data_6Y2O # _model_server_result.job_id NzJ4rKs8i7NDUv256Gp3eQ _model_server_result.datetime_utc '2024-11-24 14:54:21' _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 6y2o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":406}' # _entry.id 6Y2O # _exptl.entry_id 6Y2O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 145.161 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,7-naphthyridin-8-amine _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 90 _cell.entry_id 6Y2O _cell.length_a 58.642 _cell.length_b 74.916 _cell.length_c 106.01 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Y2O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id H _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 covale ? covale1 A C GLY 12 A GLY 9 1_555 A N SEP 13 A SEP 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C SEP 13 A SEP 10 1_555 A N GLU 14 A GLU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 A C TRP 199 A TRP 196 1_555 A N TPO 200 A TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 A C TPO 200 A TPO 197 1_555 A N LEU 201 A LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 A C VAL 340 A VAL 337 1_555 A N SEP 341 A SEP 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 A C SEP 341 A SEP 338 1_555 A N ILE 342 A ILE 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? # _chem_comp.formula 'C8 H7 N3' _chem_comp.formula_weight 145.161 _chem_comp.id O72 _chem_comp.mon_nstd_flag . _chem_comp.name 1,7-naphthyridin-8-amine _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 C5 C4 O72 doub 246 n y C5 C6 O72 sing 247 n y C4 C3 O72 sing 248 n y C6 N2 O72 doub 249 n y N2 C7 O72 sing 250 n y C3 C7 O72 doub 251 n y C3 C2 O72 sing 252 n y C7 C O72 sing 253 n y C2 C1 O72 doub 254 n y C N O72 sing 255 n n C N1 O72 doub 256 n y C1 N1 O72 sing 257 n y C1 H1 O72 sing 258 n n C2 H2 O72 sing 259 n n C6 H3 O72 sing 260 n n C5 H4 O72 sing 261 n n C4 H5 O72 sing 262 n n N H6 O72 sing 263 n n N H7 O72 sing 264 n n # _atom_sites.entry_id 6Y2O _atom_sites.fract_transf_matrix[1][1] 0.017053 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013348 _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] 0.009433 _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 DMS A 1 401 1 DMS DMS . D 3 DMS A 1 402 2 DMS DMS . E 3 DMS A 1 403 3 DMS DMS . F 3 DMS A 1 404 4 DMS DMS . G 3 DMS A 1 405 5 DMS DMS . H 4 O72 A 1 406 1 O72 L52 . I 5 HOH A 1 501 60 HOH HOH . I 5 HOH A 2 502 112 HOH HOH . I 5 HOH A 3 503 23 HOH HOH . I 5 HOH A 4 504 125 HOH HOH . I 5 HOH A 5 505 105 HOH HOH . I 5 HOH A 6 506 121 HOH HOH . I 5 HOH A 7 507 6 HOH HOH . I 5 HOH A 8 508 101 HOH HOH . I 5 HOH A 9 509 11 HOH HOH . I 5 HOH A 10 510 146 HOH HOH . I 5 HOH A 11 511 145 HOH HOH . I 5 HOH A 12 512 108 HOH HOH . I 5 HOH A 13 513 15 HOH HOH . I 5 HOH A 14 514 135 HOH HOH . I 5 HOH A 15 515 37 HOH HOH . I 5 HOH A 16 516 50 HOH HOH . I 5 HOH A 17 517 116 HOH HOH . I 5 HOH A 18 518 26 HOH HOH . I 5 HOH A 19 519 44 HOH HOH . I 5 HOH A 20 520 56 HOH HOH . I 5 HOH A 21 521 47 HOH HOH . I 5 HOH A 22 522 94 HOH HOH . I 5 HOH A 23 523 99 HOH HOH . I 5 HOH A 24 524 1 HOH HOH . I 5 HOH A 25 525 32 HOH HOH . I 5 HOH A 26 526 8 HOH HOH . I 5 HOH A 27 527 10 HOH HOH . I 5 HOH A 28 528 92 HOH HOH . I 5 HOH A 29 529 64 HOH HOH . I 5 HOH A 30 530 96 HOH HOH . I 5 HOH A 31 531 51 HOH HOH . I 5 HOH A 32 532 28 HOH HOH . I 5 HOH A 33 533 120 HOH HOH . I 5 HOH A 34 534 5 HOH HOH . I 5 HOH A 35 535 20 HOH HOH . I 5 HOH A 36 536 90 HOH HOH . I 5 HOH A 37 537 34 HOH HOH . I 5 HOH A 38 538 66 HOH HOH . I 5 HOH A 39 539 29 HOH HOH . I 5 HOH A 40 540 113 HOH HOH . I 5 HOH A 41 541 70 HOH HOH . I 5 HOH A 42 542 57 HOH HOH . I 5 HOH A 43 543 65 HOH HOH . I 5 