data_7MD2 # _model_server_result.job_id ZKqipxdCmiIxs0rbYFQxhA _model_server_result.datetime_utc '2024-11-27 06:44:50' _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 7md2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":600}' # _entry.id 7MD2 # _exptl.entry_id 7MD2 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 90 _cell.angle_gamma 90 _cell.entry_id 7MD2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7MD2 _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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,K,L,M,N,O,P _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 I N N ? 5 K N N ? 5 M 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 metalc ? metalc1 A OG1 THR 178 A THR 178 1_555 J MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc2 I O3G ATP . A ATP 600 1_555 J MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.726 ? metalc ? metalc3 I O2B ATP . A ATP 600 1_555 J MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc4 I O3A ATP . A ATP 600 1_555 J MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc5 B OG1 THR 178 B THR 178 1_555 L MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc6 K O1B ATP . B ATP 600 1_555 L MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc7 K O3B ATP . B ATP 600 1_555 L MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc8 C OG1 THR 178 C THR 178 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc9 M O1G ATP . C ATP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.883 ? metalc ? metalc10 M O1B ATP . C ATP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 7MD2 _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 I 5 ATP A 1 600 600 ATP ATP . J 6 MG A 1 601 601 MG MG . K 5 ATP B 1 600 600 ATP ATP . L 6 MG B 1 601 601 MG MG . M 5 ATP C 1 600 600 ATP ATP . N 6 MG C 1 601 601 MG MG . O 7 PO4 F 1 600 600 PO4 PO4 . P 8 ZHD G 1 301 1 ZHD LIG . # 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 P PG ATP . . . I 5 191.022 149.608 127.601 1 52.88 ? PG ATP 600 A 1 HETATM 2 O O1G ATP . . . I 5 189.515 149.572 127.517 1 52.88 ? O1G ATP 600 A 1 HETATM 3 O O2G ATP . . . I 5 191.643 150.987 127.624 1 52.88 ? O2G ATP 600 A 1 HETATM 4 O O3G ATP . . . I 5 191.681 148.572 126.714 1 52.88 ? O3G ATP 600 A 1 HETATM 5 P PB ATP . . . I 5 191.383 147.512 129.332 1 52.88 ? PB ATP 600 A 1 HETATM 6 O O1B ATP . . . I 5 190.987 147.274 130.759 1 52.88 ? O1B ATP 600 A 1 HETATM 7 O O2B ATP . . . I 5 190.652 146.818 128.213 1 52.88 ? O2B ATP 600 A 1 HETATM 8 O O3B ATP . . . I 5 191.348 149.09 129.079 1 52.88 ? O3B ATP 600 A 1 HETATM 9 P PA ATP . . . I 5 193.8 146.512 130.297 1 52.88 ? PA ATP 600 A 1 HETATM 10 O O1A ATP . . . I 5 195.067 145.925 129.717 1 52.88 ? O1A ATP 600 A 1 HETATM 11 O O2A ATP . . . I 5 192.847 145.651 131.085 1 52.88 ? O2A ATP 600 A 1 HETATM 12 O O3A ATP . . . I 5 192.962 147.271 129.162 1 52.88 ? O3A ATP 600 A 1 HETATM 13 O O5' ATP . . . I 5 194.189 147.774 131.211 1 52.88 ? O5' ATP 600 A 1 HETATM 14 C C5' ATP . . . I 5 193.897 147.568 132.577 1 52.88 ? C5' ATP 600 A 1 HETATM 15 C C4' ATP . . . I 5 194.766 148.344 133.547 1 52.88 ? C4' ATP 600 A 1 HETATM 16 O O4' ATP . . . I 5 194.478 147.784 134.82 1 52.88 ? O4' ATP 600 A 1 HETATM 17 C C3' ATP . . . I 5 196.243 148.138 133.304 1 52.88 ? C3' ATP 600 A 1 HETATM 18 O O3' ATP . . . I 5 196.995 149.284 133.704 1 52.88 ? O3' ATP 600 A 1 HETATM 19 C C2' ATP . . . I 5 196.613 146.959 134.163 1 52.88 ? C2' ATP 600 A 1 HETATM 20 O O2' ATP . . . I 5 197.935 147.129 134.676 1 52.88 ? O2' ATP 600 A 1 HETATM 21 C C1' ATP . . . I 5 195.561 146.968 135.259 1 52.88 ? C1' ATP 600 A 1 HETATM 22 N N9 ATP . . . I 5 195.065 145.612 135.591 1 52.88 ? N9 ATP 600 A 1 HETATM 23 C C8 ATP . . . I 5 194.218 144.847 134.876 1 52.88 ? C8 ATP 600 A 1 HETATM 24 N N7 ATP . . . I 5 193.987 143.674 135.49 1 52.88 ? N7 ATP 600 A 1 HETATM 25 C C5 ATP . . . I 5 194.692 143.678 136.618 1 52.88 ? C5 ATP 600 A 1 HETATM 26 C C6 ATP . . . I 5 194.882 142.735 137.716 1 52.88 ? C6 ATP 600 A 1 HETATM 27 N N6 ATP . . . I 5 194.228 141.55 137.66 1 52.88 ? N6 ATP 600 A 1 HETATM 28 N N1 ATP . . . I 5 195.7 143.103 138.725 1 52.88 ? N1 ATP 600 A 1 HETATM 29 C C2 ATP . . . I 5 196.326 144.293 138.733 1 52.88 ? C2 ATP 600 A 1 HETATM 30 N N3 ATP . . . I 5 196.185 145.193 137.752 1 52.88 ? N3 ATP 600 A 1 HETATM 31 C C4 ATP . . . I 5 195.398 144.948 136.689 1 52.88 ? C4 ATP 600 A 1 HETATM 32 H "H5'1" ATP . . . I 5 194.094 146.52 132.754 1 52.88 ? "H5'1" ATP 600 A 1 HETATM 33 H "H5'2" ATP . . . I 5 192.835 147.757 132.761 1 52.88 ? "H5'2" ATP 600 A 1 HETATM 34 H H4' ATP . . . I 5 194.521 149.411 133.504 1 52.88 ? H4' ATP 600 A 1 HETATM 35 H H3' ATP . . . I 5 196.409 147.896 132.25 1 52.88 ? H3' ATP 600 A 1 HETATM 36 H H2' ATP . . . I 5 196.542 146.034 133.582 1 52.88 ? H2' ATP 600 A 1 HETATM 37 H HO2' ATP . . . I 5 198.5 147.445 133.958 1 52.88 ? HO2' ATP 600 A 1 HETATM 38 H H1' ATP . . . I 5 196.006 147.425 136.146 1 52.88 ? H1' ATP 600 A 1 HETATM 39 H H8 ATP . . . I 5 193.759 145.093 133.937 1 52.88 ? H8 ATP 600 A 1 HETATM 40 H HN61 ATP . . . I 5 193.628 141.337 136.872 1 52.88 ? HN61 ATP 600 A 1 HETATM 41 H HN62 ATP . . . I 5 194.336 140.879 138.397 1 52.88 ? HN62 ATP 600 A 1 HETATM 42 H H2 ATP . . . I 5 196.974 144.543 139.565 1 52.88 ? H2 ATP 600 A 1 # _model_server_stats.io_time_ms 111 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 446 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 42 #