data_5NM5 # _model_server_result.job_id V9Jwu-BfZFy3i7qhYUcdxQ _model_server_result.datetime_utc '2024-11-26 11:18:54' _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 5nm5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":502}' # _entry.id 5NM5 # _exptl.entry_id 5NM5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 399.437 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(7S)-1,2,3,10-tetramethoxy-9-oxo-6,7-dihydro-5H-benzo[d]heptalen-7-yl]ethanamide _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.32 _cell.angle_gamma 90 _cell.entry_id 5NM5 _cell.length_a 72.92 _cell.length_b 85.02 _cell.length_c 84.34 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NM5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 D O3G GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc2 D O2B GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc3 E MG MG . A MG 502 1_555 H O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc4 E MG MG . A MG 502 1_555 H O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc5 E MG MG . A MG 502 1_555 H O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc6 E MG MG . A MG 502 1_555 H O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? # _chem_comp.formula 'C22 H25 N O6' _chem_comp.formula_weight 399.437 _chem_comp.id LOC _chem_comp.mon_nstd_flag . _chem_comp.name N-[(7S)-1,2,3,10-tetramethoxy-9-oxo-6,7-dihydro-5H-benzo[d]heptalen-7-yl]ethanamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms COLCHICINE # 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 O4 C12 LOC doub 289 n n C12 C13 LOC sing 290 n n C12 N1 LOC sing 291 n n N1 C11 LOC sing 292 n n C11 C14 LOC sing 293 n n C11 C10 LOC sing 294 n n C14 C15 LOC doub 295 n n C14 C21 LOC sing 296 n n C15 C16 LOC sing 297 n n C10 C9 LOC sing 298 n n C9 C8 LOC sing 299 n n C8 C7 LOC doub 300 n y C8 C22 LOC sing 301 n y C7 C5 LOC sing 302 n y C5 C3 LOC doub 303 n y C5 O3 LOC sing 304 n n C3 C1 LOC sing 305 n y C3 O2 LOC sing 306 n n C1 O1 LOC sing 307 n n C1 C22 LOC doub 308 n y O1 C2 LOC sing 309 n n O2 C4 LOC sing 310 n n O3 C6 LOC sing 311 n n C22 C21 LOC sing 312 n n C21 C20 LOC doub 313 n n C20 C19 LOC sing 314 n n C19 C17 LOC doub 315 n n C17 C16 LOC sing 316 n n C17 O6 LOC sing 317 n n C16 O5 LOC doub 318 n n O6 C18 LOC sing 319 n n C13 H13 LOC sing 320 n n C13 H13A LOC sing 321 n n C13 H13B LOC sing 322 n n N1 HN1 LOC sing 323 n n C11 H11 LOC sing 324 n n C15 H15 LOC sing 325 n n C10 H10 LOC sing 326 n n C10 H10A LOC sing 327 n n C9 H9 LOC sing 328 n n C9 H9A LOC sing 329 n n C7 H7 LOC sing 330 n n C2 H2 LOC sing 331 n n C2 H2A LOC sing 332 n n C2 H2B LOC sing 333 n n C4 H4 LOC sing 334 n n C4 H4A LOC sing 335 n n C4 H4B LOC sing 336 n n C6 H6 LOC sing 337 n n C6 H6A LOC sing 338 n n C6 H6B LOC sing 339 n n C20 H20 LOC sing 340 n n C19 H19 LOC sing 341 n n C18 H18 LOC sing 342 n n C18 H18A LOC sing 343 n n C18 H18B LOC sing 344 n n # _atom_sites.entry_id 5NM5 _atom_sites.fract_transf_matrix[1][1] 0.013714 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001762 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011762 _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] 0.011954 _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 4 GTP A 1 501 1 GTP GTP . E 5 MG A 1 502 503 MG MG . F 6 GDP B 1 501 1 GDP GDP . G 7 LOC B 1 502 1 LOC LOC . H 8 HOH A 1 601 38 HOH HOH . H 8 HOH A 2 602 7 HOH HOH . H 8 HOH A 3 603 8 HOH HOH . H 8 HOH A 4 604 13 HOH HOH . H 8 HOH A 5 605 41 HOH HOH . H 8 HOH A 6 606 25 HOH HOH . H 8 HOH A 7 607 18 HOH HOH . H 8 HOH A 8 608 10 HOH HOH . H 8 HOH A 9 609 12 HOH HOH . H 8 HOH A 10 610 29 HOH HOH . H 8 HOH A 11 611 11 HOH HOH . H 8 HOH A 12 612 26 HOH HOH . H 8 HOH A 13 613 33 HOH HOH . H 8 HOH A 14 614 48 HOH HOH . H 8 HOH A 15 615 30 HOH HOH . H 8 HOH A 16 616 3 HOH HOH . H 8 HOH A 17 617 32 HOH HOH . H 8 HOH A 18 618 30 HOH HOH . H 8 HOH A 19 619 10 HOH HOH . H 8 HOH A 20 620 7 HOH HOH . H 8 HOH A 21 621 39 HOH HOH . H 8 HOH A 22 622 41 HOH HOH . H 8 HOH A 23 623 27 HOH HOH . H 8 HOH A 24 624 33 HOH HOH . H 8 HOH A 25 625 4 HOH HOH . H 8 HOH A 26 626 28 HOH HOH . H 8 HOH A 27 627 20 HOH HOH . H 8 HOH A 28 628 40 HOH HOH . H 8 HOH A 29 629 43 HOH HOH . H 8 HOH A 30 630 47 HOH HOH . H 8 HOH A 31 631 50 HOH HOH . I 8 HOH B 1 601 37 HOH HOH . I 8 HOH B 2 602 22 HOH HOH . I 8 HOH B 3 603 36 HOH HOH . I 8 HOH B 4 604 2 HOH HOH . I 8 HOH B 5 605 12 HOH HOH . I 8 HOH B 6 606 6 HOH HOH . I 8 HOH B 7 607 11 HOH HOH . I 8 HOH B 8 608 53 HOH HOH . I 8 HOH B 9 609 16 HOH HOH . I 8 HOH B 10 610 38 HOH HOH . I 8 HOH B 11 611 8 HOH HOH . I 8 HOH B 12 612 1 HOH HOH . I 8 HOH B 13 613 23 HOH HOH . I 8 HOH B 14 614 14 HOH HOH . I 8 HOH B 15 615 37 HOH HOH . I 8 HOH B 16 616 22 HOH HOH . I 8 HOH B 17 617 26 HOH HOH . I 8 HOH B 18 618 46 HOH HOH . I 8 HOH B 19 619 49 HOH HOH . I 8 HOH B 20 620 15 HOH HOH . I 8 HOH B 21 621 18 HOH HOH . I 8 HOH B 22 622 45 HOH HOH . I 8 HOH B 23 623 2 HOH HOH . I 8 HOH B 24 624 52 HOH HOH . I 8 HOH B 25 625 44 HOH HOH . I 8 HOH B 26 626 32 HOH HOH . I 8 HOH B 27 627 5 HOH HOH . J 8 HOH F 1 201 35 HOH HOH . J 8 HOH F 2 202 21 HOH HOH . J 8 HOH F 3 203 23 HOH HOH . J 8 HOH F 4 204 24 HOH HOH . J 8 HOH F 5 205 36 HOH HOH . J 8 HOH F 6 206 51 HOH HOH . J 8 HOH F 7 207 9 HOH HOH . J 8 HOH F 8 208 13 HOH HOH . J 8 HOH F 9 209 3 HOH HOH . J 8 HOH F 10 210 35 HOH HOH . J 8 HOH F 11 211 17 HOH HOH . J 8 HOH F 12 212 42 HOH HOH . J 8 HOH F 13 213 34 HOH HOH . J 8 HOH F 14 214 19 HOH HOH . J 8 HOH F 15 215 29 HOH HOH . J 8 HOH F 16 216 31 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 O O4 LOC . . . G 7 89.858 17.132 21.104 1 73.15 ? O4 LOC 502 B 1 HETATM 2 C C12 LOC . . . G 7 90.615 18.097 21.065 1 75.01 ? C12 LOC 502 B 1 HETATM 3 C C13 LOC . . . G 7 91.398 18.458 19.829 1 81.07 ? C13 LOC 502 B 1 HETATM 4 N N1 LOC . . . G 7 90.824 18.903 22.176 1 73.31 ? N1 LOC 502 B 1 HETATM 5 C C11 LOC . . . G 7 90.079 18.706 23.423 1 69.18 ? C11 LOC 502 B 1 HETATM 6 C C14 LOC . . . G 7 88.666 19.282 23.398 1 71.31 ? C14 LOC 502 B 1 HETATM 7 C C15 LOC . . . G 7 88.402 20.304 22.572 1 76.95 ? C15 LOC 502 B 1 HETATM 8 C C10 LOC . . . G 7 90.86 19.362 24.58 1 67.69 ? C10 LOC 502 B 1 HETATM 9 C C9 LOC . . . G 7 90.058 19.374 25.886 1 68.36 ? C9 LOC 502 B 1 HETATM 10 C C8 LOC . . . G 7 89.402 18.052 26.107 1 60.69 ? C8 LOC 502 B 1 HETATM 11 C C7 LOC . . . G 7 89.883 17.18 27.078 1 61.8 ? C7 LOC 502 B 1 HETATM 12 C C5 LOC . . . G 7 89.26 15.947 27.261 1 65.27 ? C5 LOC 502 B 1 HETATM 13 C C3 LOC . . . G 7 88.206 15.566 26.417 1 64.43 ? C3 LOC 502 B 1 HETATM 14 C C1 LOC . . . G 7 87.773 16.435 25.42 1 61.11 ? C1 LOC 502 B 1 HETATM 15 O O1 LOC . . . G 7 86.741 16.05 24.608 1 65.14 ? O1 LOC 502 B 1 HETATM 16 C C2 LOC . . . G 7 87.179 15.194 23.573 1 64.51 ? C2 LOC 502 B 1 HETATM 17 O O2 LOC . . . G 7 87.621 14.337 26.546 1 69.45 ? O2 LOC 502 B 1 HETATM 18 C C4 LOC . . . G 7 86.423 14.434 27.292 1 70.99 ? C4 LOC 502 B 1 HETATM 19 O O3 LOC . . . G 7 89.559 15.041 28.229 1 68.11 ? O3 LOC 502 B 1 HETATM 20 C C6 LOC . . . G 7 90.719 15.284 28.99 1 66.68 ? C6 LOC 502 B 1 HETATM 21 C C22 LOC . . . G 7 88.323 17.712 25.298 1 60.93 ? C22 LOC 502 B 1 HETATM 22 C C21 LOC . . . G 7 87.759 18.679 24.346 1 65.45 ? C21 LOC 502 B 1 HETATM 23 C C20 LOC . . . G 7 86.435 18.89 24.476 1 63.37 ? C20 LOC 502 B 1 HETATM 24 C C19 LOC . . . G 7 85.534 19.643 23.667 1 67.46 ? C19 LOC 502 B 1 HETATM 25 C C17 LOC . . . G 7 85.844 20.563 22.739 1 75.48 ? C17 LOC 502 B 1 HETATM 26 C C16 LOC . . . G 7 87.182 21.074 22.354 1 79.37 ? C16 LOC 502 B 1 HETATM 27 O O5 LOC . . . G 7 87.252 22.158 21.792 1 83.12 ? O5 LOC 502 B 1 HETATM 28 O O6 LOC . . . G 7 84.93 21.252 22 1 77.09 ? O6 LOC 502 B 1 HETATM 29 C C18 LOC . . . G 7 83.575 20.903 22.113 1 78.27 ? C18 LOC 502 B 1 HETATM 30 H H13 LOC . . . G 7 92.354 17.914 19.804 1 80.77 ? H13 LOC 502 B 1 HETATM 31 H H13A LOC . . . G 7 91.628 19.529 19.727 1 81.9 ? H13A LOC 502 B 1 HETATM 32 H H13B LOC . . . G 7 90.838 18.177 18.924 1 81.86 ? H13B LOC 502 B 1 HETATM 33 H HN1 LOC . . . G 7 91.414 19.724 22.097 1 73.82 ? HN1 LOC 502 B 1 HETATM 34 H H11 LOC . . . G 7 90.015 17.591 23.585 1 69.32 ? H11 LOC 502 B 1 HETATM 35 H H15 LOC . . . G 7 89.205 20.695 21.926 1 77.22 ? H15 LOC 502 B 1 HETATM 36 H H10 LOC . . . G 7 91.151 20.406 24.331 1 67.43 ? H10 LOC 502 B 1 HETATM 37 H H10A LOC . . . G 7 91.823 18.83 24.731 1 65.88 ? H10A LOC 502 B 1 HETATM 38 H H9 LOC . . . G 7 90.724 19.641 26.733 1 68.75 ? H9 LOC 502 B 1 HETATM 39 H H9A LOC . . . G 7 89.297 20.186 25.876 1 68.31 ? H9A LOC 502 B 1 HETATM 40 H H7 LOC . . . G 7 90.734 17.485 27.692 1 62.25 ? H7 LOC 502 B 1 HETATM 41 H H2 LOC . . . G 7 87.619 14.256 23.949 1 64.33 ? H2 LOC 502 B 1 HETATM 42 H H2A LOC . . . G 7 87.9 15.682 22.896 1 64.09 ? H2A LOC 502 B 1 HETATM 43 H H2B LOC . . . G 7 86.259 14.967 23.015 1 64.73 ? H2B LOC 502 B 1 HETATM 44 H H4 LOC . . . G 7 85.912 13.474 27.14 1 70.68 ? H4 LOC 502 B 1 HETATM 45 H H4A LOC . . . G 7 86.623 14.575 28.367 1 70.42 ? H4A LOC 502 B 1 HETATM 46 H H4B LOC . . . G 7 85.744 15.234 26.951 1 71.36 ? H4B LOC 502 B 1 HETATM 47 H H6 LOC . . . G 7 90.633 16.176 29.634 1 66.94 ? H6 LOC 502 B 1 HETATM 48 H H6A LOC . . . G 7 90.795 14.393 29.633 1 66.27 ? H6A LOC 502 B 1 HETATM 49 H H6B LOC . . . G 7 91.637 15.363 28.384 1 66.74 ? H6B LOC 502 B 1 HETATM 50 H H20 LOC . . . G 7 85.921 18.381 25.31 1 63.7 ? H20 LOC 502 B 1 HETATM 51 H H19 LOC . . . G 7 84.483 19.4 23.871 1 67.75 ? H19 LOC 502 B 1 HETATM 52 H H18 LOC . . . G 7 83.161 21.071 23.121 1 77.91 ? H18 LOC 502 B 1 HETATM 53 H H18A LOC . . . G 7 83.371 19.867 21.798 1 78.63 ? H18A LOC 502 B 1 HETATM 54 H H18B LOC . . . G 7 83.081 21.591 21.41 1 78.48 ? H18B LOC 502 B 1 # _model_server_stats.io_time_ms 39 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 414 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 54 #