data_3HBT # _model_server_result.job_id cAh8kULMnwQWc4QF9JLkEw _model_server_result.datetime_utc '2024-11-15 16:05:26' _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 3hbt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1380}' # _entry.id 3HBT # _exptl.entry_id 3HBT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 3HBT _cell.length_a 95.731 _cell.length_b 95.731 _cell.length_c 96.948 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3HBT _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_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 4 _struct_asym.id D _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 covale ? covale1 A C GLU 72 A GLU 72 1_555 A N HIC 73 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C HIC 73 A HIC 73 1_555 A N GLY 74 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 E O HOH . A HOH 377 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc2 E O HOH . A HOH 380 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc3 E O HOH . A HOH 384 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc4 E O HOH . A HOH 388 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc5 E O HOH . A HOH 389 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc6 D O3G ATP . A ATP 1380 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc7 D O2B ATP . A ATP 1380 1_555 C CA CA . A CA 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-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 ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 3HBT _atom_sites.fract_transf_matrix[1][1] 0.010446 _atom_sites.fract_transf_matrix[1][2] 0.006031 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012062 _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] 0.010315 _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 SO4 A 1 500 500 SO4 SO4 . C 3 CA A 1 1401 1401 CA CA . D 4 ATP A 1 1380 1380 ATP ATP . E 5 HOH A 1 376 1 HOH HOH . E 5 HOH A 2 377 2 HOH HOH . E 5 HOH A 3 378 378 HOH HOH . E 5 HOH A 4 379 4 HOH HOH . E 5 HOH A 5 380 5 HOH HOH . E 5 HOH A 6 381 7 HOH HOH . E 5 HOH A 7 382 8 HOH HOH . E 5 HOH A 8 383 10 HOH HOH . E 5 HOH A 9 384 11 HOH HOH . E 5 HOH A 10 385 13 HOH HOH . E 5 HOH A 11 386 17 HOH HOH . E 5 HOH A 12 387 387 HOH HOH . E 5 HOH A 13 388 18 HOH HOH . E 5 HOH A 14 389 21 HOH HOH . E 5 HOH A 15 390 22 HOH HOH . E 5 HOH A 16 391 23 HOH HOH . E 5 HOH A 17 392 26 HOH HOH . E 5 HOH A 18 393 27 HOH HOH . E 5 HOH A 19 394 29 HOH HOH . E 5 HOH A 20 395 30 HOH HOH . E 5 HOH A 21 396 33 HOH HOH . E 5 HOH A 22 397 38 HOH HOH . E 5 HOH A 23 398 40 HOH HOH . E 5 HOH A 24 399 42 HOH HOH . E 5 HOH A 25 400 43 HOH HOH . E 5 HOH A 26 401 49 HOH HOH . E 5 HOH A 27 402 50 HOH HOH . E 5 HOH A 28 403 54 HOH HOH . E 5 HOH A 29 404 58 HOH HOH . E 5 HOH A 30 405 60 HOH HOH . E 5 HOH A 31 406 71 HOH HOH . E 5 HOH A 32 407 72 HOH HOH . E 5 HOH A 33 408 74 HOH HOH . E 5 HOH A 34 409 99 HOH HOH . E 5 HOH A 35 410 108 HOH HOH . E 5 HOH A 36 411 124 HOH HOH . E 5 HOH A 37 412 130 HOH HOH . E 5 HOH A 38 413 131 HOH HOH . E 5 HOH A 39 414 133 HOH HOH . E 5 HOH A 40 415 141 HOH HOH . E 5 HOH A 41 416 143 HOH HOH . E 5 HOH A 42 417 144 HOH HOH . E 5 HOH A 43 418 156 HOH HOH . E 5 HOH A 44 419 168 HOH HOH . E 5 HOH A 45 420 177 HOH HOH . E 5 HOH A 46 421 182 HOH HOH . E 5 HOH A 47 422 191 HOH HOH . E 5 HOH A 48 423 211 HOH HOH . E 5 HOH A 49 424 222 HOH HOH . E 5 HOH A 50 425 223 HOH HOH . E 5 HOH A 51 426 260 HOH HOH . E 5 HOH A 52 427 261 HOH HOH . E 5 HOH A 53 428 263 HOH HOH . E 5 HOH A 54 429 302 HOH HOH . E 5 HOH A 55 430 315 HOH HOH . E 5 HOH A 56 431 337 HOH HOH . E 5 HOH A 57 432 340 HOH HOH . E 5 HOH A 58 433 343 HOH HOH . E 5 HOH A 59 434 345 HOH HOH . E 5 HOH A 60 435 357 HOH HOH . E 5 HOH A 61 436 372 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 ATP . . . D 4 45.265 5.952 39.092 1 37.56 ? PG ATP 1380 A 1 HETATM 2 O O1G ATP . . . D 4 46.679 5.899 39.625 1 35.15 ? O1G ATP 1380 A 1 HETATM 3 O O2G ATP . . . D 4 45.021 5.05 37.903 1 38.84 ? O2G ATP 1380 A 1 HETATM 4 O O3G ATP . . . D 4 44.14 5.831 40.104 1 36.19 ? O3G ATP 1380 A 1 HETATM 5 P PB ATP . . . D 4 44.636 8.831 39.108 1 38.06 ? PB ATP 1380 A 1 HETATM 6 O O1B ATP . . . D 4 45.413 9.965 38.501 1 39.47 ? O1B ATP 1380 A 1 HETATM 7 O O2B ATP . . . D 4 44.605 8.705 40.607 1 39.18 ? O2B ATP 1380 A 1 HETATM 8 O O3B ATP . . . D 4 45.181 7.454 38.441 1 39.95 ? O3B ATP 1380 A 1 HETATM 9 P PA ATP . . . D 4 42.041 9.868 39.188 1 40.5 ? PA ATP 1380 A 1 HETATM 10 O O1A ATP . . . D 4 41.019 9.178 40.1 1 41.34 ? O1A ATP 1380 A 1 HETATM 11 O O2A ATP . . . D 4 42.78 11.065 39.73 1 39.59 ? O2A ATP 1380 A 1 HETATM 12 O O3A ATP . . . D 4 43.138 8.85 38.585 1 38.41 ? O3A ATP 1380 A 1 HETATM 13 O O5' ATP . . . D 4 41.208 10.216 37.84 1 39.7 ? O5' ATP 1380 A 1 HETATM 14 C C5' ATP . . . D 4 41.816 10.736 36.657 1 40.27 ? C5' ATP 1380 A 1 HETATM 15 C C4' ATP . . . D 4 41.11 10.171 35.427 1 40.78 ? C4' ATP 1380 A 1 HETATM 16 O O4' ATP . . . D 4 39.688 10.318 35.583 1 42.06 ? O4' ATP 1380 A 1 HETATM 17 C C3' ATP . . . D 4 41.507 10.934 34.163 1 40.32 ? C3' ATP 1380 A 1 HETATM 18 O O3' ATP . . . D 4 41.712 10.04 33.072 1 36.23 ? O3' ATP 1380 A 1 HETATM 19 C C2' ATP . . . D 4 40.297 11.793 33.855 1 41.59 ? C2' ATP 1380 A 1 HETATM 20 O O2' ATP . . . D 4 40.083 12.016 32.463 1 41.83 ? O2' ATP 1380 A 1 HETATM 21 C C1' ATP . . . D 4 39.158 10.992 34.435 1 42.83 ? C1' ATP 1380 A 1 HETATM 22 N N9 ATP . . . D 4 38.023 11.884 34.748 1 43.51 ? N9 ATP 1380 A 1 HETATM 23 C C8 ATP . . . D 4 37.999 12.992 35.51 1 43.34 ? C8 ATP 1380 A 1 HETATM 24 N N7 ATP . . . D 4 36.742 13.5 35.531 1 42.57 ? N7 ATP 1380 A 1 HETATM 25 C C5 ATP . . . D 4 35.949 12.706 34.785 1 42.47 ? C5 ATP 1380 A 1 HETATM 26 C C6 ATP . . . D 4 34.525 12.65 34.358 1 43.27 ? C6 ATP 1380 A 1 HETATM 27 N N6 ATP . . . D 4 33.608 13.567 34.739 1 43.55 ? N6 ATP 1380 A 1 HETATM 28 N N1 ATP . . . D 4 34.137 11.628 33.558 1 44.56 ? N1 ATP 1380 A 1 HETATM 29 C C2 ATP . . . D 4 34.991 10.671 33.124 1 43.72 ? C2 ATP 1380 A 1 HETATM 30 N N3 ATP . . . D 4 36.295 10.673 33.454 1 44.6 ? N3 ATP 1380 A 1 HETATM 31 C C4 ATP . . . D 4 36.811 11.647 34.263 1 43.7 ? C4 ATP 1380 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 255 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 31 #