data_1GC5 # _model_server_result.job_id xEomntHmwFWIwDGosqycHA _model_server_result.datetime_utc '2024-11-23 07:08:13' _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 1gc5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":470}' # _entry.id 1GC5 # _exptl.entry_id 1GC5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-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 120 _cell.entry_id 1GC5 _cell.length_a 109.8 _cell.length_b 109.8 _cell.length_c 129.8 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GC5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _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 _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 1GC5 _atom_sites.fract_transf_matrix[1][1] 0.009107 _atom_sites.fract_transf_matrix[1][2] 0.005258 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010516 _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] 0.007704 _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 ADP A 1 470 470 ADP ADP . C 3 HOH A 1 501 501 HOH WAT . C 3 HOH A 2 502 502 HOH WAT . C 3 HOH A 3 503 503 HOH WAT . C 3 HOH A 4 504 504 HOH WAT . C 3 HOH A 5 505 505 HOH WAT . C 3 HOH A 6 506 506 HOH WAT . C 3 HOH A 7 507 507 HOH WAT . C 3 HOH A 8 508 508 HOH WAT . C 3 HOH A 9 509 509 HOH WAT . C 3 HOH A 10 510 510 HOH WAT . C 3 HOH A 11 511 511 HOH WAT . C 3 HOH A 12 512 512 HOH WAT . C 3 HOH A 13 513 513 HOH WAT . C 3 HOH A 14 514 514 HOH WAT . C 3 HOH A 15 515 515 HOH WAT . C 3 HOH A 16 516 516 HOH WAT . C 3 HOH A 17 517 517 HOH WAT . C 3 HOH A 18 518 518 HOH WAT . C 3 HOH A 19 519 519 HOH WAT . C 3 HOH A 20 520 520 HOH WAT . C 3 HOH A 21 521 521 HOH WAT . C 3 HOH A 22 522 522 HOH WAT . C 3 HOH A 23 523 523 HOH WAT . C 3 HOH A 24 524 524 HOH WAT . C 3 HOH A 25 525 525 HOH WAT . C 3 HOH A 26 526 526 HOH WAT . C 3 HOH A 27 527 527 HOH WAT . C 3 HOH A 28 528 528 HOH WAT . C 3 HOH A 29 529 529 HOH WAT . C 3 HOH A 30 530 530 HOH WAT . C 3 HOH A 31 531 531 HOH WAT . C 3 HOH A 32 532 532 HOH WAT . C 3 HOH A 33 533 533 HOH WAT . C 3 HOH A 34 534 534 HOH WAT . C 3 HOH A 35 535 535 HOH WAT . C 3 HOH A 36 536 536 HOH WAT . C 3 HOH A 37 537 537 HOH WAT . C 3 HOH A 38 538 538 HOH WAT . C 3 HOH A 39 539 539 HOH WAT . C 3 HOH A 40 540 540 HOH WAT . C 3 HOH A 41 541 541 HOH WAT . C 3 HOH A 42 542 542 HOH WAT . C 3 HOH A 43 543 543 HOH WAT . C 3 HOH A 44 544 544 HOH WAT . C 3 HOH A 45 545 545 HOH WAT . C 3 HOH A 46 546 546 HOH WAT . C 3 HOH A 47 547 547 HOH WAT . C 3 HOH A 48 548 548 HOH WAT . C 3 HOH A 49 550 550 HOH WAT . C 3 HOH A 50 551 551 HOH WAT . C 3 HOH A 51 552 552 HOH WAT . C 3 HOH A 52 553 553 HOH WAT . C 3 HOH A 53 554 554 HOH WAT . C 3 HOH A 54 555 555 HOH WAT . C 3 HOH A 55 556 556 HOH WAT . C 3 HOH A 56 557 557 HOH WAT . C 3 HOH A 57 558 558 HOH WAT . C 3 HOH A 58 559 559 HOH WAT . C 3 HOH A 59 560 560 HOH WAT . C 3 HOH A 60 561 561 HOH WAT . C 3 HOH A 61 562 562 HOH WAT . C 3 HOH A 62 563 563 HOH WAT . C 3 HOH A 63 564 564 HOH WAT . C 3 HOH A 64 565 565 HOH WAT . C 3 HOH A 65 566 566 HOH WAT . C 3 HOH A 66 567 567 HOH WAT . C 3 HOH A 67 568 568 HOH WAT . C 3 HOH A 68 569 569 HOH WAT . C 3 HOH A 69 570 570 HOH WAT . C 3 HOH A 70 571 571 HOH WAT . C 3 HOH A 71 572 572 HOH WAT . C 3 HOH A 72 573 573 HOH WAT . C 3 HOH A 73 574 574 HOH WAT . C 3 HOH A 74 575 575 HOH WAT . C 3 HOH A 75 576 576 HOH WAT . C 3 HOH A 76 577 577 HOH WAT . C 3 HOH A 77 1548 548 HOH WAT . # 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 ADP . . . B 2 9.609 63.761 38.451 1 88.73 ? PB ADP 470 A 1 HETATM 2 O O1B ADP . . . B 2 9.401 62.297 38.199 1 88 ? O1B ADP 470 A 1 HETATM 3 O O2B ADP . . . B 2 9.659 64.14 40.036 1 86.87 ? O2B ADP 470 A 1 HETATM 4 O O3B ADP . . . B 2 10.869 64.248 37.792 1 82.83 ? O3B ADP 470 A 1 HETATM 5 P PA ADP . . . B 2 7.848 66.011 37.961 1 61.01 ? PA ADP 470 A 1 HETATM 6 O O1A ADP . . . B 2 6.611 66.103 37.17 1 64.61 ? O1A ADP 470 A 1 HETATM 7 O O2A ADP . . . B 2 7.636 66.451 39.353 1 64.98 ? O2A ADP 470 A 1 HETATM 8 O O3A ADP . . . B 2 8.337 64.51 37.929 1 76.64 ? O3A ADP 470 A 1 HETATM 9 O O5' ADP . . . B 2 9.07 66.799 37.294 1 60.42 ? O5' ADP 470 A 1 HETATM 10 C C5' ADP . . . B 2 9.487 66.573 35.928 1 51.35 ? C5' ADP 470 A 1 HETATM 11 C C4' ADP . . . B 2 9.554 67.968 35.334 1 46.24 ? C4' ADP 470 A 1 HETATM 12 O O4' ADP . . . B 2 10.834 68.198 34.739 1 45.72 ? O4' ADP 470 A 1 HETATM 13 C C3' ADP . . . B 2 8.503 68.241 34.275 1 45.57 ? C3' ADP 470 A 1 HETATM 14 O O3' ADP . . . B 2 7.38 68.97 34.782 1 50.1 ? O3' ADP 470 A 1 HETATM 15 C C2' ADP . . . B 2 9.205 69.047 33.204 1 40.9 ? C2' ADP 470 A 1 HETATM 16 O O2' ADP . . . B 2 8.927 70.459 33.285 1 42.48 ? O2' ADP 470 A 1 HETATM 17 C C1' ADP . . . B 2 10.674 68.694 33.393 1 42.64 ? C1' ADP 470 A 1 HETATM 18 N N9 ADP . . . B 2 11.195 67.737 32.345 1 42.27 ? N9 ADP 470 A 1 HETATM 19 C C8 ADP . . . B 2 10.971 66.412 32.276 1 43.08 ? C8 ADP 470 A 1 HETATM 20 N N7 ADP . . . B 2 11.598 65.915 31.203 1 43.57 ? N7 ADP 470 A 1 HETATM 21 C C5 ADP . . . B 2 12.216 66.896 30.586 1 47.24 ? C5 ADP 470 A 1 HETATM 22 C C6 ADP . . . B 2 13.024 67.02 29.434 1 52.39 ? C6 ADP 470 A 1 HETATM 23 N N6 ADP . . . B 2 13.307 65.941 28.681 1 53.51 ? N6 ADP 470 A 1 HETATM 24 N N1 ADP . . . B 2 13.52 68.254 29.066 1 52.07 ? N1 ADP 470 A 1 HETATM 25 C C2 ADP . . . B 2 13.263 69.364 29.797 1 50.61 ? C2 ADP 470 A 1 HETATM 26 N N3 ADP . . . B 2 12.483 69.251 30.9 1 44.48 ? N3 ADP 470 A 1 HETATM 27 C C4 ADP . . . B 2 11.958 68.072 31.324 1 42.86 ? C4 ADP 470 A 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #