data_1FSZ # _model_server_result.job_id CJqnaJ7YRn6U1was-jEwGg _model_server_result.datetime_utc '2024-11-21 17:33:46' _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 1fsz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":999}' # _entry.id 1FSZ # _exptl.entry_id 1FSZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 443.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-DIPHOSPHATE" _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 90 _cell.entry_id 1FSZ _cell.length_a 159.14 _cell.length_b 159.14 _cell.length_c 159.14 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1FSZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O11 P2' _chem_comp.formula_weight 443.201 _chem_comp.id GDP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-DIPHOSPHATE" _chem_comp.type 'rna linking' _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 PB O1B GDP doub 83 n n PB O2B GDP sing 84 n n PB O3B GDP sing 85 n n PB O3A GDP sing 86 n n O2B HOB2 GDP sing 87 n n O3B HOB3 GDP sing 88 n n O3A PA GDP sing 89 n n PA O1A GDP doub 90 n n PA O2A GDP sing 91 n n PA O5' GDP sing 92 n n O2A HOA2 GDP sing 93 n n O5' C5' GDP sing 94 n n C5' C4' GDP sing 95 n n C5' H5' GDP sing 96 n n C5' "H5''" GDP sing 97 n n C4' O4' GDP sing 98 n n C4' C3' GDP sing 99 n n C4' H4' GDP sing 100 n n O4' C1' GDP sing 101 n n C3' O3' GDP sing 102 n n C3' C2' GDP sing 103 n n C3' H3' GDP sing 104 n n O3' HO3' GDP sing 105 n n C2' O2' GDP sing 106 n n C2' C1' GDP sing 107 n n C2' H2' GDP sing 108 n n O2' HO2' GDP sing 109 n n C1' N9 GDP sing 110 n n C1' H1' GDP sing 111 n n N9 C8 GDP sing 112 n y N9 C4 GDP sing 113 n y C8 N7 GDP doub 114 n y C8 H8 GDP sing 115 n n N7 C5 GDP sing 116 n y C5 C6 GDP sing 117 n n C5 C4 GDP doub 118 n y C6 O6 GDP doub 119 n n C6 N1 GDP sing 120 n n N1 C2 GDP sing 121 n n N1 HN1 GDP sing 122 n n C2 N2 GDP sing 123 n n C2 N3 GDP doub 124 n n N2 HN21 GDP sing 125 n n N2 HN22 GDP sing 126 n n N3 C4 GDP sing 127 n n # _atom_sites.entry_id 1FSZ _atom_sites.fract_transf_matrix[1][1] 0.006284 _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] 0.006284 _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] 0.006284 _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 GDP A 1 999 999 GDP GDP . C 3 HOH A 1 400 400 HOH HOH . C 3 HOH A 2 402 402 HOH HOH . C 3 HOH A 3 404 404 HOH HOH . C 3 HOH A 4 405 405 HOH HOH . C 3 HOH A 5 406 406 HOH HOH . C 3 HOH A 6 407 407 HOH HOH . C 3 HOH A 7 408 408 HOH HOH . C 3 HOH A 8 409 409 HOH HOH . C 3 HOH A 9 410 410 HOH HOH . C 3 HOH A 10 411 411 HOH HOH . C 3 HOH A 11 412 412 HOH HOH . C 3 HOH A 12 413 413 HOH HOH . C 3 HOH A 13 414 414 HOH HOH . C 3 HOH A 14 415 415 HOH HOH . C 3 HOH A 15 416 416 HOH HOH . C 3 HOH A 16 417 417 HOH HOH . C 3 HOH A 17 418 418 HOH HOH . C 3 HOH A 18 419 419 HOH HOH . C 3 HOH A 19 420 420 HOH HOH . C 3 HOH A 20 422 422 HOH HOH . C 3 HOH A 21 423 423 HOH HOH . C 3 HOH A 22 424 424 HOH HOH . C 3 HOH A 23 425 425 HOH HOH . C 3 HOH A 24 427 427 HOH HOH . C 3 HOH A 25 428 428 HOH HOH . C 3 HOH A 26 429 429 HOH HOH . C 3 HOH A 27 430 430 HOH HOH . C 3 HOH A 28 431 431 HOH HOH . C 3 HOH A 29 433 433 HOH HOH . C 3 HOH A 30 440 440 HOH HOH . C 3 HOH A 31 441 441 HOH HOH . C 3 HOH A 32 442 442 HOH HOH . C 3 HOH A 33 444 444 HOH HOH . C 3 HOH A 34 445 445 HOH HOH . C 3 HOH A 35 446 446 HOH HOH . C 3 HOH A 36 447 447 HOH HOH . C 3 HOH A 37 448 448 HOH HOH . C 3 HOH A 38 449 449 HOH HOH . C 3 HOH A 39 450 450 HOH HOH . C 3 HOH A 40 451 451 HOH HOH . C 3 HOH A 41 453 453 HOH HOH . C 3 HOH A 42 456 456 HOH HOH . C 3 HOH A 43 459 459 HOH HOH . C 3 HOH A 44 461 461 HOH HOH . C 3 HOH A 45 463 463 HOH HOH . C 3 HOH A 46 464 464 HOH HOH . C 3 HOH A 47 465 465 HOH HOH . C 3 HOH A 48 466 466 HOH HOH . C 3 HOH A 49 468 468 HOH HOH . C 3 HOH A 50 469 469 HOH HOH . C 3 HOH A 51 470 470 HOH HOH . C 3 HOH A 52 471 471 HOH HOH . C 3 HOH A 53 472 472 HOH HOH . C 3 HOH A 54 473 473 HOH HOH . C 3 HOH A 55 474 474 HOH HOH . C 3 HOH A 56 475 475 HOH HOH . C 3 HOH A 57 478 478 HOH HOH . C 3 HOH A 58 479 479 HOH HOH . C 3 HOH A 59 480 480 HOH HOH . C 3 HOH A 60 481 481 HOH HOH . C 3 HOH A 61 483 483 HOH HOH . C 3 HOH A 62 484 484 HOH HOH . C 3 HOH A 63 485 485 HOH HOH . C 3 HOH A 64 486 486 HOH HOH . C 3 HOH A 65 487 487 HOH HOH . C 3 HOH A 66 488 488 HOH HOH . C 3 HOH A 67 489 489 HOH HOH . C 3 HOH A 68 490 490 HOH HOH . C 3 HOH A 69 491 491 HOH HOH . C 3 HOH A 70 493 493 HOH HOH . C 3 HOH A 71 494 494 HOH HOH . C 3 HOH A 72 495 495 HOH HOH . C 3 HOH A 73 496 496 HOH HOH . C 3 HOH A 74 498 498 HOH HOH . C 3 HOH A 75 499 499 HOH HOH . C 3 HOH A 76 501 501 HOH HOH . C 3 HOH A 77 503 503 HOH HOH . C 3 HOH A 78 504 504 HOH HOH . C 3 HOH A 79 505 505 HOH HOH . C 3 HOH A 80 506 506 HOH HOH . C 3 HOH A 81 507 507 HOH HOH . C 3 HOH A 82 508 508 HOH HOH . C 3 HOH A 83 509 509 HOH HOH . C 3 HOH A 84 510 510 HOH HOH . C 3 HOH A 85 513 513 HOH HOH . C 3 HOH A 86 514 514 HOH HOH . C 3 HOH A 87 515 515 HOH HOH . C 3 HOH A 88 517 517 HOH HOH . C 3 HOH A 89 519 519 HOH HOH . C 3 HOH A 90 520 520 HOH HOH . C 3 HOH A 91 521 521 HOH HOH . C 3 HOH A 92 522 522 HOH HOH . C 3 HOH A 93 523 523 HOH HOH . C 3 HOH A 94 524 524 HOH HOH . C 3 HOH A 95 525 525 HOH HOH . C 3 HOH A 96 526 526 HOH HOH . C 3 HOH A 97 527 527 HOH HOH . C 3 HOH A 98 528 528 HOH HOH . C 3 HOH A 99 529 529 HOH HOH . C 3 HOH A 100 530 530 HOH HOH . C 3 HOH A 101 531 531 HOH HOH . C 3 HOH A 102 532 532 HOH HOH . C 3 HOH A 103 533 533 HOH HOH . C 3 HOH A 104 534 534 HOH HOH . C 3 HOH A 105 535 535 HOH HOH . C 3 HOH A 106 536 536 HOH HOH . C 3 HOH A 107 537 537 HOH HOH . C 3 HOH A 108 538 538 HOH HOH . C 3 HOH A 109 539 539 HOH HOH . C 3 HOH A 110 540 540 HOH HOH . C 3 HOH A 111 541 541 HOH HOH . C 3 HOH A 112 542 542 HOH HOH . C 3 HOH A 113 543 543 HOH HOH . C 3 HOH A 114 544 544 HOH HOH . C 3 HOH A 115 545 545 HOH HOH . C 3 HOH A 116 546 546 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 PB GDP . . . B 2 6.842 35.973 -0.832 1 35.88 ? PB GDP 999 A 1 HETATM 2 O O1B GDP . . . B 2 7.911 35.186 -0.274 1 37.86 ? O1B GDP 999 A 1 HETATM 3 O O2B GDP . . . B 2 5.84 35.309 -1.649 1 33.85 ? O2B GDP 999 A 1 HETATM 4 O O3B GDP . . . B 2 6.187 36.798 0.307 1 37.42 ? O3B GDP 999 A 1 HETATM 5 O O3A GDP . . . B 2 7.577 37.055 -1.723 1 40.09 ? O3A GDP 999 A 1 HETATM 6 P PA GDP . . . B 2 7.365 37.415 -3.271 1 43.72 ? PA GDP 999 A 1 HETATM 7 O O1A GDP . . . B 2 7.963 36.362 -4.11 1 39.92 ? O1A GDP 999 A 1 HETATM 8 O O2A GDP . . . B 2 5.973 37.851 -3.481 1 45.71 ? O2A GDP 999 A 1 HETATM 9 O O5' GDP . . . B 2 8.32 38.712 -3.324 1 42.15 ? O5' GDP 999 A 1 HETATM 10 C C5' GDP . . . B 2 9.589 38.679 -2.697 1 36.79 ? C5' GDP 999 A 1 HETATM 11 C C4' GDP . . . B 2 10.607 39.485 -3.502 1 40.69 ? C4' GDP 999 A 1 HETATM 12 O O4' GDP . . . B 2 10.8 38.866 -4.769 1 37.24 ? O4' GDP 999 A 1 HETATM 13 C C3' GDP . . . B 2 10.228 40.94 -3.788 1 39.75 ? C3' GDP 999 A 1 HETATM 14 O O3' GDP . . . B 2 10.809 41.818 -2.836 1 45.51 ? O3' GDP 999 A 1 HETATM 15 C C2' GDP . . . B 2 10.606 41.206 -5.237 1 37.4 ? C2' GDP 999 A 1 HETATM 16 O O2' GDP . . . B 2 11.825 41.9 -5.414 1 36.08 ? O2' GDP 999 A 1 HETATM 17 C C1' GDP . . . B 2 10.68 39.834 -5.824 1 38.24 ? C1' GDP 999 A 1 HETATM 18 N N9 GDP . . . B 2 9.548 39.513 -6.714 1 39.87 ? N9 GDP 999 A 1 HETATM 19 C C8 GDP . . . B 2 8.19 39.574 -6.555 1 44.44 ? C8 GDP 999 A 1 HETATM 20 N N7 GDP . . . B 2 7.489 39.202 -7.592 1 46.4 ? N7 GDP 999 A 1 HETATM 21 C C5 GDP . . . B 2 8.463 38.871 -8.527 1 42.3 ? C5 GDP 999 A 1 HETATM 22 C C6 GDP . . . B 2 8.34 38.389 -9.87 1 41.34 ? C6 GDP 999 A 1 HETATM 23 O O6 GDP . . . B 2 7.317 38.167 -10.489 1 45.19 ? O6 GDP 999 A 1 HETATM 24 N N1 GDP . . . B 2 9.604 38.17 -10.476 1 41.33 ? N1 GDP 999 A 1 HETATM 25 C C2 GDP . . . B 2 10.84 38.385 -9.855 1 40.45 ? C2 GDP 999 A 1 HETATM 26 N N2 GDP . . . B 2 11.941 38.131 -10.54 1 42.86 ? N2 GDP 999 A 1 HETATM 27 N N3 GDP . . . B 2 10.949 38.839 -8.617 1 43.36 ? N3 GDP 999 A 1 HETATM 28 C C4 GDP . . . B 2 9.728 39.054 -8.004 1 42.8 ? C4 GDP 999 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #