data_2PHK # _model_server_result.job_id OFrRjdwauQDbmQ2odcKKVQ _model_server_result.datetime_utc '2025-02-18 00:06:28' _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 2phk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":381}' # _entry.id 2PHK # _exptl.entry_id 2PHK _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 2PHK _cell.length_a 65.3 _cell.length_b 65.3 _cell.length_c 145.8 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PHK _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 6_765 -x+2,-x+y+1,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 97.95 56.551459 97.2 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 OD1 ASN 141 A ASN 154 1_555 D MN MN . A MN 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc2 A OD1 ASP 154 A ASP 167 1_555 C MN MN . A MN 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc3 A OD2 ASP 154 A ASP 167 1_555 C MN MN . A MN 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc4 A OD2 ASP 154 A ASP 167 1_555 D MN MN . A MN 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc5 E O3G ATP . A ATP 381 1_555 C MN MN . A MN 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc6 E O2B ATP . A ATP 381 1_555 C MN MN . A MN 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc7 E O2G ATP . A ATP 381 1_555 D MN MN . A MN 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc8 E O2A ATP . A ATP 381 1_555 D MN MN . A MN 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc9 E O3B ATP . A ATP 381 1_555 D MN MN . A MN 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc10 C MN MN . A MN 382 1_555 G O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc11 C MN MN . A MN 382 1_555 G O HOH . A HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc12 D MN MN . A MN 383 1_555 G O HOH . A HOH 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? # _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 2PHK _atom_sites.fract_transf_matrix[1][1] 0.015314 _atom_sites.fract_transf_matrix[1][2] 0.008842 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017683 _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] 0.006859 _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 3 MN A 1 382 382 MN MN . D 3 MN A 1 383 383 MN MN . E 4 ATP A 1 381 381 ATP ATP . F 5 GOL A 1 384 21 GOL GOL . G 6 HOH A 1 385 1 HOH HOH . G 6 HOH A 2 386 2 HOH HOH . G 6 HOH A 3 387 3 HOH HOH . G 6 HOH A 4 388 4 HOH HOH . G 6 HOH A 5 389 5 HOH HOH . G 6 HOH A 6 390 8 HOH HOH . G 6 HOH A 7 391 9 HOH HOH . G 6 HOH A 8 392 10 HOH HOH . G 6 HOH A 9 393 11 HOH HOH . G 6 HOH A 10 394 12 HOH HOH . G 6 HOH A 11 395 13 HOH HOH . G 6 HOH A 12 396 14 HOH HOH . G 6 HOH A 13 397 15 HOH HOH . G 6 HOH A 14 398 16 HOH HOH . G 6 HOH A 15 399 17 HOH HOH . G 6 HOH A 16 400 18 HOH HOH . G 6 HOH A 17 401 19 HOH HOH . G 6 HOH A 18 402 20 HOH HOH . G 6 HOH A 19 403 21 HOH HOH . G 6 HOH A 20 404 22 HOH HOH . G 6 HOH A 21 405 23 HOH HOH . G 6 HOH A 22 406 25 HOH HOH . G 6 HOH A 23 407 26 HOH HOH . G 6 HOH A 24 408 27 HOH HOH . G 6 HOH A 25 409 28 HOH HOH . G 6 HOH A 26 410 29 HOH HOH . G 6 HOH A 27 411 30 HOH HOH . G 6 HOH A 28 412 31 HOH HOH . G 6 HOH A 29 413 32 HOH HOH . G 6 HOH A 30 414 33 HOH HOH . G 6 HOH A 31 415 34 HOH HOH . G 6 HOH A 32 416 35 HOH HOH . G 6 HOH A 33 417 36 HOH HOH . G 6 HOH A 34 418 37 HOH HOH . G 6 HOH A 35 419 38 HOH HOH . G 6 HOH A 36 420 39 HOH HOH . G 6 HOH A 37 421 40 HOH HOH . G 6 HOH A 38 422 41 HOH HOH . G 6 HOH A 39 423 42 HOH HOH . G 6 HOH A 40 424 43 HOH HOH . G 6 HOH A 41 425 44 HOH HOH . G 6 HOH A 42 426 45 HOH HOH . G 6 HOH A 43 427 46 HOH HOH . G 6 HOH A 44 428 47 HOH HOH . G 6 HOH A 45 429 48 HOH HOH . G 6 HOH A 46 430 50 HOH HOH . G 6 HOH A 47 431 51 HOH HOH . G 6 HOH A 48 432 52 HOH HOH . G 6 HOH A 49 433 53 HOH HOH . G 6 HOH A 50 434 54 HOH HOH . G 6 HOH A 51 435 55 HOH HOH . G 6 HOH A 52 436 56 HOH HOH . G 6 HOH A 53 437 57 HOH HOH . G 6 HOH A 54 438 58 HOH HOH . G 6 HOH A 55 439 59 HOH HOH . G 6 HOH A 56 440 60 HOH HOH . G 6 HOH A 57 441 61 HOH HOH . G 6 HOH A 58 442 62 HOH HOH . G 6 HOH A 59 443 63 HOH HOH . G 6 HOH A 60 444 64 HOH HOH . G 6 HOH A 61 445 65 HOH HOH . G 6 HOH A 62 446 66 HOH HOH . G 6 HOH A 63 447 67 HOH HOH . G 6 HOH A 64 448 68 HOH HOH . G 6 HOH A 65 449 69 HOH HOH . G 6 HOH A 66 450 70 HOH HOH . G 6 HOH A 67 451 71 HOH HOH . G 6 HOH A 68 452 72 HOH HOH . G 6 HOH A 69 453 73 HOH HOH . G 6 HOH A 70 454 74 HOH HOH . G 6 HOH A 71 455 75 HOH HOH . G 6 HOH A 72 456 76 HOH HOH . G 6 HOH A 73 457 77 HOH HOH . G 6 HOH A 74 458 79 HOH HOH . G 6 HOH A 75 459 80 HOH HOH . G 6 HOH A 76 460 81 HOH HOH . G 6 HOH A 77 461 82 HOH HOH . G 6 HOH A 78 462 83 HOH HOH . G 6 HOH A 79 463 84 HOH HOH . G 6 HOH A 80 464 85 HOH HOH . G 6 HOH A 81 465 86 HOH HOH . G 6 HOH A 82 466 87 HOH HOH . G 6 HOH A 83 467 88 HOH HOH . H 6 HOH B 1 24 24 HOH HOH . H 6 HOH B 2 49 49 HOH HOH . H 6 HOH B 3 78 78 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 . . . E 4 46.7 16.274 49.325 1 13.39 ? PG ATP 381 A 1 HETATM 2 O O1G ATP . . . E 4 47.742 17.258 49.727 1 12.78 ? O1G ATP 381 A 1 HETATM 3 O O2G ATP . . . E 4 46.636 16.177 47.857 1 12.68 ? O2G ATP 381 A 1 HETATM 4 O O3G ATP . . . E 4 45.385 16.756 49.827 1 13.92 ? O3G ATP 381 A 1 HETATM 5 P PB ATP . . . E 4 46.218 14.012 51.085 1 13.36 ? PB ATP 381 A 1 HETATM 6 O O1B ATP . . . E 4 46.565 14.345 52.473 1 12.76 ? O1B ATP 381 A 1 HETATM 7 O O2B ATP . . . E 4 44.746 14.058 50.883 1 13.11 ? O2B ATP 381 A 1 HETATM 8 O O3B ATP . . . E 4 47.007 14.848 49.982 1 13.27 ? O3B ATP 381 A 1 HETATM 9 P PA ATP . . . E 4 46.355 11.564 49.49 1 14.57 ? PA ATP 381 A 1 HETATM 10 O O1A ATP . . . E 4 45.101 10.806 49.695 1 14.82 ? O1A ATP 381 A 1 HETATM 11 O O2A ATP . . . E 4 46.32 12.229 48.172 1 14.23 ? O2A ATP 381 A 1 HETATM 12 O O3A ATP . . . E 4 46.72 12.537 50.704 1 14.14 ? O3A ATP 381 A 1 HETATM 13 O O5' ATP . . . E 4 47.597 10.548 49.541 1 16.2 ? O5' ATP 381 A 1 HETATM 14 C C5' ATP . . . E 4 48.933 11.086 49.54 1 17.39 ? C5' ATP 381 A 1 HETATM 15 C C4' ATP . . . E 4 49.882 10.367 48.608 1 18.01 ? C4' ATP 381 A 1 HETATM 16 O O4' ATP . . . E 4 50.112 9.017 49.017 1 18.65 ? O4' ATP 381 A 1 HETATM 17 C C3' ATP . . . E 4 49.522 10.353 47.14 1 18.4 ? C3' ATP 381 A 1 HETATM 18 O O3' ATP . . . E 4 49.995 11.549 46.482 1 17.98 ? O3' ATP 381 A 1 HETATM 19 C C2' ATP . . . E 4 50.141 9.02 46.67 1 18.84 ? C2' ATP 381 A 1 HETATM 20 O O2' ATP . . . E 4 51.482 9.218 46.167 1 19.23 ? O2' ATP 381 A 1 HETATM 21 C C1' ATP . . . E 4 50.175 8.159 47.934 1 19.06 ? C1' ATP 381 A 1 HETATM 22 N N9 ATP . . . E 4 49.182 7.11 48.025 1 19.41 ? N9 ATP 381 A 1 HETATM 23 C C8 ATP . . . E 4 47.879 7.288 48.345 1 19.64 ? C8 ATP 381 A 1 HETATM 24 N N7 ATP . . . E 4 47.079 6.298 48.22 1 19.51 ? N7 ATP 381 A 1 HETATM 25 C C5 ATP . . . E 4 47.874 5.354 47.786 1 19.93 ? C5 ATP 381 A 1 HETATM 26 C C6 ATP . . . E 4 47.519 4.065 47.478 1 20.15 ? C6 ATP 381 A 1 HETATM 27 N N6 ATP . . . E 4 46.293 3.561 47.575 1 19.71 ? N6 ATP 381 A 1 HETATM 28 N N1 ATP . . . E 4 48.524 3.278 47.043 1 20.44 ? N1 ATP 381 A 1 HETATM 29 C C2 ATP . . . E 4 49.795 3.812 46.945 1 20.05 ? C2 ATP 381 A 1 HETATM 30 N N3 ATP . . . E 4 50.207 5.022 47.212 1 19.69 ? N3 ATP 381 A 1 HETATM 31 C C4 ATP . . . E 4 49.181 5.776 47.642 1 19.65 ? C4 ATP 381 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #