data_1LF0 # _model_server_result.job_id v95OJmy4G0zMSPX9pyJT4A _model_server_result.datetime_utc '2024-11-28 12:09:34' _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 1lf0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":167}' # _entry.id 1LF0 # _exptl.entry_id 1LF0 _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 120 _cell.entry_id 1LF0 _cell.length_a 89.129 _cell.length_b 89.129 _cell.length_c 134.654 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1LF0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _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,E,F _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 E _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 17 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc2 A O PHE 28 A PHE 28 12_555 D CA CA . A CA 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc3 A OD2 ASP 30 A ASP 30 12_555 D CA CA . A CA 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc4 A OE2 GLU 31 A GLU 31 1_555 D CA CA . A CA 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc5 A OD1 ASP 33 A ASP 33 1_555 D CA CA . A CA 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc6 A OD2 ASP 33 A ASP 33 1_555 D CA CA . A CA 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? metalc ? metalc7 A OG1 THR 35 A THR 35 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc8 A O ARG 102 A ARG 102 1_555 C CA CA . A CA 169 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc9 A O ARG 102 A ARG 102 1_555 C CA CA . A CA 169 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc10 A O ARG 102 A ARG 102 11_565 C CA CA . A CA 169 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.643 ? metalc ? metalc11 A O ARG 102 A ARG 102 11_565 C CA CA . A CA 169 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc12 A OD1 ASP 105 A ASP 105 1_555 C CA CA . A CA 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc13 A OD2 ASP 105 A ASP 105 1_555 C CA CA . A CA 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.771 ? metalc ? metalc14 A OD1 ASP 105 A ASP 105 11_565 C CA CA . A CA 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc15 A OD2 ASP 105 A ASP 105 11_565 C CA CA . A CA 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? metalc ? metalc16 E O3G GNP . A GNP 167 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc17 E O2B GNP . A GNP 167 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc18 B MG MG . A MG 168 1_555 F O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc19 B MG MG . A MG 168 1_555 F O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc20 C CA CA . A CA 169 1_555 F O HOH . A HOH 415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc21 C CA CA . A CA 169 1_555 F O HOH . A HOH 415 11_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc22 D CA CA . A CA 170 1_555 F O HOH . A HOH 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc23 D CA CA . A CA 170 1_555 F O HOH . A HOH 388 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? # _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 1LF0 _atom_sites.fract_transf_matrix[1][1] 0.01122 _atom_sites.fract_transf_matrix[1][2] 0.006478 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012955 _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] 0.007426 _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 MG A 1 168 168 MG MG . C 3 CA A 1 169 169 CA CA . D 3 CA A 1 170 170 CA CA . E 4 GNP A 1 167 167 GNP GNP . F 5 HOH A 1 301 301 HOH HOH . F 5 HOH A 2 302 302 HOH HOH . F 5 HOH A 3 303 303 HOH HOH . F 5 HOH A 4 304 304 HOH HOH . F 5 HOH A 5 305 305 HOH HOH . F 5 HOH A 6 306 306 HOH HOH . F 5 HOH A 7 307 307 HOH HOH . F 5 HOH A 8 308 308 HOH HOH . F 5 HOH A 9 309 309 HOH HOH . F 5 HOH A 10 310 310 HOH HOH . F 5 HOH A 11 311 311 HOH HOH . F 5 HOH A 12 312 312 HOH HOH . F 5 HOH A 13 313 313 HOH HOH . F 5 HOH A 14 314 314 HOH HOH . F 5 HOH A 15 315 315 HOH HOH . F 5 HOH A 16 316 316 HOH HOH . F 5 HOH A 17 317 317 HOH HOH . F 5 HOH A 18 318 318 HOH HOH . F 5 HOH A 19 319 319 HOH HOH . F 5 HOH A 20 320 320 HOH HOH . F 5 HOH A 21 321 321 HOH HOH . F 5 HOH A 22 322 322 HOH HOH . F 5 HOH A 23 323 323 HOH HOH . F 5 HOH A 24 324 324 HOH HOH . F 5 HOH A 25 325 325 HOH HOH . F 5 HOH A 26 326 326 HOH HOH . F 5 HOH A 27 327 327 HOH HOH . F 5 HOH A 28 328 328 HOH HOH . F 5 HOH A 29 329 329 HOH HOH . F 5 HOH A 30 330 330 HOH HOH . F 5 HOH A 31 331 331 HOH HOH . F 5 HOH A 32 332 332 HOH HOH . F 5 HOH A 33 333 333 HOH HOH . F 5 HOH A 34 334 334 HOH HOH . F 5 HOH A 35 335 335 HOH HOH . F 5 HOH A 36 336 336 HOH HOH . F 5 HOH A 37 337 337 HOH HOH . F 5 HOH A 38 338 338 HOH HOH . F 5 HOH A 39 339 339 HOH HOH . F 5 HOH A 40 340 340 HOH HOH . F 5 HOH A 41 341 341 HOH HOH . F 5 HOH A 42 342 342 HOH HOH . F 5 HOH A 43 343 343 HOH HOH . F 5 HOH A 44 344 344 HOH HOH . F 5 HOH A 45 345 345 HOH HOH . F 5 HOH A 46 346 346 HOH HOH . F 5 HOH A 47 347 347 HOH HOH . F 5 HOH A 48 348 348 HOH HOH . F 5 HOH A 49 349 349 HOH HOH . F 5 HOH A 50 350 350 HOH HOH . F 5 HOH A 51 351 351 HOH HOH . F 5 HOH A 52 352 352 HOH HOH . F 5 HOH A 53 353 353 HOH HOH . F 5 HOH A 54 354 354 HOH HOH . F 5 HOH A 55 355 355 HOH HOH . F 5 HOH A 56 356 356 HOH HOH . F 5 HOH A 57 357 357 HOH HOH . F 5 HOH A 58 358 358 HOH HOH . F 5 HOH A 59 359 359 HOH HOH . F 5 HOH A 60 360 360 HOH HOH . F 5 HOH A 61 361 361 HOH HOH . F 5 HOH A 62 362 362 HOH HOH . F 5 HOH A 63 363 363 HOH HOH . F 5 HOH A 64 364 364 HOH HOH . F 5 HOH A 65 365 365 HOH HOH . F 5 HOH A 66 366 366 HOH HOH . F 5 HOH A 67 367 367 HOH HOH . F 5 HOH A 68 368 368 HOH HOH . F 5 HOH A 69 369 369 HOH HOH . F 5 HOH A 70 370 370 HOH HOH . F 5 HOH A 71 371 371 HOH HOH . F 5 HOH A 72 372 372 HOH HOH . F 5 HOH A 73 373 373 HOH HOH . F 5 HOH A 74 374 374 HOH HOH . F 5 HOH A 75 375 375 HOH HOH . F 5 HOH A 76 376 376 HOH HOH . F 5 HOH A 77 377 377 HOH HOH . F 5 HOH A 78 378 378 HOH HOH . F 5 HOH A 79 379 379 HOH HOH . F 5 HOH A 80 380 380 HOH HOH . F 5 HOH A 81 381 381 HOH HOH . F 5 HOH A 82 382 382 HOH HOH . F 5 HOH A 83 383 383 HOH HOH . F 5 HOH A 84 384 384 HOH HOH . F 5 HOH A 85 385 385 HOH HOH . F 5 HOH A 86 386 386 HOH HOH . F 5 HOH A 87 387 387 HOH HOH . F 5 HOH A 88 388 388 HOH HOH . F 5 HOH A 89 389 389 HOH HOH . F 5 HOH A 90 390 390 HOH HOH . F 5 HOH A 91 391 391 HOH HOH . F 5 HOH A 92 392 392 HOH HOH . F 5 HOH A 93 393 393 HOH HOH . F 5 HOH A 94 394 394 HOH HOH . F 5 HOH A 95 395 395 HOH HOH . F 5 HOH A 96 396 396 HOH HOH . F 5 HOH A 97 397 397 HOH HOH . F 5 HOH A 98 398 398 HOH HOH . F 5 HOH A 99 399 399 HOH HOH . F 5 HOH A 100 400 400 HOH HOH . F 5 HOH A 101 401 401 HOH HOH . F 5 HOH A 102 402 402 HOH HOH . F 5 HOH A 103 403 403 HOH HOH . F 5 HOH A 104 404 404 HOH HOH . F 5 HOH A 105 405 405 HOH HOH . F 5 HOH A 106 406 406 HOH HOH . F 5 HOH A 107 407 407 HOH HOH . F 5 HOH A 108 408 408 HOH HOH . F 5 HOH A 109 409 409 HOH HOH . F 5 HOH A 110 410 410 HOH HOH . F 5 HOH A 111 411 411 HOH HOH . F 5 HOH A 112 412 412 HOH HOH . F 5 HOH A 113 413 413 HOH HOH . F 5 HOH A 114 414 414 HOH HOH . F 5 HOH A 115 415 415 HOH HOH . F 5 HOH A 116 416 416 HOH HOH . F 5 HOH A 117 417 417 HOH HOH . F 5 HOH A 118 418 418 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 4 -27.846 75.318 22.461 1 13.21 ? PG GNP 167 A 1 HETATM 2 O O1G GNP . . . E 4 -28.71 74.261 23.142 1 15.8 ? O1G GNP 167 A 1 HETATM 3 O O2G GNP . . . E 4 -28.63 76.084 21.379 1 12.91 ? O2G GNP 167 A 1 HETATM 4 O O3G GNP . . . E 4 -26.43 75.025 22.208 1 14.04 ? O3G GNP 167 A 1 HETATM 5 N N3B GNP . . . E 4 -27.743 76.442 23.622 1 12.46 ? N3B GNP 167 A 1 HETATM 6 P PB GNP . . . E 4 -26.956 76.339 25.038 1 12.12 ? PB GNP 167 A 1 HETATM 7 O O1B GNP . . . E 4 -27.74 75.401 25.949 1 11.86 ? O1B GNP 167 A 1 HETATM 8 O O2B GNP . . . E 4 -25.564 75.873 24.736 1 12.34 ? O2B GNP 167 A 1 HETATM 9 O O3A GNP . . . E 4 -27.009 77.814 25.535 1 11.11 ? O3A GNP 167 A 1 HETATM 10 P PA GNP . . . E 4 -25.714 78.827 25.623 1 11.08 ? PA GNP 167 A 1 HETATM 11 O O1A GNP . . . E 4 -24.656 78.309 26.542 1 11.57 ? O1A GNP 167 A 1 HETATM 12 O O2A GNP . . . E 4 -25.357 79.209 24.262 1 13.42 ? O2A GNP 167 A 1 HETATM 13 O O5' GNP . . . E 4 -26.441 80.053 26.379 1 11.07 ? O5' GNP 167 A 1 HETATM 14 C C5' GNP . . . E 4 -27.57 80.749 25.782 1 10.96 ? C5' GNP 167 A 1 HETATM 15 C C4' GNP . . . E 4 -27.676 82.153 26.388 1 13.09 ? C4' GNP 167 A 1 HETATM 16 O O4' GNP . . . E 4 -27.87 82.057 27.799 1 12.06 ? O4' GNP 167 A 1 HETATM 17 C C3' GNP . . . E 4 -26.421 83.01 26.193 1 13.07 ? C3' GNP 167 A 1 HETATM 18 O O3' GNP . . . E 4 -26.818 84.322 25.838 1 14.31 ? O3' GNP 167 A 1 HETATM 19 C C2' GNP . . . E 4 -25.685 82.963 27.545 1 12.05 ? C2' GNP 167 A 1 HETATM 20 O O2' GNP . . . E 4 -24.865 84.105 27.834 1 12.62 ? O2' GNP 167 A 1 HETATM 21 C C1' GNP . . . E 4 -26.857 82.788 28.496 1 10.93 ? C1' GNP 167 A 1 HETATM 22 N N9 GNP . . . E 4 -26.485 82.024 29.676 1 11.93 ? N9 GNP 167 A 1 HETATM 23 C C8 GNP . . . E 4 -25.982 80.749 29.792 1 12.48 ? C8 GNP 167 A 1 HETATM 24 N N7 GNP . . . E 4 -25.741 80.36 31.003 1 11.75 ? N7 GNP 167 A 1 HETATM 25 C C5 GNP . . . E 4 -26.114 81.456 31.763 1 11.35 ? C5 GNP 167 A 1 HETATM 26 C C6 GNP . . . E 4 -26.077 81.647 33.199 1 11.69 ? C6 GNP 167 A 1 HETATM 27 O O6 GNP . . . E 4 -25.693 80.847 34.054 1 12.76 ? O6 GNP 167 A 1 HETATM 28 N N1 GNP . . . E 4 -26.549 82.923 33.581 1 14 ? N1 GNP 167 A 1 HETATM 29 C C2 GNP . . . E 4 -27.01 83.918 32.698 1 15.46 ? C2 GNP 167 A 1 HETATM 30 N N2 GNP . . . E 4 -27.42 85.073 33.242 1 14.73 ? N2 GNP 167 A 1 HETATM 31 N N3 GNP . . . E 4 -27.043 83.739 31.357 1 11.95 ? N3 GNP 167 A 1 HETATM 32 C C4 GNP . . . E 4 -26.582 82.491 30.963 1 11.29 ? C4 GNP 167 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 32 #