data_6GQY # _model_server_result.job_id W02OdgaSMek3FQRwzr6r7w _model_server_result.datetime_utc '2024-11-02 12:18:08' _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 6gqy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":202}' # _entry.id 6GQY # _exptl.entry_id 6GQY _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 6 _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 6GQY _cell.length_a 63.531 _cell.length_b 118.678 _cell.length_c 156.996 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GQY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 ? monomeric 1 author_defined_assembly 5 ? monomeric 1 author_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,G,H,I,W 1 1 B,J,K,L,X 2 1 C,M,N,O,Y 3 1 D,P,Q,R,Z 4 1 E,S,T,AA 5 1 F,U,V,BA 6 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 H N N ? 3 K N N ? 3 N N N ? 3 Q N N ? 3 T N N ? 3 V 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 metalc ? metalc1 A OG SER 21 A SER 17 1_555 G MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc2 A OG1 THR 39 A THR 35 1_555 G MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc3 G MG MG . A MG 201 1_555 H O2B GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc4 G MG MG . A MG 201 1_555 H O2G GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc5 G MG MG . A MG 201 1_555 W O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc6 B OG SER 21 B SER 17 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc7 B OG1 THR 39 B THR 35 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc8 J MG MG . B MG 201 1_555 K O2B GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc9 J MG MG . B MG 201 1_555 K O1A GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? metalc ? metalc10 J MG MG . B MG 201 1_555 K O2G GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc11 J MG MG . B MG 201 1_555 X O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc12 C OG SER 21 C SER 17 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc13 C OG1 THR 39 C THR 35 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc14 M MG MG . C MG 201 1_555 N O1G GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc15 M MG MG . C MG 201 1_555 N O1B GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc16 D OG SER 21 D SER 17 1_555 P MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc17 D OG1 THR 39 D THR 35 1_555 P MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc18 P MG MG . D MG 201 1_555 Q O2G GNP . D GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc19 P MG MG . D MG 201 1_555 Q O2B GNP . D GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc20 E OG SER 21 E SER 17 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc21 E OG1 THR 39 E THR 35 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc22 E O THR 62 E THR 58 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.962 ? metalc ? metalc23 S MG MG . E MG 201 1_555 T O1G GNP . E GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc24 S MG MG . E MG 201 1_555 T O1B GNP . E GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? metalc ? metalc25 F OG SER 21 F SER 17 1_555 U MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc26 F OG1 THR 39 F THR 35 1_555 U MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc27 U MG MG . F MG 201 1_555 V O1B GNP . F GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc28 U MG MG . F MG 201 1_555 V O1G GNP . F GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? # _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 185 n n PG O2G GNP sing 186 n n PG O3G GNP sing 187 n n PG N3B GNP sing 188 n n O2G HOG2 GNP sing 189 n n O3G HOG3 GNP sing 190 n n N3B PB GNP sing 191 n n N3B HNB3 GNP sing 192 n n PB O1B GNP doub 193 n n PB O2B GNP sing 194 n n PB O3A GNP sing 195 n n O2B HOB2 GNP sing 196 n n O3A PA GNP sing 197 n n PA O1A GNP doub 198 n n PA O2A GNP sing 199 n n PA O5' GNP sing 200 n n O2A HOA2 GNP sing 201 n n O5' C5' GNP sing 202 n n C5' C4' GNP sing 203 n n C5' "H5'2" GNP sing 204 n n C5' "H5'1" GNP sing 205 n n C4' O4' GNP sing 206 n n C4' C3' GNP sing 207 n n C4' H4' GNP sing 208 n n O4' C1' GNP sing 209 n n C3' O3' GNP sing 210 n n C3' C2' GNP sing 211 n n C3' H3' GNP sing 212 n n O3' HO3' GNP sing 213 n n C2' O2' GNP sing 214 n n C2' C1' GNP sing 215 n n C2' H2' GNP sing 216 n n O2' HO2' GNP sing 217 n n C1' N9 GNP sing 218 n n C1' H1' GNP sing 219 n n N9 C8 GNP sing 220 n y N9 C4 GNP sing 221 n y C8 N7 GNP doub 222 n y C8 H8 GNP sing 223 n n N7 C5 GNP sing 224 n y C5 C6 GNP sing 225 n y C5 C4 GNP doub 226 n y C6 O6 GNP doub 227 n n C6 N1 GNP sing 228 n y N1 C2 GNP sing 229 n y N1 HN1 GNP sing 230 n n C2 N2 GNP sing 231 n n C2 N3 GNP doub 232 n y N2 HN21 GNP sing 233 n n N2 HN22 GNP sing 234 n n N3 C4 GNP sing 235 n y # _atom_sites.entry_id 6GQY _atom_sites.fract_transf_matrix[1][1] 0.01574 _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] 0.008426 _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] 0.00637 _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 G 2 MG A 1 201 202 MG MG . H 3 GNP A 1 202 201 GNP GNP . I 4 F8Q A 1 203 203 F8Q 902 . J 2 MG B 1 201 202 MG MG . K 3 GNP B 1 202 201 GNP GNP . L 4 F8Q B 1 203 203 F8Q 902 . M 2 MG C 1 201 202 MG MG . N 3 GNP C 1 202 201 GNP GNP . O 4 F8Q C 1 203 203 F8Q 902 . P 2 MG D 1 201 202 MG MG . Q 3 GNP D 1 202 201 GNP GNP . R 4 F8Q D 1 203 203 F8Q 902 . S 2 MG E 1 201 202 MG MG . T 3 GNP E 1 202 201 GNP GNP . U 2 MG F 1 201 202 MG MG . V 3 GNP F 1 202 201 GNP GNP . W 5 HOH A 1 301 218 HOH HOH . W 5 HOH A 2 302 119 HOH HOH . W 5 HOH A 3 303 120 HOH HOH . W 5 HOH A 4 304 213 HOH HOH . W 5 HOH A 5 305 1 HOH HOH . W 5 HOH A 6 306 124 HOH HOH . W 5 HOH A 7 307 45 HOH HOH . W 5 HOH A 8 308 18 HOH HOH . W 5 HOH A 9 309 40 HOH HOH . W 5 HOH A 10 310 56 HOH HOH . W 5 HOH A 11 311 29 HOH HOH . W 5 HOH A 12 312 214 HOH HOH . X 5 HOH B 1 301 116 HOH HOH . X 5 HOH B 2 302 24 HOH HOH . X 5 HOH B 3 303 219 HOH HOH . X 5 HOH B 4 304 115 HOH HOH . X 5 HOH B 5 305 122 HOH HOH . X 5 HOH B 6 306 129 HOH HOH . X 5 HOH B 7 307 25 HOH HOH . X 5 HOH B 8 308 112 HOH HOH . X 5 HOH B 9 309 7 HOH HOH . X 5 HOH B 10 310 79 HOH HOH . Y 5 HOH C 1 301 66 HOH HOH . Y 5 HOH C 2 302 125 HOH HOH . Y 5 HOH C 3 303 121 HOH HOH . Y 5 HOH C 4 304 11 HOH HOH . Y 5 HOH C 5 305 114 HOH HOH . Y 5 HOH C 6 306 123 HOH HOH . Y 5 HOH C 7 307 21 HOH HOH . Y 5 HOH C 8 308 13 HOH HOH . Y 5 HOH C 9 309 29 HOH HOH . Z 5 HOH D 1 301 128 HOH HOH . Z 5 HOH D 2 302 126 HOH HOH . Z 5 HOH D 3 303 120 HOH HOH . Z 5 HOH D 4 304 49 HOH HOH . Z 5 HOH D 5 305 217 HOH HOH . Z 5 HOH D 6 306 23 HOH HOH . Z 5 HOH D 7 307 4 HOH HOH . Z 5 HOH D 8 308 34 HOH HOH . AA 5 HOH E 1 301 127 HOH HOH . AA 5 HOH E 2 302 9 HOH HOH . AA 5 HOH E 3 303 117 HOH HOH . AA 5 HOH E 4 304 6 HOH HOH . AA 5 HOH E 5 305 27 HOH HOH . AA 5 HOH E 6 306 170 HOH HOH . BA 5 HOH F 1 301 216 HOH HOH . BA 5 HOH F 2 302 118 HOH HOH . BA 5 HOH F 3 303 42 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 . . . N 3 76.918 94.31 49.007 1 81.49 ? PG GNP 202 C 1 HETATM 2 O O1G GNP . . . N 3 76.123 93.974 47.762 1 93.58 ? O1G GNP 202 C 1 HETATM 3 O O2G GNP . . . N 3 78.004 95.313 48.621 1 69.15 ? O2G GNP 202 C 1 HETATM 4 O O3G GNP . . . N 3 77.494 93.021 49.582 1 88.96 ? O3G GNP 202 C 1 HETATM 5 N N3B GNP . . . N 3 75.879 94.885 50.113 1 58.58 ? N3B GNP 202 C 1 HETATM 6 P PB GNP . . . N 3 74.812 96.011 49.728 1 43.64 ? PB GNP 202 C 1 HETATM 7 O O1B GNP . . . N 3 74.142 95.539 48.466 1 41.39 ? O1B GNP 202 C 1 HETATM 8 O O2B GNP . . . N 3 75.377 97.404 49.819 1 38.65 ? O2B GNP 202 C 1 HETATM 9 O O3A GNP . . . N 3 73.658 95.841 50.811 1 41.77 ? O3A GNP 202 C 1 HETATM 10 P PA GNP . . . N 3 72.227 95.209 50.509 1 36.36 ? PA GNP 202 C 1 HETATM 11 O O1A GNP . . . N 3 71.526 96.164 49.599 1 41.17 ? O1A GNP 202 C 1 HETATM 12 O O2A GNP . . . N 3 72.439 93.791 50.104 1 36.42 ? O2A GNP 202 C 1 HETATM 13 O O5' GNP . . . N 3 71.512 95.271 51.934 1 38.13 ? O5' GNP 202 C 1 HETATM 14 C C5' GNP . . . N 3 72.148 94.7 53.1 1 35.45 ? C5' GNP 202 C 1 HETATM 15 C C4' GNP . . . N 3 71.102 94.489 54.164 1 33.33 ? C4' GNP 202 C 1 HETATM 16 O O4' GNP . . . N 3 70.73 95.786 54.674 1 33.08 ? O4' GNP 202 C 1 HETATM 17 C C3' GNP . . . N 3 69.784 93.836 53.717 1 33.74 ? C3' GNP 202 C 1 HETATM 18 O O3' GNP . . . N 3 69.195 93.009 54.716 1 34.79 ? O3' GNP 202 C 1 HETATM 19 C C2' GNP . . . N 3 68.86 95.034 53.49 1 32.15 ? C2' GNP 202 C 1 HETATM 20 O O2' GNP . . . N 3 67.497 94.722 53.689 1 34.58 ? O2' GNP 202 C 1 HETATM 21 C C1' GNP . . . N 3 69.338 95.955 54.59 1 31.64 ? C1' GNP 202 C 1 HETATM 22 N N9 GNP . . . N 3 69.06 97.359 54.347 1 33.78 ? N9 GNP 202 C 1 HETATM 23 C C8 GNP . . . N 3 69.524 98.166 53.341 1 33.23 ? C8 GNP 202 C 1 HETATM 24 N N7 GNP . . . N 3 69.078 99.396 53.425 1 34.52 ? N7 GNP 202 C 1 HETATM 25 C C5 GNP . . . N 3 68.285 99.395 54.566 1 35.75 ? C5 GNP 202 C 1 HETATM 26 C C6 GNP . . . N 3 67.536 100.435 55.169 1 35.55 ? C6 GNP 202 C 1 HETATM 27 O O6 GNP . . . N 3 67.445 101.61 54.806 1 34.68 ? O6 GNP 202 C 1 HETATM 28 N N1 GNP . . . N 3 66.871 99.997 56.314 1 35.97 ? N1 GNP 202 C 1 HETATM 29 C C2 GNP . . . N 3 66.918 98.715 56.814 1 37.18 ? C2 GNP 202 C 1 HETATM 30 N N2 GNP . . . N 3 66.213 98.455 57.925 1 38.41 ? N2 GNP 202 C 1 HETATM 31 N N3 GNP . . . N 3 67.609 97.733 56.242 1 34.65 ? N3 GNP 202 C 1 HETATM 32 C C4 GNP . . . N 3 68.267 98.146 55.137 1 34.29 ? C4 GNP 202 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 209 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #