data_5GJC # _model_server_result.job_id g40erBzEHQxpt0JJKW8FlA _model_server_result.datetime_utc '2024-11-08 07:14:56' _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 5gjc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":702}' # _entry.id 5GJC # _exptl.entry_id 5GJC _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 92.21 _cell.angle_gamma 90 _cell.entry_id 5GJC _cell.length_a 51.595 _cell.length_b 74.167 _cell.length_c 57.74 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GJC _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 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 _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 3 _struct_asym.id C _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 26 A THR 201 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc2 A OE2 GLU 111 A GLU 286 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc3 B MN MN . A MN 701 1_555 C O3G ATP . A ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc4 B MN MN . A MN 701 1_555 C O2B ATP . A ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.893 ? metalc ? metalc5 B MN MN . A MN 701 1_555 D O HOH . A HOH 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc6 B MN MN . A MN 701 1_555 D O HOH . A HOH 831 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? # _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 5GJC _atom_sites.fract_transf_matrix[1][1] 0.019382 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000747 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013483 _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] 0.017332 _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 MN A 1 701 1619 MN MN . C 3 ATP A 1 702 1620 ATP ATP . D 4 HOH A 1 801 66 HOH HOH . D 4 HOH A 2 802 65 HOH HOH . D 4 HOH A 3 803 104 HOH HOH . D 4 HOH A 4 804 70 HOH HOH . D 4 HOH A 5 805 59 HOH HOH . D 4 HOH A 6 806 72 HOH HOH . D 4 HOH A 7 807 3 HOH HOH . D 4 HOH A 8 808 90 HOH HOH . D 4 HOH A 9 809 67 HOH HOH . D 4 HOH A 10 810 58 HOH HOH . D 4 HOH A 11 811 18 HOH HOH . D 4 HOH A 12 812 50 HOH HOH . D 4 HOH A 13 813 56 HOH HOH . D 4 HOH A 14 814 49 HOH HOH . D 4 HOH A 15 815 61 HOH HOH . D 4 HOH A 16 816 9 HOH HOH . D 4 HOH A 17 817 103 HOH HOH . D 4 HOH A 18 818 46 HOH HOH . D 4 HOH A 19 819 77 HOH HOH . D 4 HOH A 20 820 28 HOH HOH . D 4 HOH A 21 821 96 HOH HOH . D 4 HOH A 22 822 36 HOH HOH . D 4 HOH A 23 823 75 HOH HOH . D 4 HOH A 24 824 2 HOH HOH . D 4 HOH A 25 825 10 HOH HOH . D 4 HOH A 26 826 20 HOH HOH . D 4 HOH A 27 827 41 HOH HOH . D 4 HOH A 28 828 6 HOH HOH . D 4 HOH A 29 829 7 HOH HOH . D 4 HOH A 30 830 37 HOH HOH . D 4 HOH A 31 831 1 HOH HOH . D 4 HOH A 32 832 38 HOH HOH . D 4 HOH A 33 833 52 HOH HOH . D 4 HOH A 34 834 54 HOH HOH . D 4 HOH A 35 835 62 HOH HOH . D 4 HOH A 36 836 42 HOH HOH . D 4 HOH A 37 837 55 HOH HOH . D 4 HOH A 38 838 13 HOH HOH . D 4 HOH A 39 839 17 HOH HOH . D 4 HOH A 40 840 26 HOH HOH . D 4 HOH A 41 841 47 HOH HOH . D 4 HOH A 42 842 98 HOH HOH . D 4 HOH A 43 843 45 HOH HOH . D 4 HOH A 44 844 84 HOH HOH . D 4 HOH A 45 845 74 HOH HOH . D 4 HOH A 46 846 4 HOH HOH . D 4 HOH A 47 847 35 HOH HOH . D 4 HOH A 48 848 88 HOH HOH . D 4 HOH A 49 849 91 HOH HOH . D 4 HOH A 50 850 48 HOH HOH . D 4 HOH A 51 851 32 HOH HOH . D 4 HOH A 52 852 64 HOH HOH . D 4 HOH A 53 853 60 HOH HOH . D 4 HOH A 54 854 81 HOH HOH . D 4 HOH A 55 855 93 HOH HOH . D 4 HOH A 56 856 89 HOH HOH . D 4 HOH A 57 857 29 HOH HOH . D 4 HOH A 58 858 68 HOH HOH . D 4 HOH A 59 859 40 HOH HOH . D 4 HOH A 60 860 76 HOH HOH . D 4 HOH A 61 861 22 HOH HOH . D 4 HOH A 62 862 57 HOH HOH . D 4 HOH A 63 863 105 HOH HOH . D 4 HOH A 64 864 27 HOH HOH . D 4 HOH A 65 865 12 HOH HOH . D 4 HOH A 66 866 8 HOH HOH . D 4 HOH A 67 867 92 HOH HOH . D 4 HOH A 68 868 19 HOH HOH . D 4 HOH A 69 869 33 HOH HOH . D 4 HOH A 70 870 23 HOH HOH . D 4 HOH A 71 871 69 HOH HOH . D 4 HOH A 72 872 16 HOH HOH . D 4 HOH A 73 873 51 HOH HOH . D 4 HOH A 74 874 44 HOH HOH . D 4 HOH A 75 875 80 HOH HOH . D 4 HOH A 76 876 94 HOH HOH . D 4 HOH A 77 877 43 HOH HOH . D 4 HOH A 78 878 34 HOH HOH . D 4 HOH A 79 879 82 HOH HOH . D 4 HOH A 80 880 15 HOH HOH . D 4 HOH A 81 881 100 HOH HOH . D 4 HOH A 82 882 71 HOH HOH . D 4 HOH A 83 883 87 HOH HOH . D 4 HOH A 84 884 106 HOH HOH . D 4 HOH A 85 885 39 HOH HOH . D 4 HOH A 86 886 63 HOH HOH . D 4 HOH A 87 887 97 HOH HOH . D 4 HOH A 88 888 99 HOH HOH . D 4 HOH A 89 889 85 HOH HOH . D 4 HOH A 90 890 31 HOH HOH . D 4 HOH A 91 891 53 HOH HOH . D 4 HOH A 92 892 5 HOH HOH . D 4 HOH A 93 893 14 HOH HOH . D 4 HOH A 94 894 21 HOH HOH . D 4 HOH A 95 895 73 HOH HOH . D 4 HOH A 96 896 83 HOH HOH . D 4 HOH A 97 897 30 HOH HOH . D 4 HOH A 98 898 25 HOH HOH . D 4 HOH A 99 899 79 HOH HOH . D 4 HOH A 100 900 11 HOH HOH . D 4 HOH A 101 901 107 HOH HOH . D 4 HOH A 102 902 78 HOH HOH . D 4 HOH A 103 903 95 HOH HOH . D 4 HOH A 104 904 24 HOH HOH . D 4 HOH A 105 905 101 HOH HOH . D 4 HOH A 106 906 86 HOH HOH . D 4 HOH A 107 907 102 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 . . . C 3 4.349 14.935 7.465 1 81.82 ? PG ATP 702 A 1 HETATM 2 O O1G ATP . . . C 3 5.227 13.72 7.274 1 72.05 ? O1G ATP 702 A 1 HETATM 3 O O2G ATP . . . C 3 2.992 14.623 8.048 1 73.68 ? O2G ATP 702 A 1 HETATM 4 O O3G ATP . . . C 3 5.056 16.105 8.106 1 78.33 ? O3G ATP 702 A 1 HETATM 5 P PB ATP . . . C 3 3.126 16.717 5.603 1 50.77 ? PB ATP 702 A 1 HETATM 6 O O1B ATP . . . C 3 1.68 16.286 5.569 1 48.87 ? O1B ATP 702 A 1 HETATM 7 O O2B ATP . . . C 3 3.551 17.886 6.458 1 55.47 ? O2B ATP 702 A 1 HETATM 8 O O3B ATP . . . C 3 4.034 15.426 5.96 1 78.88 ? O3B ATP 702 A 1 HETATM 9 P PA ATP . . . C 3 4.336 18.312 3.608 1 81.74 ? PA ATP 702 A 1 HETATM 10 O O1A ATP . . . C 3 3.311 19.415 3.517 1 67.61 ? O1A ATP 702 A 1 HETATM 11 O O2A ATP . . . C 3 5.585 18.505 4.436 1 77.3 ? O2A ATP 702 A 1 HETATM 12 O O3A ATP . . . C 3 3.6 16.964 4.087 1 58.21 ? O3A ATP 702 A 1 HETATM 13 O O5' ATP . . . C 3 4.773 17.842 2.132 1 75.54 ? O5' ATP 702 A 1 HETATM 14 C C5' ATP . . . C 3 3.855 17.817 1.04 1 76.56 ? C5' ATP 702 A 1 HETATM 15 C C4' ATP . . . C 3 4.548 17.163 -0.149 1 79.48 ? C4' ATP 702 A 1 HETATM 16 O O4' ATP . . . C 3 4.855 18.167 -1.116 1 93.44 ? O4' ATP 702 A 1 HETATM 17 C C3' ATP . . . C 3 5.859 16.522 0.266 1 74.02 ? C3' ATP 702 A 1 HETATM 18 O O3' ATP . . . C 3 6.017 15.291 -0.44 1 84.18 ? O3' ATP 702 A 1 HETATM 19 C C2' ATP . . . C 3 6.932 17.5 -0.168 1 91.35 ? C2' ATP 702 A 1 HETATM 20 O O2' ATP . . . C 3 8.078 16.795 -0.656 1 84.15 ? O2' ATP 702 A 1 HETATM 21 C C1' ATP . . . C 3 6.267 18.346 -1.247 1 86.95 ? C1' ATP 702 A 1 HETATM 22 N N9 ATP . . . C 3 6.604 19.782 -1.069 1 103.13 ? N9 ATP 702 A 1 HETATM 23 C C8 ATP . . . C 3 7.839 20.281 -0.873 1 100.76 ? C8 ATP 702 A 1 HETATM 24 N N7 ATP . . . C 3 7.811 21.633 -0.756 1 101.58 ? N7 ATP 702 A 1 HETATM 25 C C5 ATP . . . C 3 6.53 22.022 -0.886 1 104.37 ? C5 ATP 702 A 1 HETATM 26 C C6 ATP . . . C 3 5.8 23.312 -0.864 1 102.59 ? C6 ATP 702 A 1 HETATM 27 N N6 ATP . . . C 3 6.453 24.482 -0.676 1 96.7 ? N6 ATP 702 A 1 HETATM 28 N N1 ATP . . . C 3 4.461 23.286 -1.037 1 107.23 ? N1 ATP 702 A 1 HETATM 29 C C2 ATP . . . C 3 3.801 22.132 -1.223 1 99.16 ? C2 ATP 702 A 1 HETATM 30 N N3 ATP . . . C 3 4.396 20.928 -1.256 1 95.17 ? N3 ATP 702 A 1 HETATM 31 C C4 ATP . . . C 3 5.736 20.802 -1.098 1 104.78 ? C4 ATP 702 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 31 #