data_3H8V # _model_server_result.job_id VhbXaCjSx21rM18GpZKgHw _model_server_result.datetime_utc '2025-03-03 16:59:59' _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 3h8v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 3H8V # _exptl.entry_id 3H8V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _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 3H8V _cell.length_a 77.999 _cell.length_b 77.999 _cell.length_c 207.005 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3H8V _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,F,G _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 3 _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 metalc ? metalc1 A SG CYS 189 A CYS 226 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc2 A SG CYS 192 A CYS 229 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc3 A SG CYS 266 A CYS 303 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc4 A SG CYS 271 A CYS 308 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc5 B SG CYS 189 B CYS 226 1_555 E ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc6 B SG CYS 192 B CYS 229 1_555 E ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc7 B SG CYS 266 B CYS 303 1_555 E ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc8 B SG CYS 271 B CYS 308 1_555 E ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? # _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 3H8V _atom_sites.fract_transf_matrix[1][1] 0.012821 _atom_sites.fract_transf_matrix[1][2] 0.007402 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014804 _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] 0.004831 _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 ZN A 1 401 401 ZN ZN . D 3 ATP A 1 402 402 ATP ATP . E 2 ZN B 1 401 401 ZN ZN . F 4 HOH A 1 403 403 HOH HOH . F 4 HOH A 2 404 404 HOH HOH . F 4 HOH A 3 405 405 HOH HOH . F 4 HOH A 4 406 406 HOH HOH . F 4 HOH A 5 407 407 HOH HOH . F 4 HOH A 6 408 408 HOH HOH . F 4 HOH A 7 409 409 HOH HOH . F 4 HOH A 8 410 410 HOH HOH . F 4 HOH A 9 411 411 HOH HOH . F 4 HOH A 10 412 412 HOH HOH . F 4 HOH A 11 413 413 HOH HOH . F 4 HOH A 12 414 414 HOH HOH . F 4 HOH A 13 415 415 HOH HOH . F 4 HOH A 14 416 416 HOH HOH . F 4 HOH A 15 417 417 HOH HOH . F 4 HOH A 16 418 418 HOH HOH . F 4 HOH A 17 419 419 HOH HOH . F 4 HOH A 18 420 420 HOH HOH . F 4 HOH A 19 421 421 HOH HOH . F 4 HOH A 20 422 422 HOH HOH . F 4 HOH A 21 423 423 HOH HOH . F 4 HOH A 22 424 424 HOH HOH . F 4 HOH A 23 425 425 HOH HOH . F 4 HOH A 24 426 426 HOH HOH . F 4 HOH A 25 427 427 HOH HOH . F 4 HOH A 26 428 428 HOH HOH . F 4 HOH A 27 429 429 HOH HOH . F 4 HOH A 28 430 430 HOH HOH . F 4 HOH A 29 431 431 HOH HOH . F 4 HOH A 30 432 432 HOH HOH . F 4 HOH A 31 433 433 HOH HOH . F 4 HOH A 32 434 434 HOH HOH . F 4 HOH A 33 435 435 HOH HOH . F 4 HOH A 34 436 436 HOH HOH . F 4 HOH A 35 437 437 HOH HOH . F 4 HOH A 36 438 438 HOH HOH . F 4 HOH A 37 439 439 HOH HOH . F 4 HOH A 38 440 440 HOH HOH . F 4 HOH A 39 441 441 HOH HOH . F 4 HOH A 40 442 442 HOH HOH . F 4 HOH A 41 443 443 HOH HOH . F 4 HOH A 42 444 444 HOH HOH . F 4 HOH A 43 445 445 HOH HOH . F 4 HOH A 44 446 446 HOH HOH . F 4 HOH A 45 447 447 HOH HOH . F 4 HOH A 46 448 448 HOH HOH . F 4 HOH A 47 449 449 HOH HOH . F 4 HOH A 48 450 450 HOH HOH . F 4 HOH A 49 451 451 HOH HOH . F 4 HOH A 50 452 452 HOH HOH . F 4 HOH A 51 453 453 HOH HOH . F 4 HOH A 52 454 454 HOH HOH . F 4 HOH A 53 455 455 HOH HOH . F 4 HOH A 54 456 456 HOH HOH . F 4 HOH A 55 457 457 HOH HOH . F 4 HOH A 56 458 458 HOH HOH . F 4 HOH A 57 459 459 HOH HOH . F 4 HOH A 58 460 460 HOH HOH . F 4 HOH A 59 461 461 HOH HOH . F 4 HOH A 60 462 462 HOH HOH . F 4 HOH A 61 463 463 HOH HOH . F 4 HOH A 62 464 464 HOH HOH . F 4 HOH A 63 465 465 HOH HOH . F 4 HOH A 64 466 466 HOH HOH . F 4 HOH A 65 467 467 HOH HOH . F 4 HOH A 66 468 468 HOH HOH . F 4 HOH A 67 469 469 HOH HOH . F 4 HOH A 68 470 470 HOH HOH . F 4 HOH A 69 471 471 HOH HOH . F 4 HOH A 70 472 472 HOH HOH . F 4 HOH A 71 473 473 HOH HOH . F 4 HOH A 72 474 474 HOH HOH . F 4 HOH A 73 475 475 HOH HOH . F 4 HOH A 74 476 476 HOH HOH . F 4 HOH A 75 477 477 HOH HOH . F 4 HOH A 76 478 478 HOH HOH . F 4 HOH A 77 479 479 HOH HOH . F 4 HOH A 78 480 480 HOH HOH . F 4 HOH A 79 481 481 HOH HOH . F 4 HOH A 80 482 482 HOH HOH . F 4 HOH A 81 483 483 HOH HOH . F 4 HOH A 82 484 484 HOH HOH . F 4 HOH A 83 485 485 HOH HOH . F 4 HOH A 84 486 486 HOH HOH . F 4 HOH A 85 487 487 HOH HOH . G 4 HOH B 1 402 402 HOH HOH . G 4 HOH B 2 403 403 HOH HOH . G 4 HOH B 3 404 404 HOH HOH . G 4 HOH B 4 405 405 HOH HOH . G 4 HOH B 5 406 406 HOH HOH . G 4 HOH B 6 407 407 HOH HOH . G 4 HOH B 7 408 408 HOH HOH . G 4 HOH B 8 409 409 HOH HOH . G 4 HOH B 9 410 410 HOH HOH . G 4 HOH B 10 411 411 HOH HOH . G 4 HOH B 11 412 412 HOH HOH . G 4 HOH B 12 413 413 HOH HOH . G 4 HOH B 13 414 414 HOH HOH . G 4 HOH B 14 415 415 HOH HOH . G 4 HOH B 15 416 416 HOH HOH . G 4 HOH B 16 417 417 HOH HOH . G 4 HOH B 17 418 418 HOH HOH . G 4 HOH B 18 419 419 HOH HOH . G 4 HOH B 19 420 420 HOH HOH . G 4 HOH B 20 421 421 HOH HOH . G 4 HOH B 21 422 422 HOH HOH . G 4 HOH B 22 423 423 HOH HOH . G 4 HOH B 23 424 424 HOH HOH . G 4 HOH B 24 425 425 HOH HOH . G 4 HOH B 25 426 426 HOH HOH . G 4 HOH B 26 427 427 HOH HOH . G 4 HOH B 27 428 428 HOH HOH . G 4 HOH B 28 429 429 HOH HOH . G 4 HOH B 29 430 430 HOH HOH . G 4 HOH B 30 431 431 HOH HOH . G 4 HOH B 31 432 432 HOH HOH . G 4 HOH B 32 433 433 HOH HOH . G 4 HOH B 33 434 434 HOH HOH . G 4 HOH B 34 435 435 HOH HOH . G 4 HOH B 35 436 436 HOH HOH . G 4 HOH B 36 437 437 HOH HOH . G 4 HOH B 37 438 438 HOH HOH . G 4 HOH B 38 439 439 HOH HOH . G 4 HOH B 39 440 440 HOH HOH . G 4 HOH B 40 441 441 HOH HOH . G 4 HOH B 41 442 442 HOH HOH . G 4 HOH B 42 443 443 HOH HOH . G 4 HOH B 43 444 444 HOH HOH . G 4 HOH B 44 445 445 HOH HOH . G 4 HOH B 45 446 446 HOH HOH . G 4 HOH B 46 447 447 HOH HOH . G 4 HOH B 47 448 448 HOH HOH . G 4 HOH B 48 449 449 HOH HOH . G 4 HOH B 49 450 450 HOH HOH . G 4 HOH B 50 451 451 HOH HOH . G 4 HOH B 51 452 452 HOH HOH . G 4 HOH B 52 453 453 HOH HOH . G 4 HOH B 53 454 454 HOH HOH . G 4 HOH B 54 455 455 HOH HOH . G 4 HOH B 55 456 456 HOH HOH . G 4 HOH B 56 457 457 HOH HOH . G 4 HOH B 57 458 458 HOH HOH . G 4 HOH B 58 459 459 HOH HOH . G 4 HOH B 59 460 460 HOH HOH . G 4 HOH B 60 461 461 HOH HOH . G 4 HOH B 61 462 462 HOH HOH . G 4 HOH B 62 463 463 HOH HOH . G 4 HOH B 63 464 464 HOH HOH . G 4 HOH B 64 465 465 HOH HOH . G 4 HOH B 65 466 466 HOH HOH . G 4 HOH B 66 467 467 HOH HOH . G 4 HOH B 67 468 468 HOH HOH . G 4 HOH B 68 469 469 HOH HOH . G 4 HOH B 69 470 470 HOH HOH . G 4 HOH B 70 471 471 HOH HOH . G 4 HOH B 71 472 472 HOH HOH . G 4 HOH B 72 473 473 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 3 47.504 -25.832 21.213 1 165.43 ? PG ATP 402 A 1 HETATM 2 O O1G ATP . . . D 3 47.697 -26.407 19.83 1 500 ? O1G ATP 402 A 1 HETATM 3 O O2G ATP . . . D 3 48.444 -26.404 22.249 1 393.84 ? O2G ATP 402 A 1 HETATM 4 O O3G ATP . . . D 3 46.07 -25.738 21.678 1 83.16 ? O3G ATP 402 A 1 HETATM 5 P PB ATP . . . D 3 47.192 -23.203 20.181 1 413.44 ? PB ATP 402 A 1 HETATM 6 O O1B ATP . . . D 3 48.074 -21.98 20.146 1 86.89 ? O1B ATP 402 A 1 HETATM 7 O O2B ATP . . . D 3 46.778 -23.832 18.874 1 62.65 ? O2B ATP 402 A 1 HETATM 8 O O3B ATP . . . D 3 47.971 -24.295 21.078 1 142.48 ? O3B ATP 402 A 1 HETATM 9 P PA ATP . . . D 3 44.773 -21.789 20.507 1 69.29 ? PA ATP 402 A 1 HETATM 10 O O1A ATP . . . D 3 45.462 -20.899 19.498 1 59.64 ? O1A ATP 402 A 1 HETATM 11 O O2A ATP . . . D 3 44.077 -21.165 21.698 1 113.38 ? O2A ATP 402 A 1 HETATM 12 O O3A ATP . . . D 3 45.86 -22.863 21.031 1 84.75 ? O3A ATP 402 A 1 HETATM 13 O O5' ATP . . . D 3 43.683 -22.695 19.745 1 112 ? O5' ATP 402 A 1 HETATM 14 C C5' ATP . . . D 3 42.903 -22.182 18.666 1 65.02 ? C5' ATP 402 A 1 HETATM 15 C C4' ATP . . . D 3 42.417 -23.335 17.794 1 91.5 ? C4' ATP 402 A 1 HETATM 16 O O4' ATP . . . D 3 41.749 -22.862 16.616 1 62.64 ? O4' ATP 402 A 1 HETATM 17 C C3' ATP . . . D 3 43.555 -24.224 17.308 1 61.56 ? C3' ATP 402 A 1 HETATM 18 O O3' ATP . . . D 3 43.276 -25.559 17.748 1 55.14 ? O3' ATP 402 A 1 HETATM 19 C C2' ATP . . . D 3 43.513 -24.108 15.793 1 129.04 ? C2' ATP 402 A 1 HETATM 20 O O2' ATP . . . D 3 43.905 -25.306 15.113 1 62.9 ? O2' ATP 402 A 1 HETATM 21 C C1' ATP . . . D 3 42.05 -23.769 15.555 1 102.12 ? C1' ATP 402 A 1 HETATM 22 N N9 ATP . . . D 3 41.79 -23.208 14.205 1 91.98 ? N9 ATP 402 A 1 HETATM 23 C C8 ATP . . . D 3 42.421 -22.148 13.671 1 57.86 ? C8 ATP 402 A 1 HETATM 24 N N7 ATP . . . D 3 41.958 -21.881 12.43 1 50.65 ? N7 ATP 402 A 1 HETATM 25 C C5 ATP . . . D 3 41.007 -22.787 12.146 1 78.83 ? C5 ATP 402 A 1 HETATM 26 C C6 ATP . . . D 3 40.122 -23.069 10.992 1 56.99 ? C6 ATP 402 A 1 HETATM 27 N N6 ATP . . . D 3 40.199 -22.284 9.891 1 43.11 ? N6 ATP 402 A 1 HETATM 28 N N1 ATP . . . D 3 39.253 -24.112 11.081 1 67.95 ? N1 ATP 402 A 1 HETATM 29 C C2 ATP . . . D 3 39.192 -24.883 12.186 1 62.26 ? C2 ATP 402 A 1 HETATM 30 N N3 ATP . . . D 3 39.974 -24.678 13.271 1 74.44 ? N3 ATP 402 A 1 HETATM 31 C C4 ATP . . . D 3 40.89 -23.665 13.318 1 70.91 ? C4 ATP 402 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #