data_4O25 # _model_server_result.job_id iU-bVJBNLb8-54BPDxMCuw _model_server_result.datetime_utc '2024-11-28 01:18:13' _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 4o25 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":202}' # _entry.id 4O25 # _exptl.entry_id 4O25 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _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 4O25 _cell.length_a 57.746 _cell.length_b 70.461 _cell.length_c 79.771 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4O25 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,G 1 1 B,E,F,H 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 ? 2 C N N ? 2 F 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 22 A SER 20 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.776 ? metalc ? metalc2 A O THR 63 A THR 61 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.928 ? metalc ? metalc3 C O3G GTP . A GTP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.78 ? metalc ? metalc4 C O1B GTP . A GTP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc5 D MG MG . A MG 202 1_555 G O HOH . A HOH 373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc6 B OG SER 22 B SER 20 1_555 E MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.883 ? metalc ? metalc7 B O ASP 38 B ASP 36 1_555 E MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? metalc ? metalc8 B OG1 THR 40 B THR 38 1_555 E MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc9 E MG MG . B MG 201 1_555 F O1B GTP . B GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc10 E MG MG . B MG 201 1_555 F O3G GTP . B GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc11 E MG MG . B MG 201 1_555 F O1A GTP . B GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.87 ? # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id GTP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-TRIPHOSPHATE" _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 GTP doub 116 n n PG O2G GTP sing 117 n n PG O3G GTP sing 118 n n PG O3B GTP sing 119 n n O2G HOG2 GTP sing 120 n n O3G HOG3 GTP sing 121 n n O3B PB GTP sing 122 n n PB O1B GTP doub 123 n n PB O2B GTP sing 124 n n PB O3A GTP sing 125 n n O2B HOB2 GTP sing 126 n n O3A PA GTP sing 127 n n PA O1A GTP doub 128 n n PA O2A GTP sing 129 n n PA O5' GTP sing 130 n n O2A HOA2 GTP sing 131 n n O5' C5' GTP sing 132 n n C5' C4' GTP sing 133 n n C5' H5' GTP sing 134 n n C5' "H5''" GTP sing 135 n n C4' O4' GTP sing 136 n n C4' C3' GTP sing 137 n n C4' H4' GTP sing 138 n n O4' C1' GTP sing 139 n n C3' O3' GTP sing 140 n n C3' C2' GTP sing 141 n n C3' H3' GTP sing 142 n n O3' HO3' GTP sing 143 n n C2' O2' GTP sing 144 n n C2' C1' GTP sing 145 n n C2' H2' GTP sing 146 n n O2' HO2' GTP sing 147 n n C1' N9 GTP sing 148 n n C1' H1' GTP sing 149 n n N9 C8 GTP sing 150 n y N9 C4 GTP sing 151 n y C8 N7 GTP doub 152 n y C8 H8 GTP sing 153 n n N7 C5 GTP sing 154 n y C5 C6 GTP sing 155 n n C5 C4 GTP doub 156 n y C6 O6 GTP doub 157 n n C6 N1 GTP sing 158 n n N1 C2 GTP sing 159 n n N1 HN1 GTP sing 160 n n C2 N2 GTP sing 161 n n C2 N3 GTP doub 162 n n N2 HN21 GTP sing 163 n n N2 HN22 GTP sing 164 n n N3 C4 GTP sing 165 n n # _atom_sites.entry_id 4O25 _atom_sites.fract_transf_matrix[1][1] 0.017317 _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] 0.014192 _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] 0.012536 _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 2 GTP A 1 201 201 GTP GTP . D 3 MG A 1 202 202 MG MG . E 3 MG B 1 201 201 MG MG . F 2 GTP B 1 202 202 GTP GTP . G 4 HOH A 1 301 301 HOH HOH . G 4 HOH A 2 302 302 HOH HOH . G 4 HOH A 3 303 303 HOH HOH . G 4 HOH A 4 304 304 HOH HOH . G 4 HOH A 5 305 305 HOH HOH . G 4 HOH A 6 306 306 HOH HOH . G 4 HOH A 7 307 307 HOH HOH . G 4 HOH A 8 308 308 HOH HOH . G 4 HOH A 9 309 309 HOH HOH . G 4 HOH A 10 310 310 HOH HOH . G 4 HOH A 11 311 311 HOH HOH . G 4 HOH A 12 312 312 HOH HOH . G 4 HOH A 13 313 313 HOH HOH . G 4 HOH A 14 314 314 HOH HOH . G 4 HOH A 15 315 315 HOH HOH . G 4 HOH A 16 316 316 HOH HOH . G 4 HOH A 17 317 317 HOH HOH . G 4 HOH A 18 318 319 HOH HOH . G 4 HOH A 19 319 320 HOH HOH . G 4 HOH A 20 320 321 HOH HOH . G 4 HOH A 21 321 322 HOH HOH . G 4 HOH A 22 322 324 HOH HOH . G 4 HOH A 23 323 325 HOH HOH . G 4 HOH A 24 324 326 HOH HOH . G 4 HOH A 25 325 327 HOH HOH . G 4 HOH A 26 326 328 HOH HOH . G 4 HOH A 27 327 329 HOH HOH . G 4 HOH A 28 328 330 HOH HOH . G 4 HOH A 29 329 331 HOH HOH . G 4 HOH A 30 330 332 HOH HOH . G 4 HOH A 31 331 333 HOH HOH . G 4 HOH A 32 332 334 HOH HOH . G 4 HOH A 33 333 335 HOH HOH . G 4 HOH A 34 334 336 HOH HOH . G 4 HOH A 35 335 337 HOH HOH . G 4 HOH A 36 336 338 HOH HOH . G 4 HOH A 37 337 339 HOH HOH . G 4 HOH A 38 338 340 HOH HOH . G 4 HOH A 39 339 341 HOH HOH . G 4 HOH A 40 340 342 HOH HOH . G 4 HOH A 41 341 343 HOH HOH . G 4 HOH A 42 342 344 HOH HOH . G 4 HOH A 43 343 345 HOH HOH . G 4 HOH A 44 344 346 HOH HOH . G 4 HOH A 45 345 347 HOH HOH . G 4 HOH A 46 346 348 HOH HOH . G 4 HOH A 47 347 349 HOH HOH . G 4 HOH A 48 348 350 HOH HOH . G 4 HOH A 49 349 351 HOH HOH . G 4 HOH A 50 350 352 HOH HOH . G 4 HOH A 51 351 353 HOH HOH . G 4 HOH A 52 352 354 HOH HOH . G 4 HOH A 53 353 355 HOH HOH . G 4 HOH A 54 354 356 HOH HOH . G 4 HOH A 55 355 358 HOH HOH . G 4 HOH A 56 356 359 HOH HOH . G 4 HOH A 57 357 360 HOH HOH . G 4 HOH A 58 358 361 HOH HOH . G 4 HOH A 59 359 362 HOH HOH . G 4 HOH A 60 360 363 HOH HOH . G 4 HOH A 61 361 364 HOH HOH . G 4 HOH A 62 362 365 HOH HOH . G 4 HOH A 63 363 366 HOH HOH . G 4 HOH A 64 364 367 HOH HOH . G 4 HOH A 65 365 368 HOH HOH . G 4 HOH A 66 366 369 HOH HOH . G 4 HOH A 67 367 370 HOH HOH . G 4 HOH A 68 368 371 HOH HOH . G 4 HOH A 69 369 372 HOH HOH . G 4 HOH A 70 370 373 HOH HOH . G 4 HOH A 71 371 374 HOH HOH . G 4 HOH A 72 372 375 HOH HOH . G 4 HOH A 73 373 376 HOH HOH . G 4 HOH A 74 374 377 HOH HOH . G 4 HOH A 75 375 378 HOH HOH . G 4 HOH A 76 376 379 HOH HOH . G 4 HOH A 77 377 380 HOH HOH . G 4 HOH A 78 378 381 HOH HOH . G 4 HOH A 79 379 352 HOH HOH . H 4 HOH B 1 301 318 HOH HOH . H 4 HOH B 2 302 323 HOH HOH . H 4 HOH B 3 303 357 HOH HOH . H 4 HOH B 4 304 301 HOH HOH . H 4 HOH B 5 305 302 HOH HOH . H 4 HOH B 6 306 303 HOH HOH . H 4 HOH B 7 307 304 HOH HOH . H 4 HOH B 8 308 305 HOH HOH . H 4 HOH B 9 309 306 HOH HOH . H 4 HOH B 10 310 307 HOH HOH . H 4 HOH B 11 311 308 HOH HOH . H 4 HOH B 12 312 309 HOH HOH . H 4 HOH B 13 313 310 HOH HOH . H 4 HOH B 14 314 311 HOH HOH . H 4 HOH B 15 315 312 HOH HOH . H 4 HOH B 16 316 313 HOH HOH . H 4 HOH B 17 317 314 HOH HOH . H 4 HOH B 18 318 315 HOH HOH . H 4 HOH B 19 319 316 HOH HOH . H 4 HOH B 20 320 317 HOH HOH . H 4 HOH B 21 321 318 HOH HOH . H 4 HOH B 22 322 319 HOH HOH . H 4 HOH B 23 323 320 HOH HOH . H 4 HOH B 24 324 321 HOH HOH . H 4 HOH B 25 325 322 HOH HOH . H 4 HOH B 26 326 323 HOH HOH . H 4 HOH B 27 327 324 HOH HOH . H 4 HOH B 28 328 325 HOH HOH . H 4 HOH B 29 329 326 HOH HOH . H 4 HOH B 30 330 327 HOH HOH . H 4 HOH B 31 331 328 HOH HOH . H 4 HOH B 32 332 329 HOH HOH . H 4 HOH B 33 333 330 HOH HOH . H 4 HOH B 34 334 331 HOH HOH . H 4 HOH B 35 335 332 HOH HOH . H 4 HOH B 36 336 333 HOH HOH . H 4 HOH B 37 337 334 HOH HOH . H 4 HOH B 38 338 335 HOH HOH . H 4 HOH B 39 339 336 HOH HOH . H 4 HOH B 40 340 337 HOH HOH . H 4 HOH B 41 341 338 HOH HOH . H 4 HOH B 42 342 339 HOH HOH . H 4 HOH B 43 343 340 HOH HOH . H 4 HOH B 44 344 341 HOH HOH . H 4 HOH B 45 345 342 HOH HOH . H 4 HOH B 46 346 343 HOH HOH . H 4 HOH B 47 347 344 HOH HOH . H 4 HOH B 48 348 345 HOH HOH . H 4 HOH B 49 349 346 HOH HOH . H 4 HOH B 50 350 347 HOH HOH . H 4 HOH B 51 351 348 HOH HOH . H 4 HOH B 52 352 349 HOH HOH . H 4 HOH B 53 353 350 HOH HOH . H 4 HOH B 54 354 351 HOH HOH . H 4 HOH B 55 355 353 HOH HOH . H 4 HOH B 56 356 354 HOH HOH . H 4 HOH B 57 357 355 HOH HOH . H 4 HOH B 58 358 356 HOH HOH . H 4 HOH B 59 359 357 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 GTP . . . F 2 29.775 26.214 1.46 1 34.45 ? PG GTP 202 B 1 HETATM 2 O O1G GTP . . . F 2 30.419 27.344 0.691 1 36.33 ? O1G GTP 202 B 1 HETATM 3 O O2G GTP . . . F 2 28.937 25.355 0.535 1 28.35 ? O2G GTP 202 B 1 HETATM 4 O O3G GTP . . . F 2 30.824 25.337 2.103 1 34.5 ? O3G GTP 202 B 1 HETATM 5 O O3B GTP . . . F 2 28.782 26.874 2.551 1 33.39 ? O3B GTP 202 B 1 HETATM 6 P PB GTP . . . F 2 28.076 25.946 3.673 1 23.81 ? PB GTP 202 B 1 HETATM 7 O O1B GTP . . . F 2 29.09 24.982 4.261 1 24.01 ? O1B GTP 202 B 1 HETATM 8 O O2B GTP . . . F 2 26.926 25.17 3.056 1 25.05 ? O2B GTP 202 B 1 HETATM 9 O O3A GTP . . . F 2 27.492 27.032 4.704 1 25.45 ? O3A GTP 202 B 1 HETATM 10 P PA GTP . . . F 2 28.147 27.48 6.109 1 26.52 ? PA GTP 202 B 1 HETATM 11 O O1A GTP . . . F 2 29.575 27.934 5.921 1 28.29 ? O1A GTP 202 B 1 HETATM 12 O O2A GTP . . . F 2 27.983 26.395 7.148 1 30.82 ? O2A GTP 202 B 1 HETATM 13 O O5' GTP . . . F 2 27.255 28.756 6.517 1 28.85 ? O5' GTP 202 B 1 HETATM 14 C C5' GTP . . . F 2 27.003 29.834 5.642 1 24.79 ? C5' GTP 202 B 1 HETATM 15 C C4' GTP . . . F 2 26.653 31.017 6.532 1 25.87 ? C4' GTP 202 B 1 HETATM 16 O O4' GTP . . . F 2 25.34 30.825 7.021 1 23.83 ? O4' GTP 202 B 1 HETATM 17 C C3' GTP . . . F 2 27.565 31.098 7.748 1 30.18 ? C3' GTP 202 B 1 HETATM 18 O O3' GTP . . . F 2 27.867 32.454 7.975 1 29.43 ? O3' GTP 202 B 1 HETATM 19 C C2' GTP . . . F 2 26.747 30.587 8.917 1 31.45 ? C2' GTP 202 B 1 HETATM 20 O O2' GTP . . . F 2 27.005 31.289 10.115 1 31.33 ? O2' GTP 202 B 1 HETATM 21 C C1' GTP . . . F 2 25.321 30.796 8.437 1 29 ? C1' GTP 202 B 1 HETATM 22 N N9 GTP . . . F 2 24.485 29.672 8.879 1 29.81 ? N9 GTP 202 B 1 HETATM 23 C C8 GTP . . . F 2 24.636 28.334 8.608 1 26.92 ? C8 GTP 202 B 1 HETATM 24 N N7 GTP . . . F 2 23.626 27.658 9.23 1 24.77 ? N7 GTP 202 B 1 HETATM 25 C C5 GTP . . . F 2 22.834 28.556 9.878 1 24.9 ? C5 GTP 202 B 1 HETATM 26 C C6 GTP . . . F 2 21.683 28.438 10.659 1 22.55 ? C6 GTP 202 B 1 HETATM 27 O O6 GTP . . . F 2 21.162 27.338 10.877 1 22.43 ? O6 GTP 202 B 1 HETATM 28 N N1 GTP . . . F 2 21.118 29.579 11.199 1 26.47 ? N1 GTP 202 B 1 HETATM 29 C C2 GTP . . . F 2 21.682 30.823 10.969 1 25.25 ? C2 GTP 202 B 1 HETATM 30 N N2 GTP . . . F 2 21.138 31.916 11.489 1 23.17 ? N2 GTP 202 B 1 HETATM 31 N N3 GTP . . . F 2 22.812 30.933 10.196 1 25.66 ? N3 GTP 202 B 1 HETATM 32 C C4 GTP . . . F 2 23.373 29.821 9.664 1 29.02 ? C4 GTP 202 B 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #