data_5MB9 # _model_server_result.job_id 4l_R7-gS08KdEAWu75KeQg _model_server_result.datetime_utc '2025-03-30 22:18:05' _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 5mb9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":601}' # _entry.id 5MB9 # _exptl.entry_id 5MB9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 5MB9 _cell.length_a 93.918 _cell.length_b 179.359 _cell.length_c 155.455 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MB9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,J 1 1 B,C,G,H,I,K 2 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 ? 3 E N N ? 3 G 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 E O2B ATP . A ATP 700 1_555 F MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc2 F MG MG . A MG 701 1_555 J O HOH . A HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc3 F MG MG . A MG 701 1_555 J O HOH . A HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc4 F MG MG . A MG 701 1_555 J O HOH . A HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.618 ? metalc ? metalc5 F MG MG . A MG 701 1_555 J O HOH . A HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc6 G O1B ATP . B ATP 601 1_555 H MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc7 H MG MG . B MG 602 1_555 K O HOH . B HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc8 H MG MG . B MG 602 1_555 K O HOH . B HOH 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc9 H MG MG . B MG 602 1_555 K O HOH . B HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc10 H MG MG . B MG 602 1_555 K O HOH . B HOH 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? # _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 5MB9 _atom_sites.fract_transf_matrix[1][1] 0.010648 _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] 0.005575 _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] 0.006433 _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 E 3 ATP A 1 700 700 ATP ATP . F 4 MG A 1 701 701 MG MG . G 3 ATP B 1 601 700 ATP ATP . H 4 MG B 1 602 701 MG MG . I 5 GOL B 1 603 1 GOL GOL . J 6 HOH A 1 801 2009 HOH HOH . J 6 HOH A 2 802 2008 HOH HOH . J 6 HOH A 3 803 2006 HOH HOH . J 6 HOH A 4 804 2007 HOH HOH . K 6 HOH B 1 701 2009 HOH HOH . K 6 HOH B 2 702 2008 HOH HOH . K 6 HOH B 3 703 2006 HOH HOH . K 6 HOH B 4 704 2007 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 P PG ATP . . . G 3 -49.789 14.725 15.797 1 74.85 ? PG ATP 601 B 1 HETATM 2 O O1G ATP . . . G 3 -50.932 14.867 14.825 1 91.1 ? O1G ATP 601 B 1 HETATM 3 O O2G ATP . . . G 3 -48.827 15.888 15.797 1 61.88 ? O2G ATP 601 B 1 HETATM 4 O O3G ATP . . . G 3 -49.101 13.382 15.776 1 60.94 ? O3G ATP 601 B 1 HETATM 5 P PB ATP . . . G 3 -50.717 16.031 18.165 1 80.16 ? PB ATP 601 B 1 HETATM 6 O O1B ATP . . . G 3 -50.261 17.291 17.474 1 61.61 ? O1B ATP 601 B 1 HETATM 7 O O2B ATP . . . G 3 -52.12 15.95 18.722 1 61.03 ? O2B ATP 601 B 1 HETATM 8 O O3B ATP . . . G 3 -50.483 14.73 17.246 1 72.61 ? O3B ATP 601 B 1 HETATM 9 P PA ATP . . . G 3 -49.373 16.404 20.679 1 54.28 ? PA ATP 601 B 1 HETATM 10 O O1A ATP . . . G 3 -48.694 17.705 20.343 1 53.23 ? O1A ATP 601 B 1 HETATM 11 O O2A ATP . . . G 3 -50.599 16.385 21.559 1 62.44 ? O2A ATP 601 B 1 HETATM 12 O O3A ATP . . . G 3 -49.669 15.611 19.311 1 63.14 ? O3A ATP 601 B 1 HETATM 13 O O5' ATP . . . G 3 -48.285 15.378 21.278 1 58.33 ? O5' ATP 601 B 1 HETATM 14 C C5' ATP . . . G 3 -48.688 14.066 21.665 1 60.37 ? C5' ATP 601 B 1 HETATM 15 C C4' ATP . . . G 3 -47.466 13.166 21.735 1 63.83 ? C4' ATP 601 B 1 HETATM 16 O O4' ATP . . . G 3 -46.513 13.794 22.596 1 67.42 ? O4' ATP 601 B 1 HETATM 17 C C3' ATP . . . G 3 -47.815 11.82 22.355 1 68.08 ? C3' ATP 601 B 1 HETATM 18 O O3' ATP . . . G 3 -47 10.772 21.831 1 68.33 ? O3' ATP 601 B 1 HETATM 19 C C2' ATP . . . G 3 -47.472 12.028 23.805 1 72.51 ? C2' ATP 601 B 1 HETATM 20 O O2' ATP . . . G 3 -47.074 10.775 24.361 1 81.38 ? O2' ATP 601 B 1 HETATM 21 C C1' ATP . . . G 3 -46.276 12.963 23.73 1 74.06 ? C1' ATP 601 B 1 HETATM 22 N N9 ATP . . . G 3 -46.188 13.744 24.989 1 79.25 ? N9 ATP 601 B 1 HETATM 23 C C8 ATP . . . G 3 -47.188 14.452 25.543 1 83.05 ? C8 ATP 601 B 1 HETATM 24 N N7 ATP . . . G 3 -46.78 15.047 26.693 1 87.2 ? N7 ATP 601 B 1 HETATM 25 C C5 ATP . . . G 3 -45.491 14.714 26.888 1 85.74 ? C5 ATP 601 B 1 HETATM 26 C C6 ATP . . . G 3 -44.457 14.999 27.91 1 89.24 ? C6 ATP 601 B 1 HETATM 27 N N6 ATP . . . G 3 -44.724 15.778 28.985 1 83.69 ? N6 ATP 601 B 1 HETATM 28 N N1 ATP . . . G 3 -43.235 14.453 27.733 1 101.16 ? N1 ATP 601 B 1 HETATM 29 C C2 ATP . . . G 3 -42.951 13.675 26.673 1 105.08 ? C2 ATP 601 B 1 HETATM 30 N N3 ATP . . . G 3 -43.84 13.375 25.71 1 96.73 ? N3 ATP 601 B 1 HETATM 31 C C4 ATP . . . G 3 -45.105 13.855 25.759 1 82.82 ? C4 ATP 601 B 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #