data_3IGO # _model_server_result.job_id GQbHIegQdl6REXBcjbcrng _model_server_result.datetime_utc '2024-11-25 01:42:13' _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 3igo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":610}' # _entry.id 3IGO # _exptl.entry_id 3IGO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _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 105.25 _cell.angle_gamma 90 _cell.entry_id 3IGO _cell.length_a 60.388 _cell.length_b 55.55 _cell.length_c 81.697 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IGO _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 software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O _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 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 ASP 341 A ASP 393 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc2 A OD1 ASN 343 A ASN 395 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc3 A OD1 ASP 345 A ASP 397 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc4 A O MET 347 A MET 399 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc5 A OE1 GLU 352 A GLU 404 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc6 A OE2 GLU 352 A GLU 404 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc7 A OD1 ASP 391 A ASP 443 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc8 A OD1 ASP 393 A ASP 445 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc9 A OG SER 395 A SER 447 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? metalc ? metalc10 A O SER 397 A SER 449 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc11 A OE1 GLU 399 A GLU 451 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc12 A OE1 GLU 402 A GLU 454 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc13 A OE2 GLU 402 A GLU 454 1_555 D CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.885 ? metalc ? metalc14 A OD1 ASP 463 A ASP 515 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc15 A OD1 ASN 465 A ASN 517 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc16 A OD1 ASP 467 A ASP 519 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc17 A O GLU 469 A GLU 521 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc18 A OE1 GLU 474 A GLU 526 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc19 A OE2 GLU 474 A GLU 526 1_555 B CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc20 O O HOH . A HOH 547 1_555 C CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? # _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 3IGO _atom_sites.fract_transf_matrix[1][1] 0.01656 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004516 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018002 _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] 0.012687 _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 CA A 1 601 601 CA CA . C 2 CA A 1 602 602 CA CA . D 2 CA A 1 603 603 CA CA . E 3 ANP A 1 610 610 ANP ANP . F 4 GOL A 1 1 1 GOL GOL . G 4 GOL A 1 539 1 GOL GOL . H 4 GOL A 1 540 1 GOL GOL . I 2 CA A 1 541 1 CA CA . J 4 GOL A 1 542 1 GOL GOL . K 5 SRT A 1 543 1 SRT SRT . L 4 GOL A 1 544 1 GOL GOL . M 6 PO4 A 1 545 1 PO4 PO4 . N 4 GOL A 1 546 1 GOL GOL . O 7 HOH A 1 2 2 HOH HOH . O 7 HOH A 2 3 3 HOH HOH . O 7 HOH A 3 4 4 HOH HOH . O 7 HOH A 4 5 5 HOH HOH . O 7 HOH A 5 6 6 HOH HOH . O 7 HOH A 6 7 7 HOH HOH . O 7 HOH A 7 8 8 HOH HOH . O 7 HOH A 8 9 9 HOH HOH . O 7 HOH A 9 10 10 HOH HOH . O 7 HOH A 10 11 11 HOH HOH . O 7 HOH A 11 12 12 HOH HOH . O 7 HOH A 12 13 13 HOH HOH . O 7 HOH A 13 14 14 HOH HOH . O 7 HOH A 14 15 15 HOH HOH . O 7 HOH A 15 16 16 HOH HOH . O 7 HOH A 16 18 18 HOH HOH . O 7 HOH A 17 19 19 HOH HOH . O 7 HOH A 18 20 20 HOH HOH . O 7 HOH A 19 21 21 HOH HOH . O 7 HOH A 20 22 22 HOH HOH . O 7 HOH A 21 23 23 HOH HOH . O 7 HOH A 22 24 24 HOH HOH . O 7 HOH A 23 25 25 HOH HOH . O 7 HOH A 24 26 26 HOH HOH . O 7 HOH A 25 27 27 HOH HOH . O 7 HOH A 26 28 28 HOH HOH . O 7 HOH A 27 29 29 HOH HOH . O 7 HOH A 28 30 30 HOH HOH . O 7 HOH A 29 31 31 HOH HOH . O 7 HOH A 30 32 32 HOH HOH . O 7 HOH A 31 33 33 HOH HOH . O 7 HOH A 32 34 34 HOH HOH . O 7 HOH A 33 35 35 HOH HOH . O 7 HOH A 34 36 36 HOH HOH . O 7 HOH A 35 37 37 HOH HOH . O 7 HOH A 36 38 38 HOH HOH . O 7 HOH A 37 39 39 HOH HOH . O 7 HOH A 38 40 40 HOH HOH . O 7 HOH A 39 41 41 HOH HOH . O 7 HOH A 40 42 42 HOH HOH . O 7 HOH A 41 43 43 HOH HOH . O 7 HOH A 42 47 47 HOH HOH . O 7 HOH A 43 547 1 HOH HOH . O 7 HOH A 44 548 1 HOH HOH . O 7 HOH A 45 549 2 HOH HOH . O 7 HOH A 46 550 3 HOH HOH . O 7 HOH A 47 551 4 HOH HOH . O 7 HOH A 48 552 7 HOH HOH . O 7 HOH A 49 553 13 HOH HOH . O 7 HOH A 50 554 14 HOH HOH . O 7 HOH A 51 555 15 HOH HOH . O 7 HOH A 52 556 16 HOH HOH . O 7 HOH A 53 557 18 HOH HOH . O 7 HOH A 54 558 19 HOH HOH . O 7 HOH A 55 559 22 HOH HOH . O 7 HOH A 56 560 25 HOH HOH . O 7 HOH A 57 561 26 HOH HOH . O 7 HOH A 58 562 29 HOH HOH . O 7 HOH A 59 563 31 HOH HOH . O 7 HOH A 60 564 32 HOH HOH . O 7 HOH A 61 565 38 HOH HOH . O 7 HOH A 62 566 41 HOH HOH . O 7 HOH A 63 567 53 HOH HOH . O 7 HOH A 64 568 58 HOH HOH . O 7 HOH A 65 569 62 HOH HOH . O 7 HOH A 66 570 64 HOH HOH . O 7 HOH A 67 571 67 HOH HOH . O 7 HOH A 68 572 68 HOH HOH . O 7 HOH A 69 573 73 HOH HOH . O 7 HOH A 70 574 75 HOH HOH . O 7 HOH A 71 575 82 HOH HOH . O 7 HOH A 72 576 85 HOH HOH . O 7 HOH A 73 577 87 HOH HOH . O 7 HOH A 74 578 88 HOH HOH . O 7 HOH A 75 579 96 HOH HOH . O 7 HOH A 76 580 99 HOH HOH . O 7 HOH A 77 581 104 HOH HOH . O 7 HOH A 78 582 108 HOH HOH . O 7 HOH A 79 583 113 HOH HOH . O 7 HOH A 80 584 116 HOH HOH . O 7 HOH A 81 585 118 HOH HOH . O 7 HOH A 82 586 125 HOH HOH . O 7 HOH A 83 587 141 HOH HOH . O 7 HOH A 84 588 142 HOH HOH . O 7 HOH A 85 589 152 HOH HOH . O 7 HOH A 86 590 157 HOH HOH . O 7 HOH A 87 591 173 HOH HOH . O 7 HOH A 88 592 175 HOH HOH . O 7 HOH A 89 593 176 HOH HOH . O 7 HOH A 90 594 178 HOH HOH . O 7 HOH A 91 595 179 HOH HOH . O 7 HOH A 92 596 180 HOH HOH . O 7 HOH A 93 597 181 HOH HOH . O 7 HOH A 94 598 183 HOH HOH . O 7 HOH A 95 599 184 HOH HOH . O 7 HOH A 96 600 186 HOH HOH . O 7 HOH A 97 604 187 HOH HOH . O 7 HOH A 98 605 188 HOH HOH . O 7 HOH A 99 606 189 HOH HOH . O 7 HOH A 100 607 190 HOH HOH . O 7 HOH A 101 608 192 HOH HOH . O 7 HOH A 102 609 193 HOH HOH . O 7 HOH A 103 611 194 HOH HOH . O 7 HOH A 104 612 195 HOH HOH . O 7 HOH A 105 613 196 HOH HOH . O 7 HOH A 106 614 197 HOH HOH . O 7 HOH A 107 615 198 HOH HOH . O 7 HOH A 108 616 199 HOH HOH . O 7 HOH A 109 617 201 HOH HOH . O 7 HOH A 110 618 202 HOH HOH . O 7 HOH A 111 619 206 HOH HOH . O 7 HOH A 112 620 207 HOH HOH . O 7 HOH A 113 621 209 HOH HOH . O 7 HOH A 114 622 212 HOH HOH . O 7 HOH A 115 623 213 HOH HOH . O 7 HOH A 116 624 214 HOH HOH . O 7 HOH A 117 625 215 HOH HOH . O 7 HOH A 118 626 216 HOH HOH . O 7 HOH A 119 627 217 HOH HOH . O 7 HOH A 120 628 218 HOH HOH . O 7 HOH A 121 629 219 HOH HOH . O 7 HOH A 122 630 220 HOH HOH . O 7 HOH A 123 631 221 HOH HOH . O 7 HOH A 124 632 222 HOH HOH . O 7 HOH A 125 633 223 HOH HOH . O 7 HOH A 126 634 224 HOH HOH . O 7 HOH A 127 635 228 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 ANP . . . E 3 19.387 13.813 0.118 1 52.22 ? PG ANP 610 A 1 HETATM 2 O O1G ANP . . . E 3 19.498 14.742 -1.081 1 54.12 ? O1G ANP 610 A 1 HETATM 3 O O2G ANP . . . E 3 17.961 13.669 0.596 1 52.94 ? O2G ANP 610 A 1 HETATM 4 O O3G ANP . . . E 3 20.096 12.495 -0.091 1 52.06 ? O3G ANP 610 A 1 HETATM 5 P PB ANP . . . E 3 21.963 14.873 1.376 1 49.43 ? PB ANP 610 A 1 HETATM 6 O O1B ANP . . . E 3 22.297 15.686 2.614 1 49.78 ? O1B ANP 610 A 1 HETATM 7 O O2B ANP . . . E 3 22.367 15.485 0.063 1 50.4 ? O2B ANP 610 A 1 HETATM 8 N N3B ANP . . . E 3 20.237 14.624 1.409 1 50.31 ? N3B ANP 610 A 1 HETATM 9 P PA ANP . . . E 3 22.402 12.247 2.497 1 45.5 ? PA ANP 610 A 1 HETATM 10 O O1A ANP . . . E 3 21.054 11.728 2.073 1 46.58 ? O1A ANP 610 A 1 HETATM 11 O O2A ANP . . . E 3 22.57 12.616 3.958 1 44.4 ? O2A ANP 610 A 1 HETATM 12 O O3A ANP . . . E 3 22.779 13.471 1.482 1 48.63 ? O3A ANP 610 A 1 HETATM 13 O O5' ANP . . . E 3 23.546 11.195 2.118 1 47.03 ? O5' ANP 610 A 1 HETATM 14 C C5' ANP . . . E 3 23.818 10.866 0.751 1 45.78 ? C5' ANP 610 A 1 HETATM 15 C C4' ANP . . . E 3 24.255 9.414 0.675 1 46.62 ? C4' ANP 610 A 1 HETATM 16 O O4' ANP . . . E 3 25.493 9.185 1.341 1 45.43 ? O4' ANP 610 A 1 HETATM 17 C C3' ANP . . . E 3 23.241 8.48 1.327 1 47.89 ? C3' ANP 610 A 1 HETATM 18 O O3' ANP . . . E 3 22.46 7.945 0.271 1 50.32 ? O3' ANP 610 A 1 HETATM 19 C C2' ANP . . . E 3 24.057 7.373 1.961 1 47.43 ? C2' ANP 610 A 1 HETATM 20 O O2' ANP . . . E 3 24.14 6.278 1.04 1 49.46 ? O2' ANP 610 A 1 HETATM 21 C C1' ANP . . . E 3 25.439 7.991 2.133 1 44.32 ? C1' ANP 610 A 1 HETATM 22 N N9 ANP . . . E 3 25.652 8.321 3.565 1 42.43 ? N9 ANP 610 A 1 HETATM 23 C C8 ANP . . . E 3 25.209 9.419 4.205 1 40.24 ? C8 ANP 610 A 1 HETATM 24 N N7 ANP . . . E 3 25.589 9.415 5.504 1 40.21 ? N7 ANP 610 A 1 HETATM 25 C C5 ANP . . . E 3 26.286 8.294 5.718 1 40.19 ? C5 ANP 610 A 1 HETATM 26 C C6 ANP . . . E 3 26.957 7.65 6.871 1 39.75 ? C6 ANP 610 A 1 HETATM 27 N N6 ANP . . . E 3 26.977 8.238 8.088 1 37.59 ? N6 ANP 610 A 1 HETATM 28 N N1 ANP . . . E 3 27.574 6.461 6.65 1 39.43 ? N1 ANP 610 A 1 HETATM 29 C C2 ANP . . . E 3 27.587 5.859 5.44 1 39.44 ? C2 ANP 610 A 1 HETATM 30 N N3 ANP . . . E 3 26.976 6.385 4.362 1 40.62 ? N3 ANP 610 A 1 HETATM 31 C C4 ANP . . . E 3 26.329 7.572 4.433 1 40.58 ? C4 ANP 610 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #