data_5CLQ # _model_server_result.job_id FvAqwbyaa13UrmJcF1ESUQ _model_server_result.datetime_utc '2024-11-24 19:47:40' _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 5clq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 5CLQ # _exptl.entry_id 5CLQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 90 _cell.angle_gamma 90 _cell.entry_id 5CLQ _cell.length_a 102.53 _cell.length_b 170.92 _cell.length_c 135.65 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CLQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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,I,O,P 1 1 C,D,J,K,L,M,N,Q,R 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 K 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 disulf ? disulf1 B SG CYS 142 B CYS 142 1_555 B SG CYS 142 B CYS 142 4_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf2 D SG CYS 142 D CYS 142 1_555 D SG CYS 142 D CYS 142 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc1 A OG1 THR 24 A THR 24 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc2 A OG1 THR 42 A THR 42 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc3 E O2G GNP . A GNP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc4 E O1B GNP . A GNP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc5 F MG MG . A MG 302 1_555 O O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc6 C OG1 THR 24 C THR 24 1_555 L MG MG . C MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? metalc ? metalc7 C OG1 THR 42 C THR 42 1_555 L MG MG . C MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc8 K O2G GNP . C GNP 302 1_555 L MG MG . C MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc9 K O2B GNP . C GNP 302 1_555 L MG MG . C MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc10 L MG MG . C MG 303 1_555 Q O HOH . C HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc11 L MG MG . C MG 303 1_555 Q O HOH . C HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? # _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 5CLQ _atom_sites.fract_transf_matrix[1][1] 0.009753 _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] 0.005851 _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] 0.007372 _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 GNP A 1 301 250 GNP GNP . F 4 MG A 1 302 251 MG MG . G 5 SO4 A 1 303 303 SO4 SO4 . H 5 SO4 A 1 304 306 SO4 SO4 . I 5 SO4 B 1 201 302 SO4 SO4 . J 5 SO4 C 1 301 301 SO4 SO4 . K 3 GNP C 1 302 250 GNP GNP . L 4 MG C 1 303 251 MG MG . M 5 SO4 D 1 201 304 SO4 SO4 . N 5 SO4 D 1 202 305 SO4 SO4 . O 6 HOH A 1 401 1 HOH HOH . O 6 HOH A 2 402 15 HOH HOH . O 6 HOH A 3 403 17 HOH HOH . O 6 HOH A 4 404 8 HOH HOH . P 6 HOH B 1 301 4 HOH HOH . P 6 HOH B 2 302 9 HOH HOH . Q 6 HOH C 1 401 11 HOH HOH . Q 6 HOH C 2 402 2 HOH HOH . Q 6 HOH C 3 403 5 HOH HOH . Q 6 HOH C 4 404 3 HOH HOH . R 6 HOH D 1 301 10 HOH HOH . R 6 HOH D 2 302 13 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 . . . E 3 -5.543 54.329 -25.522 1 92.32 ? PG GNP 301 A 1 HETATM 2 O O1G GNP . . . E 3 -6.12 54.244 -26.916 1 91.13 ? O1G GNP 301 A 1 HETATM 3 O O2G GNP . . . E 3 -4.045 54.159 -25.442 1 96.55 ? O2G GNP 301 A 1 HETATM 4 O O3G GNP . . . E 3 -6.359 53.36 -24.695 1 84.05 ? O3G GNP 301 A 1 HETATM 5 N N3B GNP . . . E 3 -5.823 55.77 -24.919 1 81.9 ? N3B GNP 301 A 1 HETATM 6 P PB GNP . . . E 3 -5.481 56.12 -23.408 1 80.72 ? PB GNP 301 A 1 HETATM 7 O O1B GNP . . . E 3 -4.067 55.731 -23.196 1 84.37 ? O1B GNP 301 A 1 HETATM 8 O O2B GNP . . . E 3 -6.488 55.55 -22.482 1 72.35 ? O2B GNP 301 A 1 HETATM 9 O O3A GNP . . . E 3 -5.543 57.634 -23.269 1 80.39 ? O3A GNP 301 A 1 HETATM 10 P PA GNP . . . E 3 -4.259 58.454 -23.264 1 83.95 ? PA GNP 301 A 1 HETATM 11 O O1A GNP . . . E 3 -3.493 58.213 -24.51 1 86.64 ? O1A GNP 301 A 1 HETATM 12 O O2A GNP . . . E 3 -3.572 58.199 -21.977 1 82.09 ? O2A GNP 301 A 1 HETATM 13 O O5' GNP . . . E 3 -4.672 59.978 -23.265 1 75.84 ? O5' GNP 301 A 1 HETATM 14 C C5' GNP . . . E 3 -5.786 60.391 -24.034 1 80.9 ? C5' GNP 301 A 1 HETATM 15 C C4' GNP . . . E 3 -6.025 61.88 -23.873 1 78.17 ? C4' GNP 301 A 1 HETATM 16 O O4' GNP . . . E 3 -6.514 62.151 -22.538 1 80.52 ? O4' GNP 301 A 1 HETATM 17 C C3' GNP . . . E 3 -4.789 62.751 -24.068 1 77.87 ? C3' GNP 301 A 1 HETATM 18 O O3' GNP . . . E 3 -5.04 63.699 -25.094 1 89.13 ? O3' GNP 301 A 1 HETATM 19 C C2' GNP . . . E 3 -4.585 63.437 -22.719 1 77.42 ? C2' GNP 301 A 1 HETATM 20 O O2' GNP . . . E 3 -4.182 64.786 -22.847 1 81.47 ? O2' GNP 301 A 1 HETATM 21 C C1' GNP . . . E 3 -5.979 63.382 -22.115 1 78.63 ? C1' GNP 301 A 1 HETATM 22 N N9 GNP . . . E 3 -5.962 63.408 -20.659 1 77.81 ? N9 GNP 301 A 1 HETATM 23 C C8 GNP . . . E 3 -5.449 62.447 -19.824 1 76.44 ? C8 GNP 301 A 1 HETATM 24 N N7 GNP . . . E 3 -5.573 62.739 -18.56 1 74.01 ? N7 GNP 301 A 1 HETATM 25 C C5 GNP . . . E 3 -6.209 63.973 -18.558 1 81.64 ? C5 GNP 301 A 1 HETATM 26 C C6 GNP . . . E 3 -6.608 64.787 -17.472 1 85.46 ? C6 GNP 301 A 1 HETATM 27 O O6 GNP . . . E 3 -6.462 64.561 -16.261 1 84.41 ? O6 GNP 301 A 1 HETATM 28 N N1 GNP . . . E 3 -7.228 65.962 -17.906 1 84.58 ? N1 GNP 301 A 1 HETATM 29 C C2 GNP . . . E 3 -7.432 66.305 -19.225 1 87.02 ? C2 GNP 301 A 1 HETATM 30 N N2 GNP . . . E 3 -8.042 67.479 -19.455 1 84.61 ? N2 GNP 301 A 1 HETATM 31 N N3 GNP . . . E 3 -7.061 65.545 -20.251 1 91.07 ? N3 GNP 301 A 1 HETATM 32 C C4 GNP . . . E 3 -6.457 64.399 -19.844 1 84.27 ? C4 GNP 301 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 749 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #