data_8AEB # _model_server_result.job_id qiZe2nIpIhNseZpZqmGvOw _model_server_result.datetime_utc '2024-11-16 06:25:09' _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 8aeb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 8AEB # _exptl.entry_id 8AEB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 152.217 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(pyridin-3-ylmethyl)thioformamide _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 101.304 _cell.angle_gamma 90 _cell.entry_id 8AEB _cell.length_a 115.141 _cell.length_b 53.472 _cell.length_c 44.65 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8AEB _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 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 SG CYS 145 A CYS 145 1_555 C CAJ 35J . A 35J 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc1 A O ALA 129 A ALA 129 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc2 A O PHE 134 A PHE 134 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.808 ? metalc ? metalc3 A O GLY 174 A GLY 174 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.125 ? metalc ? metalc4 A O TYR 182 A TYR 182 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc5 A OD2 ASP 187 A ASP 187 1_555 E NA NA . A NA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.849 ? metalc ? metalc6 A OE2 GLU 290 A GLU 290 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.844 ? # _chem_comp.formula 'C7 H8 N2 S' _chem_comp.formula_weight 152.217 _chem_comp.id 35J _chem_comp.mon_nstd_flag . _chem_comp.name N-(pyridin-3-ylmethyl)thioformamide _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 CAJ SAB 35J doub 1 n n CAJ NAI 35J sing 2 n n NAI CAG 35J sing 3 n n CAG CAK 35J sing 4 n n CAE CAK 35J doub 5 n y CAE CAC 35J sing 6 n y CAK CAF 35J sing 7 n y CAC CAD 35J doub 8 n y CAF NAH 35J doub 9 n y CAD NAH 35J sing 10 n y CAJ H1 35J sing 11 n n CAG H3 35J sing 12 n n CAG H4 35J sing 13 n n CAE H5 35J sing 14 n n CAC H6 35J sing 15 n n CAD H7 35J sing 16 n n CAF H8 35J sing 17 n n NAI H2 35J sing 18 n n # _atom_sites.entry_id 8AEB _atom_sites.fract_transf_matrix[1][1] 0.008685 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001736 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018701 _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] 0.022839 _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 DMS A 1 401 402 DMS DMS . C 3 35J A 1 402 403 35J 35J . D 2 DMS A 1 403 404 DMS DMS . E 4 NA A 1 404 1 NA NA . F 4 NA A 1 405 2 NA NA . G 4 NA A 1 406 3 NA NA . H 4 NA A 1 407 4 NA NA . I 5 HOH A 1 501 49 HOH HOH . I 5 HOH A 2 502 32 HOH HOH . I 5 HOH A 3 503 12 HOH HOH . I 5 HOH A 4 504 112 HOH HOH . I 5 HOH A 5 505 123 HOH HOH . I 5 HOH A 6 506 86 HOH HOH . I 5 HOH A 7 507 34 HOH HOH . I 5 HOH A 8 508 41 HOH HOH . I 5 HOH A 9 509 58 HOH HOH . I 5 HOH A 10 510 1 HOH HOH . I 5 HOH A 11 511 78 HOH HOH . I 5 HOH A 12 512 99 HOH HOH . I 5 HOH A 13 513 51 HOH HOH . I 5 HOH A 14 514 30 HOH HOH . I 5 HOH A 15 515 42 HOH HOH . I 5 HOH A 16 516 115 HOH HOH . I 5 HOH A 17 517 81 HOH HOH . I 5 HOH A 18 518 102 HOH HOH . I 5 HOH A 19 519 87 HOH HOH . I 5 HOH A 20 520 61 HOH HOH . I 5 HOH A 21 521 10 HOH HOH . I 5 HOH A 22 522 23 HOH HOH . I 5 HOH A 23 523 2 HOH HOH . I 5 HOH A 24 524 80 HOH HOH . I 5 HOH A 25 525 88 HOH HOH . I 5 HOH A 26 526 25 HOH HOH . I 5 HOH A 27 527 57 HOH HOH . I 5 HOH A 28 528 40 HOH HOH . I 5 HOH A 29 529 96 HOH HOH . I 5 HOH A 30 530 47 HOH HOH . I 5 HOH A 31 531 50 HOH HOH . I 5 HOH A 32 532 46 HOH HOH . I 5 HOH A 33 533 55 HOH HOH . I 5 HOH A 34 534 79 HOH HOH . I 5 HOH A 35 535 60 HOH HOH . I 5 HOH A 36 536 44 HOH HOH . I 5 HOH A 37 537 119 HOH HOH . I 5 HOH A 38 538 11 HOH HOH . I 5 HOH A 39 539 13 HOH HOH . I 5 HOH A 40 540 97 HOH HOH . I 5 HOH A 41 541 14 HOH HOH . I 5 HOH A 42 542 31 HOH HOH . I 5 HOH A 43 543 67 HOH HOH . I 5 HOH A 44 544 128 HOH HOH . I 5 HOH A 45 545 65 HOH HOH . I 5 HOH A 46 546 108 HOH HOH . I 5 HOH A 47 547 6 HOH HOH . I 5 HOH A 48 548 127 HOH HOH . I 5 HOH A 49 549 37 HOH HOH . I 5 HOH A 50 550 7 HOH HOH . I 5 HOH A 51 551 29 HOH HOH . I 5 HOH A 52 552 22 HOH HOH . I 5 HOH A 53 553 71 HOH HOH . I 5 HOH A 54 554 16 HOH HOH . I 5 HOH A 55 555 75 HOH HOH . I 5 HOH A 56 556 105 HOH HOH . I 5 HOH A 57 557 38 HOH HOH . I 5 HOH A 58 558 70 HOH HOH . I 5 HOH A 59 559 17 HOH HOH . I 5 HOH A 60 560 21 HOH HOH . I 5 HOH A 61 561 62 HOH HOH . I 5 HOH A 62 562 5 HOH HOH . I 5 HOH A 63 563 18 HOH HOH . I 5 HOH A 64 564 72 HOH HOH . I 5 HOH A 65 565 120 HOH HOH . I 5 HOH A 66 566 43 HOH HOH . I 5 HOH A 67 567 85 HOH HOH . I 5 HOH A 68 568 92 HOH HOH . I 5 HOH A 69 569 9 HOH HOH . I 5 HOH A 70 570 45 HOH HOH . I 5 HOH A 71 571 74 HOH HOH . I 5 HOH A 72 572 77 HOH HOH . I 5 HOH A 73 573 26 HOH HOH . I 5 HOH A 74 574 33 HOH HOH . I 5 HOH A 75 575 24 HOH HOH . I 5 HOH A 76 576 63 HOH HOH . I 5 HOH A 77 577 8 HOH HOH . I 5 HOH A 78 578 98 HOH HOH . I 5 HOH A 79 579 27 HOH HOH . I 5 HOH A 80 580 100 HOH HOH . I 5 HOH A 81 581 117 HOH HOH . I 5 HOH A 82 582 53 HOH HOH . I 5 HOH A 83 583 93 HOH HOH . I 5 HOH A 84 584 15 HOH HOH . I 5 HOH A 85 585 35 HOH HOH . I 5 HOH A 86 586 39 HOH HOH . I 5 HOH A 87 587 28 HOH HOH . I 5 HOH A 88 588 106 HOH HOH . I 5 HOH A 89 589 76 HOH HOH . I 5 HOH A 90 590 54 HOH HOH . I 5 HOH A 91 591 84 HOH HOH . I 5 HOH A 92 592 73 HOH HOH . I 5 HOH A 93 593 69 HOH HOH . I 5 HOH A 94 594 20 HOH HOH . I 5 HOH A 95 595 64 HOH HOH . I 5 HOH A 96 596 82 HOH HOH . I 5 HOH A 97 597 3 HOH HOH . I 5 HOH A 98 598 83 HOH HOH . I 5 HOH A 99 599 19 HOH HOH . I 5 HOH A 100 600 116 HOH HOH . I 5 HOH A 101 601 36 HOH HOH . I 5 HOH A 102 602 59 HOH HOH . I 5 HOH A 103 603 121 HOH HOH . I 5 HOH A 104 604 4 HOH HOH . I 5 HOH A 105 605 68 HOH HOH . I 5 HOH A 106 606 91 HOH HOH . I 5 HOH A 107 607 90 HOH HOH . I 5 HOH A 108 608 114 HOH HOH . I 5 HOH A 109 609 104 HOH HOH . I 5 HOH A 110 610 124 HOH HOH . I 5 HOH A 111 611 113 HOH HOH . I 5 HOH A 112 612 110 HOH HOH . I 5 HOH A 113 613 107 HOH HOH . I 5 HOH A 114 614 125 HOH HOH . I 5 HOH A 115 615 109 HOH HOH . I 5 HOH A 116 616 122 HOH HOH . I 5 HOH A 117 617 126 HOH HOH . I 5 HOH A 118 618 66 HOH HOH . I 5 HOH A 119 619 118 HOH HOH . I 5 HOH A 120 620 48 HOH HOH . I 5 HOH A 121 621 52 HOH HOH . I 5 HOH A 122 622 94 HOH HOH . I 5 HOH A 123 623 89 HOH HOH . I 5 HOH A 124 624 95 HOH HOH . I 5 HOH A 125 625 101 HOH HOH . I 5 HOH A 126 626 111 HOH HOH . I 5 HOH A 127 627 103 HOH HOH . I 5 HOH A 128 628 56 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 C CAJ 35J . . . C 3 7.8 -3.409 19.653 1 32.5 0 CAJ 35J 402 A 1 HETATM 2 S SAB 35J . . . C 3 7.197 -4.918 19.963 1 32.89 0 SAB 35J 402 A 1 HETATM 3 N NAI 35J . . . C 3 8.041 -2.431 20.591 1 35.59 0 NAI 35J 402 A 1 HETATM 4 C CAG 35J . . . C 3 8.673 -1.114 20.296 1 30.66 0 CAG 35J 402 A 1 HETATM 5 C CAK 35J . . . C 3 7.78 -0.243 19.427 1 32.12 0 CAK 35J 402 A 1 HETATM 6 C CAE 35J . . . C 3 6.625 0.396 19.917 1 25.2 0 CAE 35J 402 A 1 HETATM 7 C CAC 35J . . . C 3 5.931 1.265 19.092 1 29.5 0 CAC 35J 402 A 1 HETATM 8 C CAD 35J . . . C 3 6.341 1.398 17.788 1 31.54 0 CAD 35J 402 A 1 HETATM 9 N NAH 35J . . . C 3 7.434 0.758 17.291 1 27.1 0 NAH 35J 402 A 1 HETATM 10 C CAF 35J . . . C 3 8.139 0.019 18.16 1 28.63 0 CAF 35J 402 A 1 HETATM 11 H H1 35J . . . C 3 7.904 -3.153 18.753 1 33.23 0 H1 35J 402 A 1 HETATM 12 H H3 35J . . . C 3 9.53 -1.257 19.843 1 32.08 0 H3 35J 402 A 1 HETATM 13 H H4 35J . . . C 3 8.851 -0.649 21.14 1 32.09 0 H4 35J 402 A 1 HETATM 14 H H5 35J . . . C 3 6.379 0.299 20.821 1 27.84 0 H5 35J 402 A 1 HETATM 15 H H6 35J . . . C 3 5.139 1.679 19.39 1 28.91 0 H6 35J 402 A 1 HETATM 16 H H7 35J . . . C 3 5.844 1.947 17.21 1 29.88 0 H7 35J 402 A 1 HETATM 17 H H8 35J . . . C 3 8.894 -0.43 17.825 1 29.04 0 H8 35J 402 A 1 HETATM 18 H H2 35J . . . C 3 7.806 -2.595 21.417 1 33.63 0 H2 35J 402 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 18 #