HOH A 44 544 22 HOH HOH . I 5 HOH A 45 545 17 HOH HOH . I 5 HOH A 46 546 30 HOH HOH . I 5 HOH A 47 547 139 HOH HOH . I 5 HOH A 48 548 54 HOH HOH . I 5 HOH A 49 549 48 HOH HOH . I 5 HOH A 50 550 59 HOH HOH . I 5 HOH A 51 551 16 HOH HOH . I 5 HOH A 52 552 3 HOH HOH . I 5 HOH A 53 553 21 HOH HOH . I 5 HOH A 54 554 38 HOH HOH . I 5 HOH A 55 555 39 HOH HOH . I 5 HOH A 56 556 46 HOH HOH . I 5 HOH A 57 557 110 HOH HOH . I 5 HOH A 58 558 49 HOH HOH . I 5 HOH A 59 559 25 HOH HOH . I 5 HOH A 60 560 67 HOH HOH . I 5 HOH A 61 561 130 HOH HOH . I 5 HOH A 62 562 63 HOH HOH . I 5 HOH A 63 563 14 HOH HOH . I 5 HOH A 64 564 115 HOH HOH . I 5 HOH A 65 565 55 HOH HOH . I 5 HOH A 66 566 103 HOH HOH . I 5 HOH A 67 567 100 HOH HOH . I 5 HOH A 68 568 71 HOH HOH . I 5 HOH A 69 569 79 HOH HOH . I 5 HOH A 70 570 27 HOH HOH . I 5 HOH A 71 571 111 HOH HOH . I 5 HOH A 72 572 117 HOH HOH . I 5 HOH A 73 573 7 HOH HOH . I 5 HOH A 74 574 132 HOH HOH . I 5 HOH A 75 575 18 HOH HOH . I 5 HOH A 76 576 82 HOH HOH . I 5 HOH A 77 577 36 HOH HOH . I 5 HOH A 78 578 126 HOH HOH . I 5 HOH A 79 579 122 HOH HOH . I 5 HOH A 80 580 124 HOH HOH . I 5 HOH A 81 581 31 HOH HOH . I 5 HOH A 82 582 62 HOH HOH . I 5 HOH A 83 583 61 HOH HOH . I 5 HOH A 84 584 73 HOH HOH . I 5 HOH A 85 585 107 HOH HOH . I 5 HOH A 86 586 119 HOH HOH . I 5 HOH A 87 587 148 HOH HOH . I 5 HOH A 88 588 75 HOH HOH . I 5 HOH A 89 589 33 HOH HOH . I 5 HOH A 90 590 4 HOH HOH . I 5 HOH A 91 591 13 HOH HOH . I 5 HOH A 92 592 72 HOH HOH . I 5 HOH A 93 593 58 HOH HOH . I 5 HOH A 94 594 147 HOH HOH . I 5 HOH A 95 595 118 HOH HOH . I 5 HOH A 96 596 128 HOH HOH . I 5 HOH A 97 597 141 HOH HOH . I 5 HOH A 98 598 76 HOH HOH . I 5 HOH A 99 599 80 HOH HOH . I 5 HOH A 100 600 123 HOH HOH . I 5 HOH A 101 601 95 HOH HOH . I 5 HOH A 102 602 142 HOH HOH . I 5 HOH A 103 603 136 HOH HOH . I 5 HOH A 104 604 102 HOH HOH . I 5 HOH A 105 605 42 HOH HOH . I 5 HOH A 106 606 131 HOH HOH . I 5 HOH A 107 607 2 HOH HOH . I 5 HOH A 108 608 137 HOH HOH . I 5 HOH A 109 609 91 HOH HOH . I 5 HOH A 110 610 140 HOH HOH . I 5 HOH A 111 611 138 HOH HOH . I 5 HOH A 112 612 98 HOH HOH . I 5 HOH A 113 613 81 HOH HOH . I 5 HOH A 114 614 12 HOH HOH . I 5 HOH A 115 615 87 HOH HOH . I 5 HOH A 116 616 133 HOH HOH . I 5 HOH A 117 617 68 HOH HOH . I 5 HOH A 118 618 24 HOH HOH . J 5 HOH B 1 101 19 HOH HOH . J 5 HOH B 2 102 127 HOH HOH . J 5 HOH B 3 103 129 HOH HOH . J 5 HOH B 4 104 41 HOH HOH . J 5 HOH B 5 105 43 HOH HOH . J 5 HOH B 6 106 77 HOH HOH . J 5 HOH B 7 107 143 HOH HOH . J 5 HOH B 8 108 45 HOH HOH . J 5 HOH B 9 109 78 HOH HOH . J 5 HOH B 10 110 40 HOH HOH . J 5 HOH B 11 111 9 HOH HOH . J 5 HOH B 12 112 52 HOH HOH . J 5 HOH B 13 113 89 HOH HOH . J 5 HOH B 14 114 109 HOH HOH . J 5 HOH B 15 115 74 HOH HOH . J 5 HOH B 16 116 86 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 N N2 O72 . . . H 4 15.696 -25.268 -24.708 1 35.33 ? N2 O72 406 A 1 HETATM 2 N N1 O72 . . . H 4 17.649 -27.645 -22.68 1 35.33 ? N1 O72 406 A 1 HETATM 3 C C1 O72 . . . H 4 17.159 -28.803 -23.145 1 35.33 ? C1 O72 406 A 1 HETATM 4 C C2 O72 . . . H 4 16.2 -28.889 -24.102 1 35.33 ? C2 O72 406 A 1 HETATM 5 C C7 O72 . . . H 4 16.148 -26.456 -24.207 1 35.33 ? C7 O72 406 A 1 HETATM 6 C C6 O72 . . . H 4 14.791 -25.316 -25.672 1 35.33 ? C6 O72 406 A 1 HETATM 7 C C5 O72 . . . H 4 14.267 -26.482 -26.191 1 35.33 ? C5 O72 406 A 1 HETATM 8 C C4 O72 . . . H 4 14.697 -27.675 -25.691 1 35.33 ? C4 O72 406 A 1 HETATM 9 C C3 O72 . . . H 4 15.668 -27.705 -24.666 1 35.33 ? C3 O72 406 A 1 HETATM 10 N N O72 . . . H 4 17.668 -25.347 -22.73 1 35.33 ? N O72 406 A 1 HETATM 11 C C O72 . . . H 4 17.161 -26.491 -23.196 1 35.33 ? C O72 406 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 11 #