyethyl]-3,4,14-trimethyl-1,4-diazacyclohexadecane-2,5-dione _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C97 C95 E6V sing 83 n n C90 C91 E6V doub 84 n y C90 C93 E6V sing 85 n y C96 C95 E6V sing 86 n n C95 C93 E6V sing 87 n n C91 C89 E6V sing 88 n y C93 C92 E6V doub 89 n y C89 O88 E6V sing 90 n n C89 C94 E6V doub 91 n y O88 C85 E6V sing 92 n n C92 C94 E6V sing 93 n y C87 C85 E6V sing 94 n n C94 C83 E6V sing 95 n n C85 C86 E6V sing 96 n n C85 C84 E6V sing 97 n n C83 C84 E6V sing 98 n n C83 N82 E6V sing 99 n n N82 C48 E6V sing 100 n n C48 C44 E6V sing 101 n n O46 C44 E6V sing 102 n n O76 C4 E6V doub 103 n n C44 C7 E6V sing 104 n n C7 C9 E6V sing 105 n n C7 N5 E6V sing 106 n n C40 C12 E6V sing 107 n n C4 N5 E6V sing 108 n n C4 C2 E6V sing 109 n n C9 C12 E6V sing 110 n n C77 C2 E6V sing 111 n n C12 C14 E6V sing 112 n n C2 N1 E6V sing 113 n n C81 N1 E6V sing 114 n n C14 C17 E6V sing 115 n n N1 C38 E6V sing 116 n n C17 C20 E6V sing 117 n n C38 O39 E6V doub 118 n n C38 C35 E6V sing 119 n n C20 C23 E6V sing 120 n n C35 C32 E6V sing 121 n n C23 C26 E6V sing 122 n n C32 C29 E6V sing 123 n n C29 C26 E6V sing 124 n n C2 H1 E6V sing 125 n n C7 H2 E6V sing 126 n n C9 H3 E6V sing 127 n n C9 H4 E6V sing 128 n n C12 H5 E6V sing 129 n n C14 H6 E6V sing 130 n n C14 H7 E6V sing 131 n n C20 H8 E6V sing 132 n n C20 H9 E6V sing 133 n n C32 H10 E6V sing 134 n n C32 H11 E6V sing 135 n n C35 H12 E6V sing 136 n n C35 H13 E6V sing 137 n n C17 H14 E6V sing 138 n n C17 H15 E6V sing 139 n n C23 H16 E6V sing 140 n n C23 H17 E6V sing 141 n n C26 H18 E6V sing 142 n n C26 H19 E6V sing 143 n n C29 H20 E6V sing 144 n n C29 H21 E6V sing 145 n n C40 H22 E6V sing 146 n n C40 H23 E6V sing 147 n n C40 H24 E6V sing 148 n n C44 H25 E6V sing 149 n n C48 H26 E6V sing 150 n n C48 H27 E6V sing 151 n n C77 H28 E6V sing 152 n n C77 H29 E6V sing 153 n n C77 H30 E6V sing 154 n n C81 H31 E6V sing 155 n n C81 H32 E6V sing 156 n n C81 H33 E6V sing 157 n n C83 H34 E6V sing 158 n n C84 H35 E6V sing 159 n n C84 H36 E6V sing 160 n n C86 H37 E6V sing 161 n n C86 H38 E6V sing 162 n n C86 H39 E6V sing 163 n n C87 H40 E6V sing 164 n n C87 H41 E6V sing 165 n n C87 H42 E6V sing 166 n n C90 H43 E6V sing 167 n n C91 H44 E6V sing 168 n n C92 H45 E6V sing 169 n n C95 H46 E6V sing 170 n n C96 H47 E6V sing 171 n n C96 H48 E6V sing 172 n n C96 H49 E6V sing 173 n n C97 H50 E6V sing 174 n n C97 H51 E6V sing 175 n n C97 H52 E6V sing 176 n n N5 H53 E6V sing 177 n n N82 H54 E6V sing 178 n n O46 H56 E6V sing 179 n n # _atom_sites.entry_id 5QD8 _atom_sites.fract_transf_matrix[1][1] 0.012095 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003009 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009474 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.010311 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code D 2 E6V A 1 401 401 E6V E6V . E 2 E6V B 1 401 401 E6V E6V . F 2 E6V C 1 401 401 E6V E6V . G 3 HOH A 1 501 501 HOH HOH . G 3 HOH A 2 502 502 HOH HOH . G 3 HOH A 3 503 503 HOH HOH . G 3 HOH A 4 504 504 HOH HOH . G 3 HOH A 5 505 505 HOH HOH . G 3 HOH A 6 506 506 HOH HOH . G 3 HOH A 7 507 507 HOH HOH . G 3 HOH A 8 508 508 HOH HOH . G 3 HOH A 9 509 509 HOH HOH . G 3 HOH A 10 510 510 HOH HOH . G 3 HOH A 11 511 511 HOH HOH . G 3 HOH A 12 512 512 HOH HOH . G 3 HOH A 13 513 513 HOH HOH . G 3 HOH A 14 514 514 HOH HOH . G 3 HOH A 15 515 515 HOH HOH . G 3 HOH A 16 516 516 HOH HOH . G 3 HOH A 17 517 517 HOH HOH . G 3 HOH A 18 518 518 HOH HOH . G 3 HOH A 19 519 519 HOH HOH . G 3 HOH A 20 520 520 HOH HOH . G 3 HOH A 21 521 521 HOH HOH . G 3 HOH A 22 522 522 HOH HOH . G 3 HOH A 23 523 523 HOH HOH . G 3 HOH A 24 524 524 HOH HOH . G 3 HOH A 25 525 525 HOH HOH . G 3 HOH A 26 526 526 HOH HOH . G 3 HOH A 27 527 527 HOH HOH . G 3 HOH A 28 528 528 HOH HOH . G 3 HOH A 29 529 529 HOH HOH . G 3 HOH A 30 530 530 HOH HOH . G 3 HOH A 31 531 531 HOH HOH . H 3 HOH B 1 501 501 HOH HOH . H 3 HOH B 2 502 502 HOH HOH . H 3 HOH B 3 503 503 HOH HOH . H 3 HOH B 4 504 504 HOH HOH . H 3 HOH B 5 505 505 HOH HOH . H 3 HOH B 6 506 506 HOH HOH . H 3 HOH B 7 507 507 HOH HOH . H 3 HOH B 8 508 508 HOH HOH . H 3 HOH B 9 509 509 HOH HOH . H 3 HOH B 10 510 510 HOH HOH . H 3 HOH B 11 511 511 HOH HOH . H 3 HOH B 12 512 512 HOH HOH . H 3 HOH B 13 513 513 HOH HOH . H 3 HOH B 14 514 514 HOH HOH . H 3 HOH B 15 515 515 HOH HOH . H 3 HOH B 16 516 516 HOH HOH . H 3 HOH B 17 517 517 HOH HOH . H 3 HOH B 18 518 518 HOH HOH . H 3 HOH B 19 519 519 HOH HOH . H 3 HOH B 20 520 520 HOH HOH . H 3 HOH B 21 521 521 HOH HOH . H 3 HOH B 22 522 522 HOH HOH . H 3 HOH B 23 523 523 HOH HOH . H 3 HOH B 24 524 524 HOH HOH . H 3 HOH B 25 525 525 HOH HOH . H 3 HOH B 26 526 526 HOH HOH . H 3 HOH B 27 527 527 HOH HOH . H 3 HOH B 28 528 528 HOH HOH . H 3 HOH B 29 529 529 HOH HOH . I 3 HOH C 1 501 501 HOH HOH . I 3 HOH C 2 502 502 HOH HOH . I 3 HOH C 3 503 503 HOH HOH . I 3 HOH C 4 504 504 HOH HOH . I 3 HOH C 5 505 505 HOH HOH . I 3 HOH C 6 506 506 HOH HOH . I 3 HOH C 7 507 507 HOH HOH . I 3 HOH C 8 508 508 HOH HOH . I 3 HOH C 9 509 509 HOH HOH . I 3 HOH C 10 510 510 HOH HOH . I 3 HOH C 11 511 511 HOH HOH . I 3 HOH C 12 512 512 HOH HOH . I 3 HOH C 13 513 513 HOH HOH . I 3 HOH C 14 514 514 HOH HOH . I 3 HOH C 15 515 515 HOH HOH . I 3 HOH C 16 516 516 HOH HOH . I 3 HOH C 17 517 517 HOH HOH . I 3 HOH C 18 518 518 HOH HOH . I 3 HOH C 19 519 519 HOH HOH . I 3 HOH C 20 520 520 HOH HOH . I 3 HOH C 21 521 521 HOH HOH . I 3 HOH C 22 522 522 HOH HOH . I 3 HOH C 23 523 523 HOH HOH . I 3 HOH C 24 524 524 HOH HOH . I 3 HOH C 25 525 525 HOH HOH . I 3 HOH C 26 526 526 HOH HOH . I 3 HOH C 27 527 527 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C2 E6V . . . E 2 17.65 5.199 -21.125 1 49.94 ? C2 E6V 401 B 1 HETATM 2 C C7 E6V . . . E 2 16 8.322 -19.709 1 41.17 ? C7 E6V 401 B 1 HETATM 3 C C9 E6V . . . E 2 15.57 8.342 -18.257 1 35.74 ? C9 E6V 401 B 1 HETATM 4 C C12 E6V . . . E 2 15.046 7.005 -17.739 1 44.57 ? C12 E6V 401 B 1 HETATM 5 C C14 E6V . . . E 2 14.69 7.122 -16.242 1 43.63 ? C14 E6V 401 B 1 HETATM 6 C C20 E6V . . . E 2 15.363 4.757 -15.583 1 49.41 ? C20 E6V 401 B 1 HETATM 7 C C32 E6V . . . E 2 18.494 3.446 -16.895 1 45.18 ? C32 E6V 401 B 1 HETATM 8 C C35 E6V . . . E 2 18.258 2.746 -18.268 1 38.67 ? C35 E6V 401 B 1 HETATM 9 C C17 E6V . . . E 2 14.277 5.832 -15.564 1 46.71 ? C17 E6V 401 B 1 HETATM 10 C C23 E6V . . . E 2 16.611 5.1 -14.76 1 42.36 ? C23 E6V 401 B 1 HETATM 11 C C26 E6V . . . E 2 17.547 3.883 -14.542 1 46.62 ? C26 E6V 401 B 1 HETATM 12 C C29 E6V . . . E 2 17.621 2.92 -15.744 1 47.42 ? C29 E6V 401 B 1 HETATM 13 C C38 E6V . . . E 2 18.527 3.693 -19.4 1 50.77 ? C38 E6V 401 B 1 HETATM 14 C C4 E6V . . . E 2 16.658 6.374 -21.013 1 53.05 ? C4 E6V 401 B 1 HETATM 15 C C40 E6V . . . E 2 13.85 6.547 -18.558 1 47.55 ? C40 E6V 401 B 1 HETATM 16 C C44 E6V . . . E 2 16.776 9.618 -19.969 1 44.71 ? C44 E6V 401 B 1 HETATM 17 C C48 E6V . . . E 2 17.043 9.904 -21.46 1 42.05 ? C48 E6V 401 B 1 HETATM 18 C C77 E6V . . . E 2 17.592 4.537 -22.491 0.5 43.75 ? C77 E6V 401 B 1 HETATM 19 C C81 E6V . . . E 2 16.088 3.906 -19.666 1 29.37 ? C81 E6V 401 B 1 HETATM 20 C C83 E6V . . . E 2 17.322 11.794 -23.088 1 47.22 ? C83 E6V 401 B 1 HETATM 21 C C84 E6V . . . E 2 18.169 10.925 -24.017 1 40.22 ? C84 E6V 401 B 1 HETATM 22 C C85 E6V . . . E 2 17.93 11.257 -25.499 1 45.08 ? C85 E6V 401 B 1 HETATM 23 C C86 E6V . . . E 2 18.719 10.347 -26.433 1 33.57 ? C86 E6V 401 B 1 HETATM 24 C C87 E6V . . . E 2 18.207 12.721 -25.814 1 38.4 ? C87 E6V 401 B 1 HETATM 25 C C89 E6V . . . E 2 15.587 11.521 -24.949 1 38.29 ? C89 E6V 401 B 1 HETATM 26 C C90 E6V . . . E 2 13.301 12.177 -24.647 1 40.16 ? C90 E6V 401 B 1 HETATM 27 C C91 E6V . . . E 2 14.299 11.649 -25.453 1 36.37 ? C91 E6V 401 B 1 HETATM 28 C C92 E6V . . . E 2 14.873 12.437 -22.862 1 40.94 ? C92 E6V 401 B 1 HETATM 29 C C93 E6V . . . E 2 13.573 12.566 -23.339 1 45.18 ? C93 E6V 401 B 1 HETATM 30 C C94 E6V . . . E 2 15.901 11.906 -23.643 1 45.7 ? C94 E6V 401 B 1 HETATM 31 C C95 E6V . . . E 2 12.511 13.179 -22.49 1 46.3 ? C95 E6V 401 B 1 HETATM 32 C C96 E6V . . . E 2 12.928 14.615 -22.176 0.5 44.22 ? C96 E6V 401 B 1 HETATM 33 C C97 E6V . . . E 2 11.167 13.205 -23.225 0.5 49.81 ? C97 E6V 401 B 1 HETATM 34 N N1 E6V . . . E 2 17.456 4.241 -20.031 1 51.68 ? N1 E6V 401 B 1 HETATM 35 N N5 E6V . . . E 2 16.829 7.162 -19.956 1 51.14 ? N5 E6V 401 B 1 HETATM 36 N N82 E6V . . . E 2 17.244 11.353 -21.657 1 46.4 ? N82 E6V 401 B 1 HETATM 37 O O39 E6V . . . E 2 19.676 3.982 -19.708 1 46.62 ? O39 E6V 401 B 1 HETATM 38 O O46 E6V . . . E 2 16.052 10.713 -19.387 1 50.23 ? O46 E6V 401 B 1 HETATM 39 O O76 E6V . . . E 2 15.789 6.57 -21.859 1 52.02 ? O76 E6V 401 B 1 HETATM 40 O O88 E6V . . . E 2 16.513 11.002 -25.801 1 46.36 ? O88 E6V 401 B 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 40 #