data_7LC3 # _model_server_result.job_id FeYqDQGfkd66m3dDlWaXZQ _model_server_result.datetime_utc '2024-12-26 22:18:12' _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 7lc3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":803}' # _entry.id 7LC3 # _exptl.entry_id 7LC3 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 505.208 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _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 90 _cell.angle_gamma 90 _cell.entry_id 7LC3 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LC3 _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 8 _struct_asym.id I _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 O ASN 112 A ASN 112 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.856 ? metalc ? metalc2 A O THR 113 A THR 113 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.018 ? metalc ? metalc3 A O THR 230 A THR 230 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.065 ? metalc ? metalc4 A O ASN 231 A ASN 231 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.867 ? metalc ? metalc5 A O GLY 232 A GLY 232 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.212 ? metalc ? metalc6 A O SER 343 A SER 343 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.832 ? metalc ? metalc7 A O CYS 344 A CYS 344 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.924 ? metalc ? metalc8 A O ASN 466 A ASN 466 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.987 ? metalc ? metalc9 A O ASN 467 A ASN 467 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc10 B OD1 ASP 518 B ASP 518 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc11 B OD2 ASP 518 B ASP 518 1_555 H MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 ACP doub 125 n n PG O2G ACP sing 126 n n PG O3G ACP sing 127 n n PG C3B ACP sing 128 n n O2G HOG2 ACP sing 129 n n O3G HOG3 ACP sing 130 n n PB O1B ACP doub 131 n n PB O2B ACP sing 132 n n PB C3B ACP sing 133 n n PB O3A ACP sing 134 n n O2B HOB2 ACP sing 135 n n C3B H3B1 ACP sing 136 n n C3B H3B2 ACP sing 137 n n PA O1A ACP doub 138 n n PA O2A ACP sing 139 n n PA O3A ACP sing 140 n n PA O5' ACP sing 141 n n O2A HOA2 ACP sing 142 n n O5' C5' ACP sing 143 n n C5' C4' ACP sing 144 n n C5' "H5'1" ACP sing 145 n n C5' "H5'2" ACP sing 146 n n C4' O4' ACP sing 147 n n C4' C3' ACP sing 148 n n C4' H4' ACP sing 149 n n O4' C1' ACP sing 150 n n C3' O3' ACP sing 151 n n C3' C2' ACP sing 152 n n C3' H3' ACP sing 153 n n O3' HO3' ACP sing 154 n n C2' O2' ACP sing 155 n n C2' C1' ACP sing 156 n n C2' H2' ACP sing 157 n n O2' HO2' ACP sing 158 n n C1' N9 ACP sing 159 n n C1' H1' ACP sing 160 n n N9 C8 ACP sing 161 n y N9 C4 ACP sing 162 n y C8 N7 ACP doub 163 n y C8 H8 ACP sing 164 n n N7 C5 ACP sing 165 n y C5 C6 ACP sing 166 n y C5 C4 ACP doub 167 n y C6 N6 ACP sing 168 n n C6 N1 ACP doub 169 n y N6 HN61 ACP sing 170 n n N6 HN62 ACP sing 171 n n N1 C2 ACP sing 172 n y C2 N3 ACP doub 173 n y C2 H2 ACP sing 174 n n N3 C4 ACP sing 175 n y # _atom_sites.entry_id 7LC3 _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 E 5 K A 1 601 601 K K . F 5 K A 1 602 602 K K . G 6 9Y0 B 1 801 801 9Y0 9Y0 . H 7 MG B 1 802 802 MG MG . I 8 ACP B 1 803 803 ACP ACP . J 9 HOH A 1 701 701 HOH HOH . J 9 HOH A 2 702 705 HOH HOH . J 9 HOH A 3 703 706 HOH HOH . J 9 HOH A 4 704 703 HOH HOH . K 9 HOH B 1 901 700 HOH HOH . K 9 HOH B 2 902 705 HOH HOH . K 9 HOH B 3 903 701 HOH HOH . K 9 HOH B 4 904 704 HOH HOH . K 9 HOH B 5 905 707 HOH HOH . K 9 HOH B 6 906 707 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 ACP . . . I 8 171.704 138.973 122.738 1 116.64 ? PG ACP 803 B 1 HETATM 2 O O1G ACP . . . I 8 172.88 138.119 122.983 1 116.64 ? O1G ACP 803 B 1 HETATM 3 O O2G ACP . . . I 8 170.643 138.757 123.926 1 116.64 ? O2G ACP 803 B 1 HETATM 4 O O3G ACP . . . I 8 172.167 140.509 122.655 1 116.64 ? O3G ACP 803 B 1 HETATM 5 P PB ACP . . . I 8 171.797 136.917 120.771 1 116.64 ? PB ACP 803 B 1 HETATM 6 O O1B ACP . . . I 8 173.209 137.172 120.443 1 116.64 ? O1B ACP 803 B 1 HETATM 7 O O2B ACP . . . I 8 171.153 136.214 119.482 1 116.64 ? O2B ACP 803 B 1 HETATM 8 C C3B ACP . . . I 8 170.976 138.481 121.15 1 116.64 ? C3B ACP 803 B 1 HETATM 9 P PA ACP . . . I 8 170.301 135.145 121.858 1 116.64 ? PA ACP 803 B 1 HETATM 10 O O1A ACP . . . I 8 169.26 135.97 121.218 1 116.64 ? O1A ACP 803 B 1 HETATM 11 O O2A ACP . . . I 8 169.762 134.566 123.254 1 116.64 ? O2A ACP 803 B 1 HETATM 12 O O3A ACP . . . I 8 171.667 135.965 122.045 1 116.64 ? O3A ACP 803 B 1 HETATM 13 O O5' ACP . . . I 8 170.58 133.952 120.821 1 116.64 ? O5' ACP 803 B 1 HETATM 14 C C5' ACP . . . I 8 171.806 133.293 121.131 1 116.64 ? C5' ACP 803 B 1 HETATM 15 C C4' ACP . . . I 8 172.209 132.457 119.935 1 116.64 ? C4' ACP 803 B 1 HETATM 16 O O4' ACP . . . I 8 171.07 132.135 119.126 1 116.64 ? O4' ACP 803 B 1 HETATM 17 C C3' ACP . . . I 8 173.053 133.278 118.957 1 116.64 ? C3' ACP 803 B 1 HETATM 18 O O3' ACP . . . I 8 174.364 133.508 119.456 1 116.64 ? O3' ACP 803 B 1 HETATM 19 C C2' ACP . . . I 8 173.059 132.283 117.797 1 116.64 ? C2' ACP 803 B 1 HETATM 20 O O2' ACP . . . I 8 174.002 131.257 118.082 1 116.64 ? O2' ACP 803 B 1 HETATM 21 C C1' ACP . . . I 8 171.613 131.76 117.845 1 116.64 ? C1' ACP 803 B 1 HETATM 22 N N9 ACP . . . I 8 170.848 132.427 116.815 1 116.64 ? N9 ACP 803 B 1 HETATM 23 C C8 ACP . . . I 8 170.379 133.696 116.851 1 116.64 ? C8 ACP 803 B 1 HETATM 24 N N7 ACP . . . I 8 169.74 133.955 115.753 1 116.64 ? N7 ACP 803 B 1 HETATM 25 C C5 ACP . . . I 8 169.764 132.869 114.96 1 116.64 ? C5 ACP 803 B 1 HETATM 26 C C6 ACP . . . I 8 169.262 132.557 113.7 1 116.64 ? C6 ACP 803 B 1 HETATM 27 N N6 ACP . . . I 8 168.555 133.484 112.977 1 116.64 ? N6 ACP 803 B 1 HETATM 28 N N1 ACP . . . I 8 169.476 131.358 113.202 1 116.64 ? N1 ACP 803 B 1 HETATM 29 C C2 ACP . . . I 8 170.146 130.464 113.888 1 116.64 ? C2 ACP 803 B 1 HETATM 30 N N3 ACP . . . I 8 170.651 130.708 115.071 1 116.64 ? N3 ACP 803 B 1 HETATM 31 C C4 ACP . . . I 8 170.478 131.883 115.635 1 116.64 ? C4 ACP 803 B 1 HETATM 32 H H3B1 ACP . . . I 8 171.156 139.2 120.37 1 116.64 ? H3B1 ACP 803 B 1 HETATM 33 H H3B2 ACP . . . I 8 169.91 138.342 121.268 1 116.64 ? H3B2 ACP 803 B 1 HETATM 34 H "H5'1" ACP . . . I 8 171.654 132.662 121.994 1 116.64 ? "H5'1" ACP 803 B 1 HETATM 35 H "H5'2" ACP . . . I 8 172.631 133.967 121.304 1 116.64 ? "H5'2" ACP 803 B 1 HETATM 36 H H4' ACP . . . I 8 172.732 131.561 120.241 1 116.64 ? H4' ACP 803 B 1 HETATM 37 H H3' ACP . . . I 8 172.558 134.2 118.678 1 116.64 ? H3' ACP 803 B 1 HETATM 38 H HO3' ACP . . . I 8 174.421 134.4 119.752 1 116.64 ? HO3' ACP 803 B 1 HETATM 39 H H2' ACP . . . I 8 173.272 132.769 116.854 1 116.64 ? H2' ACP 803 B 1 HETATM 40 H HO2' ACP . . . I 8 174.531 131.516 118.819 1 116.64 ? HO2' ACP 803 B 1 HETATM 41 H H1' ACP . . . I 8 171.589 130.684 117.724 1 116.64 ? H1' ACP 803 B 1 HETATM 42 H H8 ACP . . . I 8 170.521 134.389 117.669 1 116.64 ? H8 ACP 803 B 1 HETATM 43 H HN61 ACP . . . I 8 167.706 133.866 113.342 1 116.64 ? HN61 ACP 803 B 1 HETATM 44 H HN62 ACP . . . I 8 168.892 133.77 112.079 1 116.64 ? HN62 ACP 803 B 1 HETATM 45 H H2 ACP . . . I 8 170.31 129.486 113.447 1 116.64 ? H2 ACP 803 B 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 45 #