data_6GPY # _model_server_result.job_id zAtaYlkJyevhZfFkYAfXcg _model_server_result.datetime_utc '2024-10-24 04:24:35' _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 6gpy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6GPY # _exptl.entry_id 6GPY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 116.02 _cell.angle_gamma 90 _cell.entry_id 6GPY _cell.length_a 53.819 _cell.length_b 44.172 _cell.length_c 54.158 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GPY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 _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 # 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 71 A ASN 51 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc2 B O2B ANP . A ANP 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc3 B O1A ANP . A ANP 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc4 C MG MG . A MG 302 1_555 D O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc5 C MG MG . A MG 302 1_555 D O HOH . A HOH 442 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc6 C MG MG . A MG 302 1_555 D O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 6GPY _atom_sites.fract_transf_matrix[1][1] 0.018581 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.009071 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022639 _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] 0.020547 _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 ANP A 1 301 1 ANP ANP . C 3 MG A 1 302 1 MG MG . D 4 HOH A 1 401 103 HOH HOH . D 4 HOH A 2 402 170 HOH HOH . D 4 HOH A 3 403 31 HOH HOH . D 4 HOH A 4 404 43 HOH HOH . D 4 HOH A 5 405 181 HOH HOH . D 4 HOH A 6 406 34 HOH HOH . D 4 HOH A 7 407 136 HOH HOH . D 4 HOH A 8 408 139 HOH HOH . D 4 HOH A 9 409 114 HOH HOH . D 4 HOH A 10 410 178 HOH HOH . D 4 HOH A 11 411 50 HOH HOH . D 4 HOH A 12 412 85 HOH HOH . D 4 HOH A 13 413 36 HOH HOH . D 4 HOH A 14 414 128 HOH HOH . D 4 HOH A 15 415 40 HOH HOH . D 4 HOH A 16 416 130 HOH HOH . D 4 HOH A 17 417 52 HOH HOH . D 4 HOH A 18 418 11 HOH HOH . D 4 HOH A 19 419 143 HOH HOH . D 4 HOH A 20 420 4 HOH HOH . D 4 HOH A 21 421 38 HOH HOH . D 4 HOH A 22 422 102 HOH HOH . D 4 HOH A 23 423 105 HOH HOH . D 4 HOH A 24 424 23 HOH HOH . D 4 HOH A 25 425 96 HOH HOH . D 4 HOH A 26 426 10 HOH HOH . D 4 HOH A 27 427 76 HOH HOH . D 4 HOH A 28 428 176 HOH HOH . D 4 HOH A 29 429 78 HOH HOH . D 4 HOH A 30 430 22 HOH HOH . D 4 HOH A 31 431 61 HOH HOH . D 4 HOH A 32 432 12 HOH HOH . D 4 HOH A 33 433 97 HOH HOH . D 4 HOH A 34 434 144 HOH HOH . D 4 HOH A 35 435 174 HOH HOH . D 4 HOH A 36 436 112 HOH HOH . D 4 HOH A 37 437 46 HOH HOH . D 4 HOH A 38 438 57 HOH HOH . D 4 HOH A 39 439 72 HOH HOH . D 4 HOH A 40 440 123 HOH HOH . D 4 HOH A 41 441 111 HOH HOH . D 4 HOH A 42 442 80 HOH HOH . D 4 HOH A 43 443 29 HOH HOH . D 4 HOH A 44 444 5 HOH HOH . D 4 HOH A 45 445 138 HOH HOH . D 4 HOH A 46 446 163 HOH HOH . D 4 HOH A 47 447 69 HOH HOH . D 4 HOH A 48 448 27 HOH HOH . D 4 HOH A 49 449 9 HOH HOH . D 4 HOH A 50 450 13 HOH HOH . D 4 HOH A 51 451 48 HOH HOH . D 4 HOH A 52 452 118 HOH HOH . D 4 HOH A 53 453 17 HOH HOH . D 4 HOH A 54 454 42 HOH HOH . D 4 HOH A 55 455 77 HOH HOH . D 4 HOH A 56 456 15 HOH HOH . D 4 HOH A 57 457 30 HOH HOH . D 4 HOH A 58 458 90 HOH HOH . D 4 HOH A 59 459 14 HOH HOH . D 4 HOH A 60 460 92 HOH HOH . D 4 HOH A 61 461 141 HOH HOH . D 4 HOH A 62 462 95 HOH HOH . D 4 HOH A 63 463 108 HOH HOH . D 4 HOH A 64 464 39 HOH HOH . D 4 HOH A 65 465 162 HOH HOH . D 4 HOH A 66 466 66 HOH HOH . D 4 HOH A 67 467 79 HOH HOH . D 4 HOH A 68 468 115 HOH HOH . D 4 HOH A 69 469 33 HOH HOH . D 4 HOH A 70 470 7 HOH HOH . D 4 HOH A 71 471 126 HOH HOH . D 4 HOH A 72 472 20 HOH HOH . D 4 HOH A 73 473 32 HOH HOH . D 4 HOH A 74 474 25 HOH HOH . D 4 HOH A 75 475 98 HOH HOH . D 4 HOH A 76 476 166 HOH HOH . D 4 HOH A 77 477 64 HOH HOH . D 4 HOH A 78 478 35 HOH HOH . D 4 HOH A 79 479 155 HOH HOH . D 4 HOH A 80 480 165 HOH HOH . D 4 HOH A 81 481 44 HOH HOH . D 4 HOH A 82 482 94 HOH HOH . D 4 HOH A 83 483 147 HOH HOH . D 4 HOH A 84 484 47 HOH HOH . D 4 HOH A 85 485 60 HOH HOH . D 4 HOH A 86 486 88 HOH HOH . D 4 HOH A 87 487 2 HOH HOH . D 4 HOH A 88 488 63 HOH HOH . D 4 HOH A 89 489 117 HOH HOH . D 4 HOH A 90 490 59 HOH HOH . D 4 HOH A 91 491 8 HOH HOH . D 4 HOH A 92 492 68 HOH HOH . D 4 HOH A 93 493 156 HOH HOH . D 4 HOH A 94 494 119 HOH HOH . D 4 HOH A 95 495 74 HOH HOH . D 4 HOH A 96 496 45 HOH HOH . D 4 HOH A 97 497 19 HOH HOH . D 4 HOH A 98 498 87 HOH HOH . D 4 HOH A 99 499 21 HOH HOH . D 4 HOH A 100 500 51 HOH HOH . D 4 HOH A 101 501 104 HOH HOH . D 4 HOH A 102 502 84 HOH HOH . D 4 HOH A 103 503 62 HOH HOH . D 4 HOH A 104 504 65 HOH HOH . D 4 HOH A 105 505 6 HOH HOH . D 4 HOH A 106 506 106 HOH HOH . D 4 HOH A 107 507 53 HOH HOH . D 4 HOH A 108 508 67 HOH HOH . D 4 HOH A 109 509 101 HOH HOH . D 4 HOH A 110 510 54 HOH HOH . D 4 HOH A 111 511 124 HOH HOH . D 4 HOH A 112 512 122 HOH HOH . D 4 HOH A 113 513 140 HOH HOH . D 4 HOH A 114 514 172 HOH HOH . D 4 HOH A 115 515 159 HOH HOH . D 4 HOH A 116 516 175 HOH HOH . D 4 HOH A 117 517 132 HOH HOH . D 4 HOH A 118 518 55 HOH HOH . D 4 HOH A 119 519 113 HOH HOH . D 4 HOH A 120 520 58 HOH HOH . D 4 HOH A 121 521 100 HOH HOH . D 4 HOH A 122 522 89 HOH HOH . D 4 HOH A 123 523 186 HOH HOH . D 4 HOH A 124 524 16 HOH HOH . D 4 HOH A 125 525 28 HOH HOH . D 4 HOH A 126 526 41 HOH HOH . D 4 HOH A 127 527 168 HOH HOH . D 4 HOH A 128 528 26 HOH HOH . D 4 HOH A 129 529 169 HOH HOH . D 4 HOH A 130 530 37 HOH HOH . D 4 HOH A 131 531 146 HOH HOH . D 4 HOH A 132 532 184 HOH HOH . D 4 HOH A 133 533 164 HOH HOH . D 4 HOH A 134 534 107 HOH HOH . D 4 HOH A 135 535 70 HOH HOH . D 4 HOH A 136 536 83 HOH HOH . D 4 HOH A 137 537 157 HOH HOH . D 4 HOH A 138 538 148 HOH HOH . D 4 HOH A 139 539 167 HOH HOH . D 4 HOH A 140 540 18 HOH HOH . D 4 HOH A 141 541 125 HOH HOH . D 4 HOH A 142 542 154 HOH HOH . D 4 HOH A 143 543 109 HOH HOH . D 4 HOH A 144 544 171 HOH HOH . D 4 HOH A 145 545 86 HOH HOH . D 4 HOH A 146 546 179 HOH HOH . D 4 HOH A 147 547 173 HOH HOH . D 4 HOH A 148 548 75 HOH HOH . D 4 HOH A 149 549 149 HOH HOH . D 4 HOH A 150 550 161 HOH HOH . D 4 HOH A 151 551 182 HOH HOH . D 4 HOH A 152 552 116 HOH HOH . D 4 HOH A 153 553 91 HOH HOH . D 4 HOH A 154 554 133 HOH HOH . D 4 HOH A 155 555 120 HOH HOH . D 4 HOH A 156 556 160 HOH HOH . D 4 HOH A 157 557 71 HOH HOH . D 4 HOH A 158 558 137 HOH HOH . D 4 HOH A 159 559 135 HOH HOH . D 4 HOH A 160 560 49 HOH HOH . D 4 HOH A 161 561 131 HOH HOH . D 4 HOH A 162 562 129 HOH HOH . D 4 HOH A 163 563 134 HOH HOH . D 4 HOH A 164 564 93 HOH HOH . D 4 HOH A 165 565 145 HOH HOH . D 4 HOH A 166 566 153 HOH HOH . D 4 HOH A 167 567 158 HOH HOH . D 4 HOH A 168 568 180 HOH HOH . D 4 HOH A 169 569 127 HOH HOH . D 4 HOH A 170 570 152 HOH HOH . D 4 HOH A 171 571 187 HOH HOH . D 4 HOH A 172 572 177 HOH HOH . D 4 HOH A 173 573 110 HOH HOH . D 4 HOH A 174 574 99 HOH HOH . D 4 HOH A 175 575 24 HOH HOH . D 4 HOH A 176 576 121 HOH HOH . D 4 HOH A 177 577 73 HOH HOH . D 4 HOH A 178 578 185 HOH HOH . D 4 HOH A 179 579 183 HOH HOH . D 4 HOH A 180 580 150 HOH HOH . D 4 HOH A 181 581 151 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 ANP . . . B 2 4.045 1.325 3.676 1 16.49 ? PB ANP 301 A 1 HETATM 2 O O1B ANP . . . B 2 2.6 1.436 4.089 1 16 ? O1B ANP 301 A 1 HETATM 3 O O2B ANP . . . B 2 4.928 2.446 4.227 1 15.25 ? O2B ANP 301 A 1 HETATM 4 N N3B ANP . . . B 2 4.315 1.238 1.944 1 16.25 ? N3B ANP 301 A 1 HETATM 5 P PA ANP . . . B 2 5.669 -0.299 5.376 1 18.38 ? PA ANP 301 A 1 HETATM 6 O O1A ANP . . . B 2 6.783 0.636 5.072 1 19.43 ? O1A ANP 301 A 1 HETATM 7 O O2A ANP . . . B 2 5.983 -1.79 5.396 1 21.01 ? O2A ANP 301 A 1 HETATM 8 O O3A ANP . . . B 2 4.55 -0.093 4.222 1 17.37 ? O3A ANP 301 A 1 HETATM 9 O O5' ANP . . . B 2 4.954 -0.042 6.796 1 17.89 ? O5' ANP 301 A 1 HETATM 10 C C5' ANP . . . B 2 3.635 -0.545 7.045 1 17.67 ? C5' ANP 301 A 1 HETATM 11 C C4' ANP . . . B 2 2.906 0.458 7.944 1 17.49 ? C4' ANP 301 A 1 HETATM 12 O O4' ANP . . . B 2 3.601 0.596 9.212 1 19.26 ? O4' ANP 301 A 1 HETATM 13 C C3' ANP . . . B 2 2.862 1.876 7.432 1 17.07 ? C3' ANP 301 A 1 HETATM 14 O O3' ANP . . . B 2 1.85 2.013 6.401 1 16.79 ? O3' ANP 301 A 1 HETATM 15 C C2' ANP . . . B 2 2.627 2.672 8.716 1 17.61 ? C2' ANP 301 A 1 HETATM 16 O O2' ANP . . . B 2 1.231 2.576 9.013 1 17.88 ? O2' ANP 301 A 1 HETATM 17 C C1' ANP . . . B 2 3.299 1.848 9.826 1 17.89 ? C1' ANP 301 A 1 HETATM 18 N N9 ANP . . . B 2 4.561 2.492 10.177 1 18.37 ? N9 ANP 301 A 1 HETATM 19 C C8 ANP . . . B 2 5.786 2.057 9.808 1 18.79 ? C8 ANP 301 A 1 HETATM 20 N N7 ANP . . . B 2 6.755 2.883 10.264 1 19.56 ? N7 ANP 301 A 1 HETATM 21 C C5 ANP . . . B 2 6.152 3.889 10.934 1 19.26 ? C5 ANP 301 A 1 HETATM 22 C C6 ANP . . . B 2 6.605 5.104 11.629 1 19.28 ? C6 ANP 301 A 1 HETATM 23 N N6 ANP . . . B 2 7.936 5.422 11.706 1 18.56 ? N6 ANP 301 A 1 HETATM 24 N N1 ANP . . . B 2 5.653 5.894 12.157 1 19.64 ? N1 ANP 301 A 1 HETATM 25 C C2 ANP . . . B 2 4.335 5.602 12.084 1 20.07 ? C2 ANP 301 A 1 HETATM 26 N N3 ANP . . . B 2 3.865 4.499 11.46 1 18.79 ? N3 ANP 301 A 1 HETATM 27 C C4 ANP . . . B 2 4.705 3.628 10.876 1 19.14 ? C4 ANP 301 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #