data_7XQV # _model_server_result.job_id 9FXZYQpg1ccyw5AIUSzXog _model_server_result.datetime_utc '2024-10-19 23:40:07' _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 7xqv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 7XQV # _exptl.entry_id 7XQV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 4 _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 7XQV _cell.length_a 142.03 _cell.length_b 142.03 _cell.length_c 69.26 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XQV _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _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 _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 4 _struct_asym.id D _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 disulf ? disulf1 B SG CYS 46 B CYS 25 1_555 B SG CYS 120 B CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc1 A OG1 THR 20 A THR 19 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc2 A OD1 ASP 60 A ASP 59 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? metalc ? metalc3 D O3G GNP . A GNP 202 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc4 D O2B GNP . A GNP 202 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? # _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 7XQV _atom_sites.fract_transf_matrix[1][1] 0.007041 _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] 0.007041 _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] 0.014438 _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 3 ALA A 1 201 181 ALA ALA . D 4 GNP A 1 202 300 GNP GNP . E 5 MG A 1 203 401 MG MG . F 6 HOH A 1 301 1 HOH HOH . F 6 HOH A 2 302 4 HOH HOH . F 6 HOH A 3 303 3 HOH HOH . G 6 HOH B 1 201 2 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 . . . D 4 -0.691 -31.957 18.037 1 52.61 ? PG GNP 202 A 1 HETATM 2 O O1G GNP . . . D 4 -0.958 -30.502 17.79 1 64.65 ? O1G GNP 202 A 1 HETATM 3 O O2G GNP . . . D 4 -1.512 -32.803 17.063 1 82.32 ? O2G GNP 202 A 1 HETATM 4 O O3G GNP . . . D 4 -1.091 -32.308 19.494 1 53.56 ? O3G GNP 202 A 1 HETATM 5 N N3B GNP . . . D 4 0.972 -32.279 17.821 1 50.18 ? N3B GNP 202 A 1 HETATM 6 P PB GNP . . . D 4 2.055 -31.614 18.857 1 59.66 ? PB GNP 202 A 1 HETATM 7 O O1B GNP . . . D 4 2.165 -30.135 18.587 1 68.89 ? O1B GNP 202 A 1 HETATM 8 O O2B GNP . . . D 4 1.594 -31.841 20.271 1 44.22 ? O2B GNP 202 A 1 HETATM 9 O O3A GNP . . . D 4 3.527 -32.314 18.651 1 75.12 ? O3A GNP 202 A 1 HETATM 10 P PA GNP . . . D 4 3.973 -33.651 19.391 1 63.45 ? PA GNP 202 A 1 HETATM 11 O O1A GNP . . . D 4 4.55 -33.248 20.746 1 65.68 ? O1A GNP 202 A 1 HETATM 12 O O2A GNP . . . D 4 2.88 -34.644 19.437 1 80.07 ? O2A GNP 202 A 1 HETATM 13 O O5' GNP . . . D 4 5.143 -34.178 18.481 1 85.53 ? O5' GNP 202 A 1 HETATM 14 C C5' GNP . . . D 4 4.981 -34.313 17.054 1 77.56 ? C5' GNP 202 A 1 HETATM 15 C C4' GNP . . . D 4 6.124 -35.127 16.497 1 88.35 ? C4' GNP 202 A 1 HETATM 16 O O4' GNP . . . D 4 7.36 -34.387 16.629 1 83.17 ? O4' GNP 202 A 1 HETATM 17 C C3' GNP . . . D 4 6.359 -36.481 17.168 1 68.6 ? C3' GNP 202 A 1 HETATM 18 O O3' GNP . . . D 4 6.709 -37.474 16.21 1 71.89 ? O3' GNP 202 A 1 HETATM 19 C C2' GNP . . . D 4 7.511 -36.191 18.133 1 75.57 ? C2' GNP 202 A 1 HETATM 20 O O2' GNP . . . D 4 8.301 -37.348 18.383 1 73.67 ? O2' GNP 202 A 1 HETATM 21 C C1' GNP . . . D 4 8.309 -35.154 17.344 1 81.76 ? C1' GNP 202 A 1 HETATM 22 N N9 GNP . . . D 4 9.094 -34.246 18.195 1 85.37 ? N9 GNP 202 A 1 HETATM 23 C C8 GNP . . . D 4 8.629 -33.424 19.189 1 85.29 ? C8 GNP 202 A 1 HETATM 24 N N7 GNP . . . D 4 9.579 -32.729 19.774 1 76.87 ? N7 GNP 202 A 1 HETATM 25 C C5 GNP . . . D 4 10.738 -33.122 19.125 1 85.17 ? C5 GNP 202 A 1 HETATM 26 C C6 GNP . . . D 4 12.113 -32.718 19.307 1 83.79 ? C6 GNP 202 A 1 HETATM 27 O O6 GNP . . . D 4 12.553 -31.906 20.117 1 93.37 ? O6 GNP 202 A 1 HETATM 28 N N1 GNP . . . D 4 12.96 -33.366 18.431 1 110.17 ? N1 GNP 202 A 1 HETATM 29 C C2 GNP . . . D 4 12.573 -34.285 17.492 1 94.21 ? C2 GNP 202 A 1 HETATM 30 N N2 GNP . . . D 4 13.533 -34.813 16.732 1 91.66 ? N2 GNP 202 A 1 HETATM 31 N N3 GNP . . . D 4 11.309 -34.666 17.312 1 82.57 ? N3 GNP 202 A 1 HETATM 32 C C4 GNP . . . D 4 10.454 -34.052 18.15 1 90.02 ? C4 GNP 202 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #