data_5CE3 # _model_server_result.job_id 3jLskDQeV9u_j8ddQo9nHA _model_server_result.datetime_utc '2024-12-19 01:49:22' _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 5ce3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":401}' # _entry.id 5CE3 # _exptl.entry_id 5CE3 _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 104.88 _cell.angle_gamma 90 _cell.entry_id 5CE3 _cell.length_a 108.73 _cell.length_b 121.75 _cell.length_c 118.58 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CE3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_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,B,E,F,G,H,M,N 1 1 C,D,I,J,K,L,O,P 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 I 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 O3G ATP . A ATP 401 1_555 F CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc2 E O1B ATP . A ATP 401 1_555 F CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc3 F CA CA . A CA 402 1_555 M O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc4 F CA CA . A CA 402 1_555 M O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc5 F CA CA . A CA 402 1_555 M O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? metalc ? metalc6 B OD1 ASN 186 B ASN 272 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? metalc ? metalc7 B OD2 ASP 200 B ASP 286 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc8 G O2B ADP . B ADP 801 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc9 G O2A ADP . B ADP 801 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc10 H MG MG . B MG 802 1_555 N O HOH . B HOH 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc11 H MG MG . B MG 802 1_555 N O HOH . B HOH 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc12 I O3G ATP . C ATP 401 1_555 J CA CA . C CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc13 I O1B ATP . C ATP 401 1_555 J CA CA . C CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc14 J CA CA . C CA 402 1_555 O O HOH . C HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc15 D OD1 ASN 186 D ASN 272 1_555 L MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc16 D OD2 ASP 200 D ASP 286 1_555 L MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc17 K O2B ADP . D ADP 801 1_555 L MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? metalc ? metalc18 K O2A ADP . D ADP 801 1_555 L MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? # _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 114 n n PG O2G ATP sing 115 n n PG O3G ATP sing 116 n n PG O3B ATP sing 117 n n O2G HOG2 ATP sing 118 n n O3G HOG3 ATP sing 119 n n PB O1B ATP doub 120 n n PB O2B ATP sing 121 n n PB O3B ATP sing 122 n n PB O3A ATP sing 123 n n O2B HOB2 ATP sing 124 n n PA O1A ATP doub 125 n n PA O2A ATP sing 126 n n PA O3A ATP sing 127 n n PA O5' ATP sing 128 n n O2A HOA2 ATP sing 129 n n O5' C5' ATP sing 130 n n C5' C4' ATP sing 131 n n C5' "H5'1" ATP sing 132 n n C5' "H5'2" ATP sing 133 n n C4' O4' ATP sing 134 n n C4' C3' ATP sing 135 n n C4' H4' ATP sing 136 n n O4' C1' ATP sing 137 n n C3' O3' ATP sing 138 n n C3' C2' ATP sing 139 n n C3' H3' ATP sing 140 n n O3' HO3' ATP sing 141 n n C2' O2' ATP sing 142 n n C2' C1' ATP sing 143 n n C2' H2' ATP sing 144 n n O2' HO2' ATP sing 145 n n C1' N9 ATP sing 146 n n C1' H1' ATP sing 147 n n N9 C8 ATP sing 148 n y N9 C4 ATP sing 149 n y C8 N7 ATP doub 150 n y C8 H8 ATP sing 151 n n N7 C5 ATP sing 152 n y C5 C6 ATP sing 153 n y C5 C4 ATP doub 154 n y C6 N6 ATP sing 155 n n C6 N1 ATP doub 156 n y N6 HN61 ATP sing 157 n n N6 HN62 ATP sing 158 n n N1 C2 ATP sing 159 n y C2 N3 ATP doub 160 n y C2 H2 ATP sing 161 n n N3 C4 ATP sing 162 n y # _atom_sites.entry_id 5CE3 _atom_sites.fract_transf_matrix[1][1] 0.009197 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002444 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008214 _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] 0.008726 _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 1 401 1380 ATP ATP . F 4 CA A 1 402 1401 CA CA . G 5 ADP B 1 801 730 ADP ADP . H 6 MG B 1 802 731 MG MG . I 3 ATP C 1 401 1380 ATP ATP . J 4 CA C 1 402 1401 CA CA . K 5 ADP D 1 801 730 ADP ADP . L 6 MG D 1 802 731 MG MG . M 7 HOH A 1 501 8 HOH HOH . M 7 HOH A 2 502 11 HOH HOH . M 7 HOH A 3 503 9 HOH HOH . N 7 HOH B 1 901 3 HOH HOH . N 7 HOH B 2 902 1 HOH HOH . N 7 HOH B 3 903 2 HOH HOH . O 7 HOH C 1 501 13 HOH HOH . P 7 HOH D 1 901 6 HOH HOH . P 7 HOH D 2 902 5 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 . . . I 3 100.218 -29.714 47.009 1 51.06 ? PG ATP 401 C 1 HETATM 2 O O1G ATP . . . I 3 100.6 -28.48 46.233 1 49.71 ? O1G ATP 401 C 1 HETATM 3 O O2G ATP . . . I 3 98.728 -29.951 47.102 1 48.84 ? O2G ATP 401 C 1 HETATM 4 O O3G ATP . . . I 3 101.01 -30.949 46.626 1 52.07 ? O3G ATP 401 C 1 HETATM 5 P PB ATP . . . I 3 101.832 -29.94 49.439 1 49.63 ? PB ATP 401 C 1 HETATM 6 O O1B ATP . . . I 3 102.954 -30.443 48.57 1 54.05 ? O1B ATP 401 C 1 HETATM 7 O O2B ATP . . . I 3 102.103 -28.958 50.547 1 49.72 ? O2B ATP 401 C 1 HETATM 8 O O3B ATP . . . I 3 100.628 -29.326 48.536 1 50.66 ? O3B ATP 401 C 1 HETATM 9 P PA ATP . . . I 3 102.139 -32.32 50.844 1 54.66 ? PA ATP 401 C 1 HETATM 10 O O1A ATP . . . I 3 102.401 -33.42 49.84 1 56.83 ? O1A ATP 401 C 1 HETATM 11 O O2A ATP . . . I 3 103.282 -31.621 51.541 1 51.08 ? O2A ATP 401 C 1 HETATM 12 O O3A ATP . . . I 3 101.199 -31.231 50.136 1 51.94 ? O3A ATP 401 C 1 HETATM 13 O O5' ATP . . . I 3 101.143 -32.914 51.963 1 54.45 ? O5' ATP 401 C 1 HETATM 14 C C5' ATP . . . I 3 100.618 -32.073 52.993 1 54.92 ? C5' ATP 401 C 1 HETATM 15 C C4' ATP . . . I 3 99.165 -32.434 53.266 1 53.2 ? C4' ATP 401 C 1 HETATM 16 O O4' ATP . . . I 3 99.097 -33.816 53.597 1 50.14 ? O4' ATP 401 C 1 HETATM 17 C C3' ATP . . . I 3 98.59 -31.661 54.449 1 53.74 ? C3' ATP 401 C 1 HETATM 18 O O3' ATP . . . I 3 97.226 -31.334 54.182 1 54.3 ? O3' ATP 401 C 1 HETATM 19 C C2' ATP . . . I 3 98.695 -32.63 55.605 1 52.52 ? C2' ATP 401 C 1 HETATM 20 O O2' ATP . . . I 3 97.684 -32.511 56.607 1 47.48 ? O2' ATP 401 C 1 HETATM 21 C C1' ATP . . . I 3 98.527 -33.955 54.901 1 52.33 ? C1' ATP 401 C 1 HETATM 22 N N9 ATP . . . I 3 99.161 -35.036 55.682 1 52.45 ? N9 ATP 401 C 1 HETATM 23 C C8 ATP . . . I 3 100.436 -35.121 56.103 1 53.33 ? C8 ATP 401 C 1 HETATM 24 N N7 ATP . . . I 3 100.635 -36.278 56.794 1 53.57 ? N7 ATP 401 C 1 HETATM 25 C C5 ATP . . . I 3 99.473 -36.945 56.808 1 51.89 ? C5 ATP 401 C 1 HETATM 26 C C6 ATP . . . I 3 98.962 -38.214 57.355 1 49.09 ? C6 ATP 401 C 1 HETATM 27 N N6 ATP . . . I 3 99.742 -39.058 58.039 1 52.64 ? N6 ATP 401 C 1 HETATM 28 N N1 ATP . . . I 3 97.68 -38.53 57.141 1 52.97 ? N1 ATP 401 C 1 HETATM 29 C C2 ATP . . . I 3 96.859 -37.726 56.458 1 56.77 ? C2 ATP 401 C 1 HETATM 30 N N3 ATP . . . I 3 97.24 -36.548 55.933 1 59 ? N3 ATP 401 C 1 HETATM 31 C C4 ATP . . . I 3 98.51 -36.114 56.078 1 54.08 ? C4 ATP 401 C 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #