data_4EFM # _model_server_result.job_id e-fhnbyvj67KsLIlZ2F1Ew _model_server_result.datetime_utc '2024-11-04 20:09:08' _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 4efm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4EFM # _exptl.entry_id 4EFM _exptl.method 'X-RAY DIFFRACTION' # _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 ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 4EFM _cell.length_a 34.638 _cell.length_b 81.833 _cell.length_c 121.761 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4EFM _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _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 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 22 A SER 17 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc2 B O1G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc3 B O1B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc4 C MG MG . A MG 202 1_555 D O HOH . A HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc5 C MG MG . A MG 202 1_555 D O HOH . A HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc6 C MG MG . A MG 202 1_555 D O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? # _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 129 n n PG O2G GNP sing 130 n n PG O3G GNP sing 131 n n PG N3B GNP sing 132 n n O2G HOG2 GNP sing 133 n n O3G HOG3 GNP sing 134 n n N3B PB GNP sing 135 n n N3B HNB3 GNP sing 136 n n PB O1B GNP doub 137 n n PB O2B GNP sing 138 n n PB O3A GNP sing 139 n n O2B HOB2 GNP sing 140 n n O3A PA GNP sing 141 n n PA O1A GNP doub 142 n n PA O2A GNP sing 143 n n PA O5' GNP sing 144 n n O2A HOA2 GNP sing 145 n n O5' C5' GNP sing 146 n n C5' C4' GNP sing 147 n n C5' "H5'2" GNP sing 148 n n C5' "H5'1" GNP sing 149 n n C4' O4' GNP sing 150 n n C4' C3' GNP sing 151 n n C4' H4' GNP sing 152 n n O4' C1' GNP sing 153 n n C3' O3' GNP sing 154 n n C3' C2' GNP sing 155 n n C3' H3' GNP sing 156 n n O3' HO3' GNP sing 157 n n C2' O2' GNP sing 158 n n C2' C1' GNP sing 159 n n C2' H2' GNP sing 160 n n O2' HO2' GNP sing 161 n n C1' N9 GNP sing 162 n n C1' H1' GNP sing 163 n n N9 C8 GNP sing 164 n y N9 C4 GNP sing 165 n y C8 N7 GNP doub 166 n y C8 H8 GNP sing 167 n n N7 C5 GNP sing 168 n y C5 C6 GNP sing 169 n y C5 C4 GNP doub 170 n y C6 O6 GNP doub 171 n n C6 N1 GNP sing 172 n y N1 C2 GNP sing 173 n y N1 HN1 GNP sing 174 n n C2 N2 GNP sing 175 n n C2 N3 GNP doub 176 n y N2 HN21 GNP sing 177 n n N2 HN22 GNP sing 178 n n N3 C4 GNP sing 179 n y # _atom_sites.entry_id 4EFM _atom_sites.fract_transf_matrix[1][1] 0.02887 _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] 0.01222 _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] 0.008213 _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 1 201 167 GNP GNP . C 3 MG A 1 202 168 MG MG . D 4 HOH A 1 1001 1001 HOH HOH . D 4 HOH A 2 1002 1002 HOH HOH . D 4 HOH A 3 1003 1003 HOH HOH . D 4 HOH A 4 1004 1004 HOH HOH . D 4 HOH A 5 1005 1005 HOH HOH . D 4 HOH A 6 1006 1006 HOH HOH . D 4 HOH A 7 1007 1007 HOH HOH . D 4 HOH A 8 1008 1008 HOH HOH . D 4 HOH A 9 1009 1009 HOH HOH . D 4 HOH A 10 1010 1010 HOH HOH . D 4 HOH A 11 1011 1011 HOH HOH . D 4 HOH A 12 1012 1012 HOH HOH . D 4 HOH A 13 1013 1013 HOH HOH . D 4 HOH A 14 1014 1014 HOH HOH . D 4 HOH A 15 1015 1015 HOH HOH . D 4 HOH A 16 1016 1016 HOH HOH . D 4 HOH A 17 1017 1017 HOH HOH . D 4 HOH A 18 1018 1018 HOH HOH . D 4 HOH A 19 1019 1019 HOH HOH . D 4 HOH A 20 1020 1020 HOH HOH . D 4 HOH A 21 1021 1021 HOH HOH . D 4 HOH A 22 1022 1022 HOH HOH . D 4 HOH A 23 1023 1023 HOH HOH . D 4 HOH A 24 1024 1024 HOH HOH . D 4 HOH A 25 1025 1025 HOH HOH . D 4 HOH A 26 1026 1026 HOH HOH . D 4 HOH A 27 1027 1027 HOH HOH . D 4 HOH A 28 1028 1028 HOH HOH . D 4 HOH A 29 1029 1029 HOH HOH . D 4 HOH A 30 1030 1030 HOH HOH . D 4 HOH A 31 1031 1031 HOH HOH . D 4 HOH A 32 1032 1032 HOH HOH . D 4 HOH A 33 1033 1033 HOH HOH . D 4 HOH A 34 1034 1034 HOH HOH . D 4 HOH A 35 1035 1035 HOH HOH . D 4 HOH A 36 1036 1036 HOH HOH . D 4 HOH A 37 1037 1037 HOH HOH . D 4 HOH A 38 1038 1038 HOH HOH . D 4 HOH A 39 1039 1039 HOH HOH . D 4 HOH A 40 1040 1040 HOH HOH . D 4 HOH A 41 1041 1041 HOH HOH . D 4 HOH A 42 1042 1042 HOH HOH . D 4 HOH A 43 1043 1043 HOH HOH . D 4 HOH A 44 1044 1044 HOH HOH . D 4 HOH A 45 1045 1045 HOH HOH . D 4 HOH A 46 1046 1046 HOH HOH . D 4 HOH A 47 1047 1047 HOH HOH . D 4 HOH A 48 1048 1048 HOH HOH . D 4 HOH A 49 1049 1049 HOH HOH . D 4 HOH A 50 1050 1050 HOH HOH . D 4 HOH A 51 1051 1051 HOH HOH . D 4 HOH A 52 1052 1052 HOH HOH . D 4 HOH A 53 1053 1053 HOH HOH . D 4 HOH A 54 1054 1054 HOH HOH . D 4 HOH A 55 1055 1055 HOH HOH . D 4 HOH A 56 1056 1056 HOH HOH . D 4 HOH A 57 1057 1057 HOH HOH . D 4 HOH A 58 1058 1058 HOH HOH . D 4 HOH A 59 1059 1059 HOH HOH . D 4 HOH A 60 1060 1060 HOH HOH . D 4 HOH A 61 1061 1061 HOH HOH . D 4 HOH A 62 1062 1062 HOH HOH . D 4 HOH A 63 1063 1063 HOH HOH . D 4 HOH A 64 1064 1064 HOH HOH . D 4 HOH A 65 1065 1065 HOH HOH . D 4 HOH A 66 1066 1066 HOH HOH . D 4 HOH A 67 1067 1067 HOH HOH . D 4 HOH A 68 1068 1068 HOH HOH . D 4 HOH A 69 1069 1069 HOH HOH . D 4 HOH A 70 1070 1070 HOH HOH . D 4 HOH A 71 1071 1071 HOH HOH . D 4 HOH A 72 1072 1072 HOH HOH . D 4 HOH A 73 1073 1073 HOH HOH . D 4 HOH A 74 1074 1074 HOH HOH . D 4 HOH A 75 1075 1075 HOH HOH . D 4 HOH A 76 1076 1076 HOH HOH . D 4 HOH A 77 1077 1077 HOH HOH . D 4 HOH A 78 1078 1078 HOH HOH . D 4 HOH A 79 1079 1079 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 12.705 9.752 38.86 1 21.63 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . B 2 12.199 10.755 37.832 1 18.97 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . B 2 13.482 8.598 38.269 1 22.06 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . B 2 13.655 10.333 39.866 1 20.26 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . B 2 11.467 9.149 39.646 1 18 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . B 2 10.249 9.965 40.272 1 14.8 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . B 2 9.781 10.914 39.233 1 12.39 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . B 2 10.606 10.561 41.591 1 13.74 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . B 2 9.149 8.928 40.55 1 14.22 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . B 2 8.078 8.287 39.607 1 14.19 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . B 2 8.803 7.859 38.389 1 14.59 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . B 2 6.86 9.116 39.441 1 13.02 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . B 2 7.6 7.053 40.44 1 14.26 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . B 2 8.513 6.012 40.794 1 15.56 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . B 2 7.738 4.728 41.002 1 15.83 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . B 2 6.936 4.836 42.211 1 16.15 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . B 2 6.758 4.358 39.891 1 18.04 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . B 2 6.702 2.945 39.802 1 18.58 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . B 2 5.438 4.937 40.408 1 18.21 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . B 2 4.282 4.284 39.931 1 18.15 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . B 2 5.571 4.683 41.911 1 16.01 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . B 2 4.818 5.623 42.735 1 15.24 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . B 2 4.811 6.996 42.645 1 14.24 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . B 2 4.047 7.564 43.53 1 15.04 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . B 2 3.516 6.502 44.256 1 14.35 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . B 2 2.601 6.495 45.339 1 14.9 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . B 2 2.074 7.474 45.901 1 12.98 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . B 2 2.323 5.189 45.78 1 13.28 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . B 2 2.86 4.039 45.228 1 14.22 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . B 2 2.482 2.874 45.772 1 15.43 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . B 2 3.703 4.034 44.206 1 13.7 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . B 2 3.983 5.296 43.772 1 14.49 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #