data_6G6Z # _model_server_result.job_id E_xLTV-gMdP-8J8-sNGCng _model_server_result.datetime_utc '2024-10-22 03:34:31' _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 6g6z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6G6Z # _exptl.entry_id 6G6Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 277.342 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (~{N}~{Z})-~{N}-[(5~{S})-4-ethanoyl-5-methyl-5-phenyl-1,3,4-thiadiazolidin-2-ylidene]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 90 _cell.angle_gamma 120 _cell.entry_id 6G6Z _cell.length_a 100.295 _cell.length_b 100.295 _cell.length_c 185.372 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G6Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id D _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 A OG1 THR 114 A THR 112 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc2 B O3B ADP . A ADP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc3 C MG MG . A MG 402 1_555 E O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc4 C MG MG . A MG 402 1_555 E O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.858 ? metalc ? metalc5 C MG MG . A MG 402 1_555 E O HOH . A HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? metalc ? metalc6 C MG MG . A MG 402 1_555 E O HOH . A HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? # _chem_comp.formula 'C13 H15 N3 O2 S' _chem_comp.formula_weight 277.342 _chem_comp.id EOK _chem_comp.mon_nstd_flag . _chem_comp.name (~{N}~{Z})-~{N}-[(5~{S})-4-ethanoyl-5-methyl-5-phenyl-1,3,4-thiadiazolidin-2-ylidene]ethanamide _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 C13 C12 EOK sing 127 n n C12 O14 EOK doub 128 n n C12 N11 EOK sing 129 n n N11 C10 EOK doub 130 n n C10 S09 EOK sing 131 n n C10 N15 EOK sing 132 n n S09 C02 EOK sing 133 n n N15 N16 EOK sing 134 n n C01 C02 EOK sing 135 n n C02 N16 EOK sing 136 n n C02 C03 EOK sing 137 n n N16 C17 EOK sing 138 n n C03 C04 EOK doub 139 n y C03 C08 EOK sing 140 n y C18 C17 EOK sing 141 n n C17 O19 EOK doub 142 n n C04 C05 EOK sing 143 n y C08 C07 EOK doub 144 n y C07 C06 EOK sing 145 n y C05 C06 EOK doub 146 n y C13 H1 EOK sing 147 n n C13 H2 EOK sing 148 n n C13 H3 EOK sing 149 n n C01 H4 EOK sing 150 n n C01 H5 EOK sing 151 n n C01 H6 EOK sing 152 n n C04 H7 EOK sing 153 n n C05 H8 EOK sing 154 n n C06 H9 EOK sing 155 n n C07 H10 EOK sing 156 n n C08 H11 EOK sing 157 n n C18 H12 EOK sing 158 n n C18 H13 EOK sing 159 n n C18 H14 EOK sing 160 n n N15 H15 EOK sing 161 n n # _atom_sites.entry_id 6G6Z _atom_sites.fract_transf_matrix[1][1] 0.009971 _atom_sites.fract_transf_matrix[1][2] 0.005757 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011513 _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] 0.005395 _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 B 2 ADP A 1 401 402 ADP ADP . C 3 MG A 1 402 403 MG MG . D 4 EOK A 1 403 404 EOK EOK . E 5 HOH A 1 501 502 HOH HOH . E 5 HOH A 2 502 503 HOH HOH . E 5 HOH A 3 503 504 HOH HOH . E 5 HOH A 4 504 505 HOH HOH . E 5 HOH A 5 505 509 HOH HOH . E 5 HOH A 6 506 510 HOH HOH . E 5 HOH A 7 507 512 HOH HOH . E 5 HOH A 8 508 513 HOH HOH . E 5 HOH A 9 509 514 HOH HOH . E 5 HOH A 10 510 515 HOH HOH . E 5 HOH A 11 511 517 HOH HOH . E 5 HOH A 12 512 520 HOH HOH . E 5 HOH A 13 513 523 HOH HOH . E 5 HOH A 14 514 524 HOH HOH . E 5 HOH A 15 515 526 HOH HOH . E 5 HOH A 16 516 527 HOH HOH . E 5 HOH A 17 517 528 HOH HOH . E 5 HOH A 18 518 529 HOH HOH . E 5 HOH A 19 519 530 HOH HOH . E 5 HOH A 20 520 531 HOH HOH . E 5 HOH A 21 521 533 HOH HOH . E 5 HOH A 22 522 534 HOH HOH . E 5 HOH A 23 523 535 HOH HOH . E 5 HOH A 24 524 536 HOH HOH . E 5 HOH A 25 525 537 HOH HOH . E 5 HOH A 26 526 538 HOH HOH . E 5 HOH A 27 527 539 HOH HOH . E 5 HOH A 28 528 541 HOH HOH . E 5 HOH A 29 529 542 HOH HOH . E 5 HOH A 30 530 543 HOH HOH . E 5 HOH A 31 531 532 HOH HOH . E 5 HOH A 32 532 545 HOH HOH . E 5 HOH A 33 533 546 HOH HOH . E 5 HOH A 34 534 547 HOH HOH . E 5 HOH A 35 535 548 HOH HOH . E 5 HOH A 36 536 549 HOH HOH . E 5 HOH A 37 537 544 HOH HOH . E 5 HOH A 38 538 551 HOH HOH . E 5 HOH A 39 539 552 HOH HOH . E 5 HOH A 40 540 553 HOH HOH . E 5 HOH A 41 541 554 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 C10 EOK . . . D 4 -16.751 -24.14 6.222 1 85.77 ? C10 EOK 403 A 1 HETATM 2 C C13 EOK . . . D 4 -13.907 -26.261 4.393 1 76.07 ? C13 EOK 403 A 1 HETATM 3 C C17 EOK . . . D 4 -18.905 -21.401 8.098 1 81.82 ? C17 EOK 403 A 1 HETATM 4 C C01 EOK . . . D 4 -20.197 -23.501 5.851 1 71.41 ? C01 EOK 403 A 1 HETATM 5 C C02 EOK . . . D 4 -19.245 -23.884 6.981 1 81.36 ? C02 EOK 403 A 1 HETATM 6 C C03 EOK . . . D 4 -20.141 -24.33 8.214 1 71.65 ? C03 EOK 403 A 1 HETATM 7 C C04 EOK . . . D 4 -19.599 -24.478 9.482 1 70.57 ? C04 EOK 403 A 1 HETATM 8 C C05 EOK . . . D 4 -20.375 -24.842 10.562 1 69.35 ? C05 EOK 403 A 1 HETATM 9 C C06 EOK . . . D 4 -21.716 -25.076 10.37 1 67.21 ? C06 EOK 403 A 1 HETATM 10 C C07 EOK . . . D 4 -22.276 -24.912 9.117 1 70.22 ? C07 EOK 403 A 1 HETATM 11 C C08 EOK . . . D 4 -21.49 -24.546 8.036 1 70.73 ? C08 EOK 403 A 1 HETATM 12 C C12 EOK . . . D 4 -15.238 -25.87 5.044 1 83.06 ? C12 EOK 403 A 1 HETATM 13 C C18 EOK . . . D 4 -17.986 -20.211 8.391 1 90.6 ? C18 EOK 403 A 1 HETATM 14 N N11 EOK . . . D 4 -15.469 -24.541 5.583 1 83.13 ? N11 EOK 403 A 1 HETATM 15 N N15 EOK . . . D 4 -16.976 -22.734 6.803 1 84.68 ? N15 EOK 403 A 1 HETATM 16 N N16 EOK . . . D 4 -18.423 -22.579 7.378 1 75.67 ? N16 EOK 403 A 1 HETATM 17 O O14 EOK . . . D 4 -16.105 -26.667 5.11 1 81.71 ? O14 EOK 403 A 1 HETATM 18 O O19 EOK . . . D 4 -20.025 -21.339 8.481 1 85.1 ? O19 EOK 403 A 1 HETATM 19 S S09 EOK . . . D 4 -18.186 -25.006 6.471 1 87.33 ? S09 EOK 403 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #