data_2KE5 # _model_server_result.job_id 5XlC1QzNxLid82E8ocYn1w _model_server_result.datetime_utc '2024-12-03 17:32:03' _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 2ke5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 2KE5 # _exptl.entry_id 2KE5 _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 522.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 ? _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 2 _struct_asym.id B _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 OG SER 17 A SER 28 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc2 B O2G GNP . A GNP 500 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc3 B O2B GNP . A GNP 500 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc4 C MG MG . A MG 501 1_555 D O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc5 C MG MG . A MG 501 1_555 D O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? # _chem_comp.formula 'C10 H17 N6 O13 P3' _chem_comp.formula_weight 522.196 _chem_comp.id GNP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 GNP doub 116 n n PG O2G GNP sing 117 n n PG O3G GNP sing 118 n n PG N3B GNP sing 119 n n O2G HOG2 GNP sing 120 n n O3G HOG3 GNP sing 121 n n N3B PB GNP sing 122 n n N3B HNB3 GNP sing 123 n n PB O1B GNP doub 124 n n PB O2B GNP sing 125 n n PB O3A GNP sing 126 n n O2B HOB2 GNP sing 127 n n O3A PA GNP sing 128 n n PA O1A GNP doub 129 n n PA O2A GNP sing 130 n n PA O5' GNP sing 131 n n O2A HOA2 GNP sing 132 n n O5' C5' GNP sing 133 n n C5' C4' GNP sing 134 n n C5' "H5'2" GNP sing 135 n n C5' "H5'1" GNP sing 136 n n C4' O4' GNP sing 137 n n C4' C3' GNP sing 138 n n C4' H4' GNP sing 139 n n O4' C1' GNP sing 140 n n C3' O3' GNP sing 141 n n C3' C2' GNP sing 142 n n C3' H3' GNP sing 143 n n O3' HO3' GNP sing 144 n n C2' O2' GNP sing 145 n n C2' C1' GNP sing 146 n n C2' H2' GNP sing 147 n n O2' HO2' GNP sing 148 n n C1' N9 GNP sing 149 n n C1' H1' GNP sing 150 n n N9 C8 GNP sing 151 n y N9 C4 GNP sing 152 n y C8 N7 GNP doub 153 n y C8 H8 GNP sing 154 n n N7 C5 GNP sing 155 n y C5 C6 GNP sing 156 n y C5 C4 GNP doub 157 n y C6 O6 GNP doub 158 n n C6 N1 GNP sing 159 n y N1 C2 GNP sing 160 n y N1 HN1 GNP sing 161 n n C2 N2 GNP sing 162 n n C2 N3 GNP doub 163 n y N2 HN21 GNP sing 164 n n N2 HN22 GNP sing 165 n n N3 C4 GNP sing 166 n y # _atom_sites.entry_id 2KE5 _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 B 2 GNP A 1 500 500 GNP GNP . C 3 MG A 1 501 501 MG MG . D 4 HOH A 1 502 502 HOH HOH . D 4 HOH A 2 503 503 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 GNP . . . B 2 -7.705 -2.396 11.134 1 0 ? PG GNP 500 A 1 HETATM 2 O O1G GNP . . . B 2 -8.991 -2.415 11.875 1 0 ? O1G GNP 500 A 1 HETATM 3 O O2G GNP . . . B 2 -7.003 -3.832 11.125 1 0 ? O2G GNP 500 A 1 HETATM 4 O O3G GNP . . . B 2 -6.723 -1.284 11.718 1 0 ? O3G GNP 500 A 1 HETATM 5 N N3B GNP . . . B 2 -7.908 -1.967 9.522 1 0 ? N3B GNP 500 A 1 HETATM 6 P PB GNP . . . B 2 -9.082 -2.902 8.765 1 0 ? PB GNP 500 A 1 HETATM 7 O O1B GNP . . . B 2 -9.82 -2.043 7.805 1 0 ? O1B GNP 500 A 1 HETATM 8 O O2B GNP . . . B 2 -8.439 -4.139 8.266 1 0 ? O2B GNP 500 A 1 HETATM 9 O O3A GNP . . . B 2 -10.068 -3.287 9.955 1 0 ? O3A GNP 500 A 1 HETATM 10 P PA GNP . . . B 2 -11.241 -4.336 9.71 1 0 ? PA GNP 500 A 1 HETATM 11 O O1A GNP . . . B 2 -10.648 -5.693 9.587 1 0 ? O1A GNP 500 A 1 HETATM 12 O O2A GNP . . . B 2 -12.301 -4.107 10.726 1 0 ? O2A GNP 500 A 1 HETATM 13 O O5' GNP . . . B 2 -11.8 -3.895 8.285 1 0 ? O5' GNP 500 A 1 HETATM 14 C C5' GNP . . . B 2 -11.821 -4.809 7.191 1 0 ? C5' GNP 500 A 1 HETATM 15 C C4' GNP . . . B 2 -13.245 -5.073 6.761 1 0 ? C4' GNP 500 A 1 HETATM 16 O O4' GNP . . . B 2 -13.47 -4.438 5.472 1 0 ? O4' GNP 500 A 1 HETATM 17 C C3' GNP . . . B 2 -13.6 -6.54 6.553 1 0 ? C3' GNP 500 A 1 HETATM 18 O O3' GNP . . . B 2 -14.965 -6.787 6.866 1 0 ? O3' GNP 500 A 1 HETATM 19 C C2' GNP . . . B 2 -13.316 -6.759 5.072 1 0 ? C2' GNP 500 A 1 HETATM 20 O O2' GNP . . . B 2 -14.115 -7.791 4.525 1 0 ? O2' GNP 500 A 1 HETATM 21 C C1' GNP . . . B 2 -13.756 -5.42 4.495 1 0 ? C1' GNP 500 A 1 HETATM 22 N N9 GNP . . . B 2 -13.066 -5.057 3.261 1 0 ? N9 GNP 500 A 1 HETATM 23 C C8 GNP . . . B 2 -11.757 -4.664 3.129 1 0 ? C8 GNP 500 A 1 HETATM 24 N N7 GNP . . . B 2 -11.42 -4.4 1.898 1 0 ? N7 GNP 500 A 1 HETATM 25 C C5 GNP . . . B 2 -12.578 -4.634 1.168 1 0 ? C5 GNP 500 A 1 HETATM 26 C C6 GNP . . . B 2 -12.826 -4.518 -0.224 1 0 ? C6 GNP 500 A 1 HETATM 27 O O6 GNP . . . B 2 -12.044 -4.174 -1.117 1 0 ? O6 GNP 500 A 1 HETATM 28 N N1 GNP . . . B 2 -14.138 -4.851 -0.548 1 0 ? N1 GNP 500 A 1 HETATM 29 C C2 GNP . . . B 2 -15.088 -5.248 0.364 1 0 ? C2 GNP 500 A 1 HETATM 30 N N2 GNP . . . B 2 -16.3 -5.53 -0.135 1 0 ? N2 GNP 500 A 1 HETATM 31 N N3 GNP . . . B 2 -14.87 -5.361 1.665 1 0 ? N3 GNP 500 A 1 HETATM 32 C C4 GNP . . . B 2 -13.602 -5.041 1.995 1 0 ? C4 GNP 500 A 1 HETATM 33 H HNB3 GNP . . . B 2 -7.056 -2.066 9.048 1 0 ? HNB3 GNP 500 A 1 HETATM 34 H "H5'2" GNP . . . B 2 -11.356 -5.75 7.489 1 0 ? "H5'2" GNP 500 A 1 HETATM 35 H "H5'1" GNP . . . B 2 -11.27 -4.391 6.351 1 0 ? "H5'1" GNP 500 A 1 HETATM 36 H H4' GNP . . . B 2 -13.901 -4.7 7.549 1 0 ? H4' GNP 500 A 1 HETATM 37 H H3' GNP . . . B 2 -13.016 -7.196 7.197 1 0 ? H3' GNP 500 A 1 HETATM 38 H HO3' GNP . . . B 2 -15.48 -6.562 6.092 1 0 ? HO3' GNP 500 A 1 HETATM 39 H H2' GNP . . . B 2 -12.249 -6.929 4.912 1 0 ? H2' GNP 500 A 1 HETATM 40 H HO2' GNP . . . B 2 -15.028 -7.57 4.709 1 0 ? HO2' GNP 500 A 1 HETATM 41 H H1' GNP . . . B 2 -14.829 -5.384 4.307 1 0 ? H1' GNP 500 A 1 HETATM 42 H H8 GNP . . . B 2 -11.075 -4.582 3.962 1 0 ? H8 GNP 500 A 1 HETATM 43 H HN1 GNP . . . B 2 -14.412 -4.798 -1.519 1 0 ? HN1 GNP 500 A 1 HETATM 44 H HN21 GNP . . . B 2 -17.043 -5.826 0.48 1 0 ? HN21 GNP 500 A 1 HETATM 45 H HN22 GNP . . . B 2 -16.468 -5.446 -1.128 1 0 ? HN22 GNP 500 A 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 452 _model_server_stats.query_time_ms 15593 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 45 #