data_2Q1Y # _model_server_result.job_id xO6KoK-RyVxBkVttyo4FWw _model_server_result.datetime_utc '2024-11-27 02:55:59' _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 2q1y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 2Q1Y # _exptl.entry_id 2Q1Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 539.246 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _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 2Q1Y _cell.length_a 88.698 _cell.length_b 88.698 _cell.length_c 178.629 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Q1Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H16 N5 O13 P3 S' _chem_comp.formula_weight 539.246 _chem_comp.id GSP _chem_comp.mon_nstd_flag . _chem_comp.name "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _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 O3B GSP sing 129 n n PG S1G GSP doub 130 n n PG O2G GSP sing 131 n n PG O3G GSP sing 132 n n O3B PB GSP sing 133 n n O2G HOG2 GSP sing 134 n n O3G HOG3 GSP sing 135 n n PB O1B GSP doub 136 n n PB O2B GSP sing 137 n n PB O3A GSP sing 138 n n O2B HOB2 GSP sing 139 n n PA O1A GSP doub 140 n n PA O2A GSP sing 141 n n PA O3A GSP sing 142 n n PA O5' GSP sing 143 n n O2A HOA2 GSP sing 144 n n O5' C5' GSP sing 145 n n C5' C4' GSP sing 146 n n C5' "H5'1" GSP sing 147 n n C5' "H5'2" GSP sing 148 n n C4' O4' GSP sing 149 n n C4' C3' GSP sing 150 n n C4' H4' GSP sing 151 n n O4' C1' GSP sing 152 n n C3' O3' GSP sing 153 n n C3' C2' GSP sing 154 n n C3' H3' GSP sing 155 n n O3' HO3' GSP sing 156 n n C2' O2' GSP sing 157 n n C2' C1' GSP sing 158 n n C2' H2' GSP sing 159 n n O2' HO2' GSP sing 160 n n C1' N9 GSP sing 161 n n C1' H1' GSP sing 162 n n N9 C8 GSP sing 163 n y N9 C4 GSP sing 164 n y C8 N7 GSP doub 165 n y C8 H8 GSP sing 166 n n N7 C5 GSP sing 167 n y C5 C6 GSP sing 168 n n C5 C4 GSP doub 169 n y C6 O6 GSP doub 170 n n C6 N1 GSP sing 171 n n N1 C2 GSP sing 172 n n N1 HN1 GSP sing 173 n n C2 N2 GSP sing 174 n n C2 N3 GSP doub 175 n n N2 HN21 GSP sing 176 n n N2 HN22 GSP sing 177 n n N3 C4 GSP sing 178 n n # _atom_sites.entry_id 2Q1Y _atom_sites.fract_transf_matrix[1][1] 0.011274 _atom_sites.fract_transf_matrix[1][2] 0.006509 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013018 _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] 0.005598 _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 GSP A 1 401 401 GSP GSP . D 3 HOH A 1 402 402 HOH HOH . D 3 HOH A 2 403 403 HOH HOH . D 3 HOH A 3 404 404 HOH HOH . D 3 HOH A 4 405 405 HOH HOH . D 3 HOH A 5 406 406 HOH HOH . D 3 HOH A 6 407 407 HOH HOH . D 3 HOH A 7 408 408 HOH HOH . D 3 HOH A 8 409 409 HOH HOH . D 3 HOH A 9 410 410 HOH HOH . D 3 HOH A 10 411 411 HOH HOH . D 3 HOH A 11 412 412 HOH HOH . D 3 HOH A 12 413 413 HOH HOH . D 3 HOH A 13 414 414 HOH HOH . D 3 HOH A 14 415 415 HOH HOH . D 3 HOH A 15 416 416 HOH HOH . D 3 HOH A 16 417 417 HOH HOH . D 3 HOH A 17 418 418 HOH HOH . D 3 HOH A 18 419 419 HOH HOH . D 3 HOH A 19 420 420 HOH HOH . D 3 HOH A 20 421 421 HOH HOH . D 3 HOH A 21 422 422 HOH HOH . D 3 HOH A 22 423 423 HOH HOH . D 3 HOH A 23 424 424 HOH HOH . D 3 HOH A 24 425 425 HOH HOH . D 3 HOH A 25 426 426 HOH HOH . D 3 HOH A 26 427 427 HOH HOH . D 3 HOH A 27 428 428 HOH HOH . D 3 HOH A 28 429 429 HOH HOH . D 3 HOH A 29 430 430 HOH HOH . D 3 HOH A 30 431 431 HOH HOH . D 3 HOH A 31 432 432 HOH HOH . D 3 HOH A 32 433 433 HOH HOH . D 3 HOH A 33 434 434 HOH HOH . D 3 HOH A 34 435 435 HOH HOH . D 3 HOH A 35 436 436 HOH HOH . D 3 HOH A 36 437 437 HOH HOH . D 3 HOH A 37 438 438 HOH HOH . D 3 HOH A 38 439 439 HOH HOH . D 3 HOH A 39 440 440 HOH HOH . D 3 HOH A 40 441 441 HOH HOH . D 3 HOH A 41 442 442 HOH HOH . D 3 HOH A 42 443 443 HOH HOH . D 3 HOH A 43 444 444 HOH HOH . D 3 HOH A 44 445 445 HOH HOH . D 3 HOH A 45 446 446 HOH HOH . D 3 HOH A 46 447 447 HOH HOH . D 3 HOH A 47 448 448 HOH HOH . D 3 HOH A 48 449 449 HOH HOH . D 3 HOH A 49 450 450 HOH HOH . D 3 HOH A 50 451 451 HOH HOH . D 3 HOH A 51 452 452 HOH HOH . D 3 HOH A 52 453 453 HOH HOH . D 3 HOH A 53 454 454 HOH HOH . D 3 HOH A 54 455 455 HOH HOH . D 3 HOH A 55 456 456 HOH HOH . D 3 HOH A 56 457 457 HOH HOH . D 3 HOH A 57 458 458 HOH HOH . D 3 HOH A 58 459 459 HOH HOH . D 3 HOH A 59 460 460 HOH HOH . D 3 HOH A 60 461 461 HOH HOH . D 3 HOH A 61 462 462 HOH HOH . D 3 HOH A 62 463 463 HOH HOH . D 3 HOH A 63 464 464 HOH HOH . D 3 HOH A 64 465 465 HOH HOH . D 3 HOH A 65 466 466 HOH HOH . D 3 HOH A 66 467 467 HOH HOH . D 3 HOH A 67 468 468 HOH HOH . D 3 HOH A 68 469 469 HOH HOH . D 3 HOH A 69 470 470 HOH HOH . D 3 HOH A 70 471 471 HOH HOH . D 3 HOH A 71 472 472 HOH HOH . D 3 HOH A 72 473 473 HOH HOH . D 3 HOH A 73 474 474 HOH HOH . D 3 HOH A 74 475 475 HOH HOH . D 3 HOH A 75 476 476 HOH HOH . D 3 HOH A 76 477 477 HOH HOH . D 3 HOH A 77 478 478 HOH HOH . D 3 HOH A 78 479 479 HOH HOH . D 3 HOH A 79 480 480 HOH HOH . D 3 HOH A 80 481 481 HOH HOH . D 3 HOH A 81 482 482 HOH HOH . D 3 HOH A 82 483 483 HOH HOH . D 3 HOH A 83 484 484 HOH HOH . D 3 HOH A 84 485 485 HOH HOH . D 3 HOH A 85 486 486 HOH HOH . D 3 HOH A 86 487 487 HOH HOH . D 3 HOH A 87 488 488 HOH HOH . D 3 HOH A 88 489 489 HOH HOH . D 3 HOH A 89 490 490 HOH HOH . D 3 HOH A 90 491 491 HOH HOH . D 3 HOH A 91 492 492 HOH HOH . D 3 HOH A 92 493 493 HOH HOH . D 3 HOH A 93 494 494 HOH HOH . D 3 HOH A 94 495 495 HOH HOH . D 3 HOH A 95 496 496 HOH HOH . D 3 HOH A 96 497 497 HOH HOH . E 3 HOH B 1 380 380 HOH HOH . E 3 HOH B 2 381 381 HOH HOH . E 3 HOH B 3 382 382 HOH HOH . E 3 HOH B 4 383 383 HOH HOH . E 3 HOH B 5 384 384 HOH HOH . E 3 HOH B 6 385 385 HOH HOH . E 3 HOH B 7 386 386 HOH HOH . E 3 HOH B 8 387 387 HOH HOH . E 3 HOH B 9 388 388 HOH HOH . E 3 HOH B 10 389 389 HOH HOH . E 3 HOH B 11 390 390 HOH HOH . E 3 HOH B 12 391 391 HOH HOH . E 3 HOH B 13 392 392 HOH HOH . E 3 HOH B 14 393 393 HOH HOH . E 3 HOH B 15 394 394 HOH HOH . E 3 HOH B 16 395 395 HOH HOH . E 3 HOH B 17 396 396 HOH HOH . E 3 HOH B 18 397 397 HOH HOH . E 3 HOH B 19 398 398 HOH HOH . E 3 HOH B 20 399 399 HOH HOH . E 3 HOH B 21 400 400 HOH HOH . E 3 HOH B 22 401 401 HOH HOH . E 3 HOH B 23 402 402 HOH HOH . E 3 HOH B 24 403 403 HOH HOH . E 3 HOH B 25 404 404 HOH HOH . E 3 HOH B 26 405 405 HOH HOH . E 3 HOH B 27 406 406 HOH HOH . E 3 HOH B 28 407 407 HOH HOH . E 3 HOH B 29 408 408 HOH HOH . E 3 HOH B 30 409 409 HOH HOH . E 3 HOH B 31 410 410 HOH HOH . E 3 HOH B 32 411 411 HOH HOH . E 3 HOH B 33 412 412 HOH HOH . E 3 HOH B 34 413 413 HOH HOH . E 3 HOH B 35 414 414 HOH HOH . E 3 HOH B 36 415 415 HOH HOH . E 3 HOH B 37 416 416 HOH HOH . E 3 HOH B 38 417 417 HOH HOH . E 3 HOH B 39 418 418 HOH HOH . E 3 HOH B 40 419 419 HOH HOH . E 3 HOH B 41 420 420 HOH HOH . E 3 HOH B 42 421 421 HOH HOH . E 3 HOH B 43 422 422 HOH HOH . E 3 HOH B 44 423 423 HOH HOH . E 3 HOH B 45 424 424 HOH HOH . E 3 HOH B 46 425 425 HOH HOH . E 3 HOH B 47 426 426 HOH HOH . E 3 HOH B 48 427 427 HOH HOH . E 3 HOH B 49 428 428 HOH HOH . E 3 HOH B 50 429 429 HOH HOH . E 3 HOH B 51 430 430 HOH HOH . E 3 HOH B 52 431 431 HOH HOH . E 3 HOH B 53 432 432 HOH HOH . E 3 HOH B 54 433 433 HOH HOH . E 3 HOH B 55 434 434 HOH HOH . E 3 HOH B 56 435 435 HOH HOH . E 3 HOH B 57 436 436 HOH HOH . E 3 HOH B 58 437 437 HOH HOH . E 3 HOH B 59 438 438 HOH HOH . E 3 HOH B 60 439 439 HOH HOH . E 3 HOH B 61 440 440 HOH HOH . E 3 HOH B 62 441 441 HOH HOH . E 3 HOH B 63 442 442 HOH HOH . E 3 HOH B 64 443 443 HOH HOH . E 3 HOH B 65 444 444 HOH HOH . E 3 HOH B 66 445 445 HOH HOH . E 3 HOH B 67 446 446 HOH HOH . E 3 HOH B 68 447 447 HOH HOH . E 3 HOH B 69 448 448 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 GSP . . . C 2 8.323 42.008 16.266 1 31.05 ? PG GSP 401 A 1 HETATM 2 O O3B GSP . . . C 2 7.234 41.16 15.411 1 25.96 ? O3B GSP 401 A 1 HETATM 3 S S1G GSP . . . C 2 9.871 41.853 15.574 1 35.46 ? S1G GSP 401 A 1 HETATM 4 O O2G GSP . . . C 2 7.926 43.497 16.269 1 30.04 ? O2G GSP 401 A 1 HETATM 5 O O3G GSP . . . C 2 8.306 41.512 17.727 1 30.53 ? O3G GSP 401 A 1 HETATM 6 P PB GSP . . . C 2 7.072 41.03 13.812 1 23.1 ? PB GSP 401 A 1 HETATM 7 O O1B GSP . . . C 2 5.657 40.668 13.556 1 21.79 ? O1B GSP 401 A 1 HETATM 8 O O2B GSP . . . C 2 7.518 42.17 12.989 1 22.01 ? O2B GSP 401 A 1 HETATM 9 P PA GSP . . . C 2 8.364 39.159 12.073 1 21.47 ? PA GSP 401 A 1 HETATM 10 O O1A GSP . . . C 2 7.209 39.352 11.141 1 18.46 ? O1A GSP 401 A 1 HETATM 11 O O2A GSP . . . C 2 9.655 39.694 11.555 1 21.38 ? O2A GSP 401 A 1 HETATM 12 O O3A GSP . . . C 2 8.005 39.748 13.519 1 21.97 ? O3A GSP 401 A 1 HETATM 13 O O5' GSP . . . C 2 8.508 37.611 12.381 1 20.7 ? O5' GSP 401 A 1 HETATM 14 C C5' GSP . . . C 2 7.382 36.814 12.663 1 22.16 ? C5' GSP 401 A 1 HETATM 15 C C4' GSP . . . C 2 7.478 35.496 11.91 1 22.16 ? C4' GSP 401 A 1 HETATM 16 O O4' GSP . . . C 2 7.461 35.692 10.512 1 22.28 ? O4' GSP 401 A 1 HETATM 17 C C3' GSP . . . C 2 8.761 34.733 12.215 1 22.53 ? C3' GSP 401 A 1 HETATM 18 O O3' GSP . . . C 2 8.617 33.935 13.367 1 22.96 ? O3' GSP 401 A 1 HETATM 19 C C2' GSP . . . C 2 8.987 33.932 10.953 1 22.45 ? C2' GSP 401 A 1 HETATM 20 O O2' GSP . . . C 2 8.296 32.69 10.968 1 21.25 ? O2' GSP 401 A 1 HETATM 21 C C1' GSP . . . C 2 8.376 34.814 9.877 1 22.66 ? C1' GSP 401 A 1 HETATM 22 N N9 GSP . . . C 2 9.353 35.622 9.133 1 23.3 ? N9 GSP 401 A 1 HETATM 23 C C8 GSP . . . C 2 10.523 36.214 9.576 1 23.27 ? C8 GSP 401 A 1 HETATM 24 N N7 GSP . . . C 2 11.086 36.87 8.535 1 23.26 ? N7 GSP 401 A 1 HETATM 25 C C5 GSP . . . C 2 10.291 36.715 7.43 1 22.89 ? C5 GSP 401 A 1 HETATM 26 C C6 GSP . . . C 2 10.367 37.153 6.113 1 22.5 ? C6 GSP 401 A 1 HETATM 27 O O6 GSP . . . C 2 11.31 37.844 5.716 1 23.69 ? O6 GSP 401 A 1 HETATM 28 N N1 GSP . . . C 2 9.376 36.807 5.219 1 23.03 ? N1 GSP 401 A 1 HETATM 29 C C2 GSP . . . C 2 8.306 36.027 5.625 1 23 ? C2 GSP 401 A 1 HETATM 30 N N2 GSP . . . C 2 7.333 35.687 4.789 1 21.96 ? N2 GSP 401 A 1 HETATM 31 N N3 GSP . . . C 2 8.234 35.592 6.932 1 23.61 ? N3 GSP 401 A 1 HETATM 32 C C4 GSP . . . C 2 9.208 35.931 7.808 1 23.05 ? C4 GSP 401 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #