data_7P9O # _model_server_result.job_id vT4TLgTU72ydw3030MJEvw _model_server_result.datetime_utc '2024-11-29 01:28:34' _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 7p9o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7P9O # _exptl.entry_id 7P9O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 367.36 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine" _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 105.62 _cell.angle_gamma 90 _cell.entry_id 7P9O _cell.length_a 79.99 _cell.length_b 38.89 _cell.length_c 90.65 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7P9O _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 _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 # _chem_comp.formula 'C14 H21 N7 O5' _chem_comp.formula_weight 367.36 _chem_comp.id 0Y0 _chem_comp.mon_nstd_flag . _chem_comp.name "5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine" _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 OXT C 0Y0 doub 1 n n C CA 0Y0 sing 2 n n C O 0Y0 sing 3 n n CA N 0Y0 sing 4 n n CA CB 0Y0 sing 5 n n CB CAS 0Y0 sing 6 n n CAS NAR 0Y0 sing 7 n n NAR CAF 0Y0 sing 8 n n CAF CAA 0Y0 sing 9 n n CAB CAA 0Y0 sing 10 n n CAB OAH 0Y0 sing 11 n n CAB CAC 0Y0 sing 12 n n CAA OAE 0Y0 sing 13 n n CAC OAI 0Y0 sing 14 n n CAC CAD 0Y0 sing 15 n n OAE CAD 0Y0 sing 16 n n CAD N9 0Y0 sing 17 n n C8 N9 0Y0 sing 18 n y C8 N7 0Y0 doub 19 n y N9 C4 0Y0 sing 20 n y N7 C5 0Y0 sing 21 n y C4 N3 0Y0 doub 22 n y C4 C5 0Y0 sing 23 n y N3 C2 0Y0 sing 24 n y C5 C6 0Y0 doub 25 n y C2 N1 0Y0 doub 26 n y C6 N1 0Y0 sing 27 n y C6 N6 0Y0 sing 28 n n O H1 0Y0 sing 29 n n CA H2 0Y0 sing 30 n n N H3 0Y0 sing 31 n n N H4 0Y0 sing 32 n n CB H6 0Y0 sing 33 n n CB H7 0Y0 sing 34 n n CAS H8 0Y0 sing 35 n n CAS H9 0Y0 sing 36 n n NAR H10 0Y0 sing 37 n n CAF H12 0Y0 sing 38 n n CAF H13 0Y0 sing 39 n n CAA H14 0Y0 sing 40 n n CAB H15 0Y0 sing 41 n n OAH H16 0Y0 sing 42 n n CAC H17 0Y0 sing 43 n n OAI H18 0Y0 sing 44 n n CAD H19 0Y0 sing 45 n n C8 H20 0Y0 sing 46 n n C2 H21 0Y0 sing 47 n n N6 H22 0Y0 sing 48 n n N6 H23 0Y0 sing 49 n n # _atom_sites.entry_id 7P9O _atom_sites.fract_transf_matrix[1][1] 0.012502 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003495 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025714 _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] 0.011454 _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 0Y0 A 1 301 301 0Y0 CAM . C 3 HOH A 1 401 88 HOH HOH . C 3 HOH A 2 402 50 HOH HOH . C 3 HOH A 3 403 105 HOH HOH . C 3 HOH A 4 404 46 HOH HOH . C 3 HOH A 5 405 58 HOH HOH . C 3 HOH A 6 406 117 HOH HOH . C 3 HOH A 7 407 81 HOH HOH . C 3 HOH A 8 408 32 HOH HOH . C 3 HOH A 9 409 47 HOH HOH . C 3 HOH A 10 410 6 HOH HOH . C 3 HOH A 11 411 101 HOH HOH . C 3 HOH A 12 412 25 HOH HOH . C 3 HOH A 13 413 15 HOH HOH . C 3 HOH A 14 414 30 HOH HOH . C 3 HOH A 15 415 29 HOH HOH . C 3 HOH A 16 416 67 HOH HOH . C 3 HOH A 17 417 16 HOH HOH . C 3 HOH A 18 418 11 HOH HOH . C 3 HOH A 19 419 102 HOH HOH . C 3 HOH A 20 420 72 HOH HOH . C 3 HOH A 21 421 14 HOH HOH . C 3 HOH A 22 422 60 HOH HOH . C 3 HOH A 23 423 66 HOH HOH . C 3 HOH A 24 424 21 HOH HOH . C 3 HOH A 25 425 64 HOH HOH . C 3 HOH A 26 426 33 HOH HOH . C 3 HOH A 27 427 73 HOH HOH . C 3 HOH A 28 428 12 HOH HOH . C 3 HOH A 29 429 55 HOH HOH . C 3 HOH A 30 430 57 HOH HOH . C 3 HOH A 31 431 85 HOH HOH . C 3 HOH A 32 432 5 HOH HOH . C 3 HOH A 33 433 31 HOH HOH . C 3 HOH A 34 434 28 HOH HOH . C 3 HOH A 35 435 37 HOH HOH . C 3 HOH A 36 436 113 HOH HOH . C 3 HOH A 37 437 18 HOH HOH . C 3 HOH A 38 438 86 HOH HOH . C 3 HOH A 39 439 44 HOH HOH . C 3 HOH A 40 440 19 HOH HOH . C 3 HOH A 41 441 104 HOH HOH . C 3 HOH A 42 442 4 HOH HOH . C 3 HOH A 43 443 24 HOH HOH . C 3 HOH A 44 444 34 HOH HOH . C 3 HOH A 45 445 13 HOH HOH . C 3 HOH A 46 446 7 HOH HOH . C 3 HOH A 47 447 100 HOH HOH . C 3 HOH A 48 448 39 HOH HOH . C 3 HOH A 49 449 22 HOH HOH . C 3 HOH A 50 450 35 HOH HOH . C 3 HOH A 51 451 10 HOH HOH . C 3 HOH A 52 452 94 HOH HOH . C 3 HOH A 53 453 63 HOH HOH . C 3 HOH A 54 454 8 HOH HOH . C 3 HOH A 55 455 59 HOH HOH . C 3 HOH A 56 456 51 HOH HOH . C 3 HOH A 57 457 36 HOH HOH . C 3 HOH A 58 458 27 HOH HOH . C 3 HOH A 59 459 20 HOH HOH . C 3 HOH A 60 460 87 HOH HOH . C 3 HOH A 61 461 62 HOH HOH . C 3 HOH A 62 462 42 HOH HOH . C 3 HOH A 63 463 80 HOH HOH . C 3 HOH A 64 464 48 HOH HOH . C 3 HOH A 65 465 41 HOH HOH . C 3 HOH A 66 466 89 HOH HOH . C 3 HOH A 67 467 78 HOH HOH . C 3 HOH A 68 468 71 HOH HOH . C 3 HOH A 69 469 17 HOH HOH . C 3 HOH A 70 470 23 HOH HOH . C 3 HOH A 71 471 53 HOH HOH . C 3 HOH A 72 472 77 HOH HOH . C 3 HOH A 73 473 119 HOH HOH . C 3 HOH A 74 474 108 HOH HOH . C 3 HOH A 75 475 43 HOH HOH . C 3 HOH A 76 476 79 HOH HOH . C 3 HOH A 77 477 118 HOH HOH . C 3 HOH A 78 478 98 HOH HOH . C 3 HOH A 79 479 110 HOH HOH . C 3 HOH A 80 480 76 HOH HOH . C 3 HOH A 81 481 45 HOH HOH . C 3 HOH A 82 482 75 HOH HOH . C 3 HOH A 83 483 54 HOH HOH . C 3 HOH A 84 484 82 HOH HOH . C 3 HOH A 85 485 90 HOH HOH . C 3 HOH A 86 486 65 HOH HOH . C 3 HOH A 87 487 83 HOH HOH . C 3 HOH A 88 488 93 HOH HOH . C 3 HOH A 89 489 40 HOH HOH . C 3 HOH A 90 490 96 HOH HOH . C 3 HOH A 91 491 74 HOH HOH . C 3 HOH A 92 492 109 HOH HOH . C 3 HOH A 93 493 106 HOH HOH . C 3 HOH A 94 494 97 HOH HOH . C 3 HOH A 95 495 115 HOH HOH . C 3 HOH A 96 496 112 HOH HOH . C 3 HOH A 97 497 56 HOH HOH . C 3 HOH A 98 498 99 HOH HOH . C 3 HOH A 99 499 111 HOH HOH . C 3 HOH A 100 500 116 HOH HOH . C 3 HOH A 101 501 114 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 O O 0Y0 . . . B 2 14.406 -6.845 17.932 1 10.81 ? O 0Y0 301 A 1 HETATM 2 C C 0Y0 . . . B 2 15.16 -7.809 17.729 1 14.55 ? C 0Y0 301 A 1 HETATM 3 O OXT 0Y0 . . . B 2 15.035 -8.513 16.669 1 17.7 ? OXT 0Y0 301 A 1 HETATM 4 C CA 0Y0 . . . B 2 16.205 -8.142 18.769 1 15.94 ? CA 0Y0 301 A 1 HETATM 5 N N 0Y0 . . . B 2 16.26 -7.075 19.745 1 11.94 ? N 0Y0 301 A 1 HETATM 6 C CB 0Y0 . . . B 2 15.832 -9.515 19.456 1 20.2 ? CB 0Y0 301 A 1 HETATM 7 C CAS 0Y0 . . . B 2 16.68 -9.803 20.702 1 28.2 ? CAS 0Y0 301 A 1 HETATM 8 N NAR 0Y0 . . . B 2 16.504 -11.24 21.14 1 23.72 ? NAR 0Y0 301 A 1 HETATM 9 C CAF 0Y0 . . . B 2 17.6 -11.554 22.09 1 23.93 ? CAF 0Y0 301 A 1 HETATM 10 C CAA 0Y0 . . . B 2 18.899 -11.787 21.281 1 32.5 ? CAA 0Y0 301 A 1 HETATM 11 O OAE 0Y0 . . . B 2 20.098 -11.217 22.058 1 38.43 ? OAE 0Y0 301 A 1 HETATM 12 C CAB 0Y0 . . . B 2 19.158 -13.079 21.129 1 32.94 ? CAB 0Y0 301 A 1 HETATM 13 O OAH 0Y0 . . . B 2 19.837 -13.273 19.92 1 30.33 ? OAH 0Y0 301 A 1 HETATM 14 C CAC 0Y0 . . . B 2 20.102 -13.502 22.36 1 39.67 ? CAC 0Y0 301 A 1 HETATM 15 O OAI 0Y0 . . . B 2 20.948 -14.59 21.938 1 37.81 ? OAI 0Y0 301 A 1 HETATM 16 C CAD 0Y0 . . . B 2 20.872 -12.441 22.603 1 37.35 ? CAD 0Y0 301 A 1 HETATM 17 N N9 0Y0 . . . B 2 21.252 -12.524 24.07 1 36.78 ? N9 0Y0 301 A 1 HETATM 18 C C8 0Y0 . . . B 2 20.857 -13.29 25.055 1 36.87 ? C8 0Y0 301 A 1 HETATM 19 N N7 0Y0 . . . B 2 21.478 -12.93 26.18 1 35.52 ? N7 0Y0 301 A 1 HETATM 20 C C5 0Y0 . . . B 2 22.295 -11.903 25.885 1 43.75 ? C5 0Y0 301 A 1 HETATM 21 C C4 0Y0 . . . B 2 22.144 -11.648 24.555 1 39.71 ? C4 0Y0 301 A 1 HETATM 22 N N3 0Y0 . . . B 2 22.825 -10.652 23.963 1 36.55 ? N3 0Y0 301 A 1 HETATM 23 C C2 0Y0 . . . B 2 23.661 -9.909 24.664 1 34.63 ? C2 0Y0 301 A 1 HETATM 24 N N1 0Y0 . . . B 2 23.851 -10.113 25.927 1 33.61 ? N1 0Y0 301 A 1 HETATM 25 C C6 0Y0 . . . B 2 23.198 -11.079 26.585 1 37.22 ? C6 0Y0 301 A 1 HETATM 26 N N6 0Y0 . . . B 2 23.433 -11.262 27.998 1 34.8 ? N6 0Y0 301 A 1 HETATM 27 H H2 0Y0 . . . B 2 17.07 -8.227 18.339 1 19.13 ? H2 0Y0 301 A 1 HETATM 28 H H3 0Y0 . . . B 2 16.719 -6.388 19.412 1 14.32 ? H3 0Y0 301 A 1 HETATM 29 H H4 0Y0 . . . B 2 15.433 -6.811 19.941 1 14.32 ? H4 0Y0 301 A 1 HETATM 30 H H6 0Y0 . . . B 2 15.968 -10.23 18.816 1 24.24 ? H6 0Y0 301 A 1 HETATM 31 H H7 0Y0 . . . B 2 14.897 -9.495 19.709 1 24.24 ? H7 0Y0 301 A 1 HETATM 32 H H8 0Y0 . . . B 2 17.612 -9.632 20.497 1 33.84 ? H8 0Y0 301 A 1 HETATM 33 H H9 0Y0 . . . B 2 16.398 -9.213 21.418 1 33.84 ? H9 0Y0 301 A 1 HETATM 34 H H10 0Y0 . . . B 2 15.722 -11.327 21.554 1 28.47 ? H10 0Y0 301 A 1 HETATM 35 H H12 0Y0 . . . B 2 17.381 -12.35 22.6 1 28.71 ? H12 0Y0 301 A 1 HETATM 36 H H13 0Y0 . . . B 2 17.727 -10.804 22.692 1 28.71 ? H13 0Y0 301 A 1 HETATM 37 H H14 0Y0 . . . B 2 18.838 -11.359 20.414 1 39 ? H14 0Y0 301 A 1 HETATM 38 H H15 0Y0 . . . B 2 18.334 -13.589 21.145 1 39.53 ? H15 0Y0 301 A 1 HETATM 39 H H16 0Y0 . . . B 2 19.332 -13.062 19.27 1 36.4 ? H16 0Y0 301 A 1 HETATM 40 H H17 0Y0 . . . B 2 19.546 -13.744 23.113 1 47.61 ? H17 0Y0 301 A 1 HETATM 41 H H18 0Y0 . . . B 2 21.237 -14.435 21.154 1 45.38 ? H18 0Y0 301 A 1 HETATM 42 H H19 0Y0 . . . B 2 21.684 -12.531 22.091 1 44.82 ? H19 0Y0 301 A 1 HETATM 43 H H20 0Y0 . . . B 2 20.238 -13.981 24.99 1 44.25 ? H20 0Y0 301 A 1 HETATM 44 H H21 0Y0 . . . B 2 24.132 -9.23 24.238 1 41.56 ? H21 0Y0 301 A 1 HETATM 45 H H22 0Y0 . . . B 2 23.005 -11.874 28.426 1 41.76 ? H22 0Y0 301 A 1 HETATM 46 H H23 0Y0 . . . B 2 23.995 -10.757 28.409 1 41.76 ? H23 0Y0 301 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 46 #