data_7AG6 # _model_server_result.job_id XROSQiOgHZRU9DmwRvsoHA _model_server_result.datetime_utc '2025-01-08 10:50:16' _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 7ag6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7AG6 # _exptl.entry_id 7AG6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 7AG6 _cell.length_a 94.88 _cell.length_b 94.88 _cell.length_c 167.43 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7AG6 _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,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N 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 C O1A ADP . A ADP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.924 ? metalc ? metalc2 E MG MG . A MG 403 1_555 I O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc3 E MG MG . A MG 403 1_555 I O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc4 E MG MG . A MG 403 1_555 I O HOH . A HOH 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc5 E MG MG . A MG 403 1_555 I O HOH . A HOH 553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc6 E MG MG . A MG 403 1_555 I O HOH . A HOH 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc7 F O2A ADP . B ADP 401 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.921 ? metalc ? metalc8 H MG MG . B MG 403 1_555 J O HOH . B HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc9 H MG MG . B MG 403 1_555 J O HOH . B HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc10 H MG MG . B MG 403 1_555 J O HOH . B HOH 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc11 H MG MG . B MG 403 1_555 J O HOH . B HOH 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc12 H MG MG . B MG 403 1_555 J O HOH . B HOH 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 7AG6 _atom_sites.fract_transf_matrix[1][1] 0.01054 _atom_sites.fract_transf_matrix[1][2] 0.006085 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01217 _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] 0.005973 _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 ADP A 1 401 401 ADP ADP . D 3 RB8 A 1 402 501 RB8 SF . E 4 MG A 1 403 2 MG MG . F 2 ADP B 1 401 301 ADP ADP . G 3 RB8 B 1 402 401 RB8 SF . H 4 MG B 1 403 1 MG MG . I 5 HOH A 1 501 287 HOH HOH . I 5 HOH A 2 502 302 HOH HOH . I 5 HOH A 3 503 304 HOH HOH . I 5 HOH A 4 504 69 HOH HOH . I 5 HOH A 5 505 67 HOH HOH . I 5 HOH A 6 506 23 HOH HOH . I 5 HOH A 7 507 40 HOH HOH . I 5 HOH A 8 508 152 HOH HOH . I 5 HOH A 9 509 21 HOH HOH . I 5 HOH A 10 510 86 HOH HOH . I 5 HOH A 11 511 107 HOH HOH . I 5 HOH A 12 512 180 HOH HOH . I 5 HOH A 13 513 43 HOH HOH . I 5 HOH A 14 514 286 HOH HOH . I 5 HOH A 15 515 25 HOH HOH . I 5 HOH A 16 516 45 HOH HOH . I 5 HOH A 17 517 117 HOH HOH . I 5 HOH A 18 518 48 HOH HOH . I 5 HOH A 19 519 139 HOH HOH . I 5 HOH A 20 520 26 HOH HOH . I 5 HOH A 21 521 52 HOH HOH . I 5 HOH A 22 522 31 HOH HOH . I 5 HOH A 23 523 46 HOH HOH . I 5 HOH A 24 524 290 HOH HOH . I 5 HOH A 25 525 291 HOH HOH . I 5 HOH A 26 526 108 HOH HOH . I 5 HOH A 27 527 59 HOH HOH . I 5 HOH A 28 528 285 HOH HOH . I 5 HOH A 29 529 53 HOH HOH . I 5 HOH A 30 530 111 HOH HOH . I 5 HOH A 31 531 123 HOH HOH . I 5 HOH A 32 532 164 HOH HOH . I 5 HOH A 33 533 37 HOH HOH . I 5 HOH A 34 534 76 HOH HOH . I 5 HOH A 35 535 8 HOH HOH . I 5 HOH A 36 536 71 HOH HOH . I 5 HOH A 37 537 22 HOH HOH . I 5 HOH A 38 538 301 HOH HOH . I 5 HOH A 39 539 133 HOH HOH . I 5 HOH A 40 540 84 HOH HOH . I 5 HOH A 41 541 32 HOH HOH . I 5 HOH A 42 542 81 HOH HOH . I 5 HOH A 43 543 79 HOH HOH . I 5 HOH A 44 544 306 HOH HOH . I 5 HOH A 45 545 162 HOH HOH . I 5 HOH A 46 546 14 HOH HOH . I 5 HOH A 47 547 128 HOH HOH . I 5 HOH A 48 548 171 HOH HOH . I 5 HOH A 49 549 95 HOH HOH . I 5 HOH A 50 550 68 HOH HOH . I 5 HOH A 51 551 219 HOH HOH . I 5 HOH A 52 552 51 HOH HOH . I 5 HOH A 53 553 303 HOH HOH . I 5 HOH A 54 554 57 HOH HOH . I 5 HOH A 55 555 50 HOH HOH . I 5 HOH A 56 556 217 HOH HOH . I 5 HOH A 57 557 78 HOH HOH . I 5 HOH A 58 558 58 HOH HOH . I 5 HOH A 59 559 305 HOH HOH . I 5 HOH A 60 560 24 HOH HOH . I 5 HOH A 61 561 224 HOH HOH . I 5 HOH A 62 562 35 HOH HOH . I 5 HOH A 63 563 173 HOH HOH . I 5 HOH A 64 564 169 HOH HOH . I 5 HOH A 65 565 146 HOH HOH . I 5 HOH A 66 566 179 HOH HOH . I 5 HOH A 67 567 110 HOH HOH . I 5 HOH A 68 568 201 HOH HOH . I 5 HOH A 69 569 109 HOH HOH . I 5 HOH A 70 570 56 HOH HOH . I 5 HOH A 71 571 170 HOH HOH . I 5 HOH A 72 572 94 HOH HOH . I 5 HOH A 73 573 192 HOH HOH . I 5 HOH A 74 574 47 HOH HOH . I 5 HOH A 75 575 34 HOH HOH . I 5 HOH A 76 576 39 HOH HOH . I 5 HOH A 77 577 44 HOH HOH . I 5 HOH A 78 578 288 HOH HOH . I 5 HOH A 79 579 218 HOH HOH . I 5 HOH A 80 580 96 HOH HOH . I 5 HOH A 81 581 207 HOH HOH . I 5 HOH A 82 582 211 HOH HOH . I 5 HOH A 83 583 199 HOH HOH . I 5 HOH A 84 584 151 HOH HOH . J 5 HOH B 1 501 299 HOH HOH . J 5 HOH B 2 502 148 HOH HOH . J 5 HOH B 3 503 293 HOH HOH . J 5 HOH B 4 504 233 HOH HOH . J 5 HOH B 5 505 115 HOH HOH . J 5 HOH B 6 506 130 HOH HOH . J 5 HOH B 7 507 116 HOH HOH . J 5 HOH B 8 508 20 HOH HOH . J 5 HOH B 9 509 75 HOH HOH . J 5 HOH B 10 510 36 HOH HOH . J 5 HOH B 11 511 174 HOH HOH . J 5 HOH B 12 512 200 HOH HOH . J 5 HOH B 13 513 296 HOH HOH . J 5 HOH B 14 514 122 HOH HOH . J 5 HOH B 15 515 177 HOH HOH . J 5 HOH B 16 516 30 HOH HOH . J 5 HOH B 17 517 65 HOH HOH . J 5 HOH B 18 518 11 HOH HOH . J 5 HOH B 19 519 60 HOH HOH . J 5 HOH B 20 520 295 HOH HOH . J 5 HOH B 21 521 9 HOH HOH . J 5 HOH B 22 522 284 HOH HOH . J 5 HOH B 23 523 298 HOH HOH . J 5 HOH B 24 524 90 HOH HOH . J 5 HOH B 25 525 297 HOH HOH . J 5 HOH B 26 526 294 HOH HOH . J 5 HOH B 27 527 196 HOH HOH . J 5 HOH B 28 528 124 HOH HOH . J 5 HOH B 29 529 140 HOH HOH . J 5 HOH B 30 530 49 HOH HOH . J 5 HOH B 31 531 163 HOH HOH . J 5 HOH B 32 532 54 HOH HOH . J 5 HOH B 33 533 15 HOH HOH . J 5 HOH B 34 534 137 HOH HOH . J 5 HOH B 35 535 212 HOH HOH . J 5 HOH B 36 536 227 HOH HOH . J 5 HOH B 37 537 300 HOH HOH . J 5 HOH B 38 538 178 HOH HOH . J 5 HOH B 39 539 55 HOH HOH . J 5 HOH B 40 540 121 HOH HOH . J 5 HOH B 41 541 29 HOH HOH . J 5 HOH B 42 542 147 HOH HOH . J 5 HOH B 43 543 198 HOH HOH . J 5 HOH B 44 544 292 HOH HOH . J 5 HOH B 45 545 33 HOH HOH . J 5 HOH B 46 546 77 HOH HOH . J 5 HOH B 47 547 66 HOH HOH . J 5 HOH B 48 548 168 HOH HOH . J 5 HOH B 49 549 143 HOH HOH . J 5 HOH B 50 550 145 HOH HOH . J 5 HOH B 51 551 101 HOH HOH . J 5 HOH B 52 552 114 HOH HOH . J 5 HOH B 53 553 63 HOH HOH . J 5 HOH B 54 554 153 HOH HOH . J 5 HOH B 55 555 97 HOH HOH . J 5 HOH B 56 556 223 HOH HOH . J 5 HOH B 57 557 232 HOH HOH . J 5 HOH B 58 558 98 HOH HOH . J 5 HOH B 59 559 136 HOH HOH . J 5 HOH B 60 560 120 HOH HOH . J 5 HOH B 61 561 113 HOH HOH . J 5 HOH B 62 562 61 HOH HOH . J 5 HOH B 63 563 289 HOH HOH . J 5 HOH B 64 564 265 HOH HOH . J 5 HOH B 65 565 272 HOH HOH . J 5 HOH B 66 566 238 HOH HOH . J 5 HOH B 67 567 241 HOH HOH . J 5 HOH B 68 568 187 HOH HOH . J 5 HOH B 69 569 231 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 ADP . . . C 2 18.582 32.423 -19.812 1 54.82 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . C 2 18.595 33.808 -20.441 1 53.24 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . C 2 19.862 31.615 -20.033 1 60.06 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . C 2 17.348 31.611 -20.17 1 65.39 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . C 2 17.321 33.247 -17.272 1 50.44 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . C 2 16.184 33.836 -18.032 1 53.41 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . C 2 17.01 32.124 -16.342 1 51.45 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . C 2 18.495 32.749 -18.232 1 54.31 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . C 2 18.054 34.436 -16.488 1 49.45 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . C 2 19.147 34.15 -15.577 1 49.55 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . C 2 19.069 35.024 -14.35 1 45.2 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . C 2 19.017 36.425 -14.738 1 48.61 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . C 2 17.853 34.829 -13.444 1 47.77 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . C 2 18.014 33.705 -12.583 1 44.6 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . C 2 17.84 36.181 -12.725 1 47.77 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . C 2 18.828 36.213 -11.724 1 48.69 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . C 2 18.154 37.136 -13.883 1 51.11 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . C 2 16.964 37.51 -14.644 1 52.59 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . C 2 16.467 36.899 -15.767 1 54.71 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . C 2 15.326 37.391 -16.181 1 52.71 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . C 2 15.058 38.403 -15.281 1 49.51 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . C 2 13.979 39.296 -15.173 1 50.77 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . C 2 12.937 39.3 -15.996 1 62.98 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . C 2 13.989 40.156 -14.139 1 49.76 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . C 2 15.044 40.148 -13.31 1 50.54 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . C 2 16.102 39.342 -13.297 1 51.13 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . C 2 16.047 38.476 -14.321 1 51.36 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #