data_5K3J # _model_server_result.job_id M-tREetrZWC2gvYZWxMOkw _model_server_result.datetime_utc '2024-10-28 02:31:38' _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 5k3j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":703}' # _entry.id 5K3J # _exptl.entry_id 5K3J _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 91.43 _cell.angle_gamma 90 _cell.entry_id 5K3J _cell.length_a 76.04 _cell.length_b 85.571 _cell.length_c 106.899 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5K3J _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,F,G,H,I,J,K,L _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 H 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 D O2G ATP . A ATP 702 1_555 F MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc2 D O2B ATP . A ATP 702 1_555 F MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc3 D O2A ATP . A ATP 702 1_555 F MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 H O3G ATP . B ATP 703 1_555 I MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc5 H O3B ATP . B ATP 703 1_555 I MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc6 H O1A ATP . B ATP 703 1_555 I MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc7 H O5' ATP . B ATP 703 1_555 I MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? # _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 191 n n PG O2G ATP sing 192 n n PG O3G ATP sing 193 n n PG O3B ATP sing 194 n n O2G HOG2 ATP sing 195 n n O3G HOG3 ATP sing 196 n n PB O1B ATP doub 197 n n PB O2B ATP sing 198 n n PB O3B ATP sing 199 n n PB O3A ATP sing 200 n n O2B HOB2 ATP sing 201 n n PA O1A ATP doub 202 n n PA O2A ATP sing 203 n n PA O3A ATP sing 204 n n PA O5' ATP sing 205 n n O2A HOA2 ATP sing 206 n n O5' C5' ATP sing 207 n n C5' C4' ATP sing 208 n n C5' "H5'1" ATP sing 209 n n C5' "H5'2" ATP sing 210 n n C4' O4' ATP sing 211 n n C4' C3' ATP sing 212 n n C4' H4' ATP sing 213 n n O4' C1' ATP sing 214 n n C3' O3' ATP sing 215 n n C3' C2' ATP sing 216 n n C3' H3' ATP sing 217 n n O3' HO3' ATP sing 218 n n C2' O2' ATP sing 219 n n C2' C1' ATP sing 220 n n C2' H2' ATP sing 221 n n O2' HO2' ATP sing 222 n n C1' N9 ATP sing 223 n n C1' H1' ATP sing 224 n n N9 C8 ATP sing 225 n y N9 C4 ATP sing 226 n y C8 N7 ATP doub 227 n y C8 H8 ATP sing 228 n n N7 C5 ATP sing 229 n y C5 C6 ATP sing 230 n y C5 C4 ATP doub 231 n y C6 N6 ATP sing 232 n n C6 N1 ATP doub 233 n y N6 HN61 ATP sing 234 n n N6 HN62 ATP sing 235 n n N1 C2 ATP sing 236 n y C2 N3 ATP doub 237 n y C2 H2 ATP sing 238 n n N3 C4 ATP sing 239 n y # _atom_sites.entry_id 5K3J _atom_sites.fract_transf_matrix[1][1] 0.013151 