data_8GF5 # _model_server_result.job_id S6-VdeWMzcFPeGDO7KCqww _model_server_result.datetime_utc '2025-01-19 19:34:08' _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 8gf5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":601}' # _entry.id 8GF5 # _exptl.entry_id 8GF5 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 343.334 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Coenzyme B' _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 90 _cell.entry_id 8GF5 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GF5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _pdbx_struct_assembly.details author_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 ? _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 J _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 covale ? covale1 A C LYS 270 A LYS 270 1_555 A N MHS 271 A MHS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C MHS 271 A MHS 271 1_555 A N ALA 272 A ALA 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 A C ARG 284 A ARG 284 1_555 A N AGM 285 A AGM 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale4 A C AGM 285 A AGM 285 1_555 A N ALA 286 A ALA 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale5 A C GLN 471 A GLN 471 1_555 A N SMC 472 A SMC 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale6 A C SMC 472 A SMC 472 1_555 A N GLY 473 A GLY 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale7 B C LYS 270 B LYS 270 1_555 B N MHS 271 B MHS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 B C MHS 271 B MHS 271 1_555 B N ALA 272 B ALA 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale9 B C ARG 284 B ARG 284 1_555 B N AGM 285 B AGM 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 B C AGM 285 B AGM 285 1_555 B N ALA 286 B ALA 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale11 B C GLN 471 B GLN 471 1_555 B N SMC 472 B SMC 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale12 B C SMC 472 B SMC 472 1_555 B N GLY 473 B GLY 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? # _chem_comp.formula 'C11 H22 N O7 P S' _chem_comp.formula_weight 343.334 _chem_comp.id TP7 _chem_comp.mon_nstd_flag . _chem_comp.name 'Coenzyme B' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7-MERCAPTOHEPTANOYLTHREONINEPHOSPHATE # _atom_sites.entry_id 8GF5 _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _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] 1 _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 H 5 COM A 1 601 1 COM COM . I 6 F43 A 1 602 1 F43 F43 . J 7 TP7 B 1 601 1 TP7 TP7 . # 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 N N TP7 . . . J 7 127.62 130.902 108.221 1 55.7 ? N TP7 601 B 1 HETATM 2 P P TP7 . . . J 7 131.591 129.022 109.12 1 55.7 ? P TP7 601 B 1 HETATM 3 O O1P TP7 . . . J 7 131.496 127.535 108.876 1 55.7 ? O1P TP7 601 B 1 HETATM 4 O O2P TP7 . . . J 7 131.39 129.435 110.557 1 55.7 ? O2P TP7 601 B 1 HETATM 5 O O3P TP7 . . . J 7 132.754 129.688 108.429 1 55.7 ? O3P TP7 601 B 1 HETATM 6 O O4P TP7 . . . J 7 130.303 129.628 108.375 1 55.7 ? O4P TP7 601 B 1 HETATM 7 C CB TP7 . . . J 7 129.059 128.948 108.492 1 55.7 ? CB TP7 601 B 1 HETATM 8 C C TP7 . . . J 7 128.489 130.369 110.466 1 55.7 ? C TP7 601 B 1 HETATM 9 O O TP7 . . . J 7 128.44 131.599 110.683 1 55.7 ? O TP7 601 B 1 HETATM 10 O OXT TP7 . . . J 7 128.914 129.548 111.307 1 55.7 ? OXT TP7 601 B 1 HETATM 11 C CA TP7 . . . J 7 128.015 129.85 109.138 1 55.7 ? CA TP7 601 B 1 HETATM 12 C CG TP7 . . . J 7 128.608 128.511 107.106 1 55.7 ? CG TP7 601 B 1 HETATM 13 O O1 TP7 . . . J 7 125.451 130.022 108.201 1 55.7 ? O1 TP7 601 B 1 HETATM 14 C C1 TP7 . . . J 7 126.212 131.232 108.168 1 55.7 ? C1 TP7 601 B 1 HETATM 15 C C2 TP7 . . . J 7 125.865 132.046 106.931 1 55.7 ? C2 TP7 601 B 1 HETATM 16 C C3 TP7 . . . J 7 125.9 133.53 107.252 1 55.7 ? C3 TP7 601 B 1 HETATM 17 C C4 TP7 . . . J 7 125.976 134.36 105.983 1 55.7 ? C4 TP7 601 B 1 HETATM 18 C C5 TP7 . . . J 7 124.754 134.187 105.093 1 55.7 ? C5 TP7 601 B 1 HETATM 19 C C6 TP7 . . . J 7 124.94 135.025 103.836 1 55.7 ? C6 TP7 601 B 1 HETATM 20 C C7 TP7 . . . J 7 123.752 134.919 102.896 1 55.7 ? C7 TP7 601 B 1 HETATM 21 S S7 TP7 . . . J 7 123.626 133.202 102.364 1 55.7 ? S7 TP7 601 B 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 86 _model_server_stats.query_time_ms 514 _model_server_stats.encode_time_ms 82 _model_server_stats.element_count 21 #