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000328 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011686 _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] 0.009358 _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 C 2 FAD A 1 701 700 FAD FAD . D 3 ATP A 1 702 802 ATP ATP . E 4 6QA A 1 703 804 6QA XZ1 . F 5 MG B 1 701 803 MG MG . G 2 FAD B 1 702 699 FAD FAD . H 3 ATP B 1 703 801 ATP ATP . I 5 MG B 1 704 802 MG MG . J 4 6QA B 1 705 804 6QA XZ1 . K 6 HOH A 1 801 92 HOH HOH . K 6 HOH A 2 802 197 HOH HOH . K 6 HOH A 3 803 206 HOH HOH . K 6 HOH A 4 804 98 HOH HOH . K 6 HOH A 5 805 86 HOH HOH . K 6 HOH A 6 806 42 HOH HOH . K 6 HOH A 7 807 160 HOH HOH . K 6 HOH A 8 808 21 HOH HOH . K 6 HOH A 9 809 158 HOH HOH . K 6 HOH A 10 810 211 HOH HOH . K 6 HOH A 11 811 140 HOH HOH . K 6 HOH A 12 812 167 HOH HOH . K 6 HOH A 13 813 133 HOH HOH . K 6 HOH A 14 814 31 HOH HOH . K 6 HOH A 15 815 36 HOH HOH . K 6 HOH A 16 816 159 HOH HOH . K 6 HOH A 17 817 62 HOH HOH . K 6 HOH A 18 818 75 HOH HOH . K 6 HOH A 19 819 207 HOH HOH . K 6 HOH A 20 820 14 HOH HOH . K 6 HOH A 21 821 208 HOH HOH . K 6 HOH A 22 822 101 HOH HOH . K 6 HOH A 23 823 88 HOH HOH . K 6 HOH A 24 824 9 HOH HOH . K 6 HOH A 25 825 67 HOH HOH . K 6 HOH A 26 826 83 HOH HOH . K 6 HOH A 27 827 87 HOH HOH . K 6 HOH A 28 828 53 HOH HOH . K 6 HOH A 29 829 34 HOH HOH . K 6 HOH A 30 830 45 HOH HOH . K 6 HOH A 31 831 79 HOH HOH . K 6 HOH A 32 832 96 HOH HOH . K 6 HOH A 33 833 18 HOH HOH . K 6 HOH A 34 834 107 HOH HOH . K 6 HOH A 35 835 119 HOH HOH . K 6 HOH A 36 836 110 HOH HOH . K 6 HOH A 37 837 22 HOH HOH . K 6 HOH A 38 838 190 HOH HOH . K 6 HOH A 39 839 3 HOH HOH . K 6 HOH A 40 840 108 HOH HOH . K 6 HOH A 41 841 166 HOH HOH . K 6 HOH A 42 842 59 HOH HOH . K 6 HOH A 43 843 141 HOH HOH . K 6 HOH A 44 844 40 HOH HOH . K 6 HOH A 45 845 189 HOH HOH . K 6 HOH A 46 846 147 HOH HOH . K 6 HOH A 47 847 138 HOH HOH . K 6 HOH A 48 848 135 HOH HOH . K 6 HOH A 49 849 120 HOH HOH . K 6 HOH A 50 850 176 HOH HOH . K 6 HOH A 51 851 178 HOH HOH . K 6 HOH A 52 852 131 HOH HOH . K 6 HOH A 53 853 148 HOH HOH . K 6 HOH A 54 854 13 HOH HOH . K 6 HOH A 55 855 68 HOH HOH . K 6 HOH A 56 856 129 HOH HOH . K 6 HOH A 57 857 125 HOH HOH . K 6 HOH A 58 858 93 HOH HOH . K 6 HOH A 59 859 43 HOH HOH . K 6 HOH A 60 860 77 HOH HOH . K 6 HOH A 61 861 174 HOH HOH . K 6 HOH A 62 862 41 HOH HOH . K 6 HOH A 63 863 183 HOH HOH . K 6 HOH A 64 864 90 HOH HOH . L 6 HOH B 1 801 164 HOH HOH . L 6 HOH B 2 802 109 HOH HOH . L 6 HOH B 3 803 145 HOH HOH . L 6 HOH B 4 804 11 HOH HOH . L 6 HOH B 5 805 37 HOH HOH . L 6 HOH B 6 806 187 HOH HOH . L 6 HOH B 7 807 56 HOH HOH . L 6 HOH B 8 808 202 HOH HOH . L 6 HOH B 9 809 143 HOH HOH . L 6 HOH B 10 810 204 HOH HOH . L 6 HOH B 11 811 4 HOH HOH . L 6 HOH B 12 812 177 HOH HOH . L 6 HOH B 13 813 112 HOH HOH . L 6 HOH B 14 814 50 HOH HOH . L 6 HOH B 15 815 23 HOH HOH . L 6 HOH B 16 816 1 HOH HOH . L 6 HOH B 17 817 2 HOH HOH . L 6 HOH B 18 818 39 HOH HOH . L 6 HOH B 19 819 144 HOH HOH . L 6 HOH B 20 820 60 HOH HOH . L 6 HOH B 21 821 95 HOH HOH . L 6 HOH B 22 822 172 HOH HOH . L 6 HOH B 23 823 181 HOH HOH . L 6 HOH B 24 824 8 HOH HOH . L 6 HOH B 25 825 136 HOH HOH . L 6 HOH B 26 826 20 HOH HOH . L 6 HOH B 27 827 25 HOH HOH . L 6 HOH B 28 828 78 HOH HOH . L 6 HOH B 29 829 151 HOH HOH . L 6 HOH B 30 830 103 HOH HOH . L 6 HOH B 31 831 173 HOH HOH . L 6 HOH B 32 832 65 HOH HOH . L 6 HOH B 33 833 72 HOH HOH . L 6 HOH B 34 834 137 HOH HOH . L 6 HOH B 35 835 99 HOH HOH . L 6 HOH B 36 836 32 HOH HOH . L 6 HOH B 37 837 48 HOH HOH . L 6 HOH B 38 838 104 HOH HOH . L 6 HOH B 39 839 193 HOH HOH . L 6 HOH B 40 840 27 HOH HOH . L 6 HOH B 41 841 175 HOH HOH . L 6 HOH B 42 842 66 HOH HOH . L 6 HOH B 43 843 130 HOH HOH . L 6 HOH B 44 844 155 HOH HOH . L 6 HOH B 45 845 15 HOH HOH . L 6 HOH B 46 846 73 HOH HOH . L 6 HOH B 47 847 152 HOH HOH . L 6 HOH B 48 848 17 HOH HOH . L 6 HOH B 49 849 89 HOH HOH . L 6 HOH B 50 850 29 HOH HOH . L 6 HOH B 51 851 81 HOH HOH . L 6 HOH B 52 852 54 HOH HOH . L 6 HOH B 53 853 179 HOH HOH . L 6 HOH B 54 854 169 HOH HOH . L 6 HOH B 55 855 139 HOH HOH . L 6 HOH B 56 856 12 HOH HOH . L 6 HOH B 57 857 163 HOH HOH . L 6 HOH B 58 858 115 HOH HOH . L 6 HOH B 59 859 85 HOH HOH . L 6 HOH B 60 860 122 HOH HOH . L 6 HOH B 61 861 106 HOH HOH . L 6 HOH B 62 862 121 HOH HOH . L 6 HOH B 63 863 74 HOH HOH . L 6 HOH B 64 864 5 HOH HOH . L 6 HOH B 65 865 97 HOH HOH . L 6 HOH B 66 866 33 HOH HOH . L 6 HOH B 67 867 51 HOH HOH . L 6 HOH B 68 868 198 HOH HOH . L 6 HOH B 69 869 38 HOH HOH . L 6 HOH B 70 870 52 HOH HOH . L 6 HOH B 71 871 153 HOH HOH . L 6 HOH B 72 872 61 HOH HOH . L 6 HOH B 73 873 16 HOH HOH . L 6 HOH B 74 874 28 HOH HOH . L 6 HOH B 75 875 114 HOH HOH . L 6 HOH B 76 876 180 HOH HOH . L 6 HOH B 77 877 10 HOH HOH . L 6 HOH B 78 878 71 HOH HOH . L 6 HOH B 79 879 165 HOH HOH . L 6 HOH B 80 880 69 HOH HOH . L 6 HOH B 81 881 64 HOH HOH . L 6 HOH B 82 882 44 HOH HOH . L 6 HOH B 83 883 49 HOH HOH . L 6 HOH B 84 884 194 HOH HOH . L 6 HOH B 85 885 185 HOH HOH . L 6 HOH B 86 886 154 HOH HOH . L 6 HOH B 87 887 6 HOH HOH . L 6 HOH B 88 888 126 HOH HOH . L 6 HOH B 89 889 142 HOH HOH . L 6 HOH B 90 890 47 HOH HOH . L 6 HOH B 91 891 156 HOH HOH . L 6 HOH B 92 892 46 HOH HOH . L 6 HOH B 93 893 184 HOH HOH . L 6 HOH B 94 894 124 HOH HOH . L 6 HOH B 95 895 80 HOH HOH . L 6 HOH B 96 896 132 HOH HOH . L 6 HOH B 97 897 19 HOH HOH . L 6 HOH B 98 898 63 HOH HOH . L 6 HOH B 99 899 111 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 . . . H 3 -38.574 -0.788 31.384 1 67.78 ? PG ATP 703 B 1 HETATM 2 O O1G ATP . . . H 3 -39.704 -0.659 30.393 1 60.25 ? O1G ATP 703 B 1 HETATM 3 O O2G ATP . . . H 3 -38.958 -1.486 32.668 1 64.08 -1 O2G ATP 703 B 1 HETATM 4 O O3G ATP . . . H 3 -37.743 0.46 31.574 1 67.22 ? O3G ATP 703 B 1 HETATM 5 P PB ATP . . . H 3 -38.091 -3.283 30.225 1 76.92 ? PB ATP 703 B 1 HETATM 6 O O1B ATP . . . H 3 -37.552 -3.54 28.837 1 71.72 ? O1B ATP 703 B 1 HETATM 7 O O2B ATP . . . H 3 -39.578 -3.358 30.473 1 79.95 -1 O2B ATP 703 B 1 HETATM 8 O O3B ATP . . . H 3 -37.565 -1.842 30.709 1 68.4 ? O3B ATP 703 B 1 HETATM 9 P PA ATP . . . H 3 -36.193 -3.964 32.253 1 67.53 ? PA ATP 703 B 1 HETATM 10 O O1A ATP . . . H 3 -36.375 -2.594 32.854 1 66.59 ? O1A ATP 703 B 1 HETATM 11 O O2A ATP . . . H 3 -36.008 -5.136 33.185 1 65.49 -1 O2A ATP 703 B 1 HETATM 12 O O3A ATP . . . H 3 -37.363 -4.337 31.207 1 71.01 ? O3A ATP 703 B 1 HETATM 13 O O5' ATP . . . H 3 -34.905 -3.907 31.29 1 65.97 ? O5' ATP 703 B 1 HETATM 14 C C5' ATP . . . H 3 -34.268 -5.117 30.891 1 59.28 ? C5' ATP 703 B 1 HETATM 15 C C4' ATP . . . H 3 -32.769 -4.978 31.094 1 52.87 ? C4' ATP 703 B 1 HETATM 16 O O4' ATP . . . H 3 -32.422 -3.604 31.283 1 49.09 ? O4' ATP 703 B 1 HETATM 17 C C3' ATP . . . H 3 -32.338 -5.728 32.342 1 52.23 ? C3' ATP 703 B 1 HETATM 18 O O3' ATP . . . H 3 -31.256 -6.607 32.025 1 55.26 ? O3' ATP 703 B 1 HETATM 19 C C2' ATP . . . H 3 -31.835 -4.669 33.296 1 48.08 ? C2' ATP 703 B 1 HETATM 20 O O2' ATP . . . H 3 -30.654 -5.12 33.959 1 46.23 ? O2' ATP 703 B 1 HETATM 21 C C1' ATP . . . H 3 -31.525 -3.49 32.39 1 48.54 ? C1' ATP 703 B 1 HETATM 22 N N9 ATP . . . H 3 -31.649 -2.183 33.092 1 47.22 ? N9 ATP 703 B 1 HETATM 23 C C8 ATP . . . H 3 -32.748 -1.406 33.182 1 50.06 ? C8 ATP 703 B 1 HETATM 24 N N7 ATP . . . H 3 -32.489 -0.277 33.892 1 49.39 ? N7 ATP 703 B 1 HETATM 25 C C5 ATP . . . H 3 -31.198 -0.319 34.267 1 46.81 ? C5 ATP 703 B 1 HETATM 26 C C6 ATP . . . H 3 -30.28 0.556 35.037 1 43.52 ? C6 ATP 703 B 1 HETATM 27 N N6 ATP . . . H 3 -30.699 1.732 35.564 1 42.09 ? N6 ATP 703 B 1 HETATM 28 N N1 ATP . . . H 3 -29.005 0.142 35.197 1 42.91 ? N1 ATP 703 B 1 HETATM 29 C C2 ATP . . . H 3 -28.573 -1.023 34.68 1 41.33 ? C2 ATP 703 B 1 HETATM 30 N N3 ATP . . . H 3 -29.349 -1.864 33.972 1 44.55 ? N3 ATP 703 B 1 HETATM 31 C C4 ATP . . . H 3 -30.65 -1.574 33.734 1 44.97 ? C4 ATP 703 B 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #