data_5OD5 # _model_server_result.job_id Urx8dolFCasw0BPFnhtYpQ _model_server_result.datetime_utc '2024-11-15 17:32:12' _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 5od5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":405}' # _entry.id 5OD5 # _exptl.entry_id 5OD5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 277.342 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-(aminomethyl)-~{N}-(pyridin-2-ylmethyl)benzenesulfonamide _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 87.38 _cell.angle_beta 76.9 _cell.angle_gamma 79.27 _cell.entry_id 5OD5 _cell.length_a 56.692 _cell.length_b 62.759 _cell.length_c 68.195 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OD5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,G,H,I,W 1 1 B,J,K,L,M,N,O,X 2 1 C,P,Q,R,S,T,U,V,Y 3 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 ? 5 G N N ? 5 T 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 covale ? covale1 F C 95B . A 95B 403 1_555 G N1 9RT . A 9RT 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.302 ? covale ? covale2 G C11 9RT . A 9RT 404 1_555 H C23 RIR . A RIR 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.626 ? covale ? covale3 S C 95B . C 95B 404 1_555 T N1 9RT . C 9RT 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.294 ? metalc ? metalc1 A NE2 HIS 205 A HIS 227 1_555 H IR1 RIR . A RIR 405 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc2 A OH TYR 266 A TYR 288 1_555 D FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc3 D FE FE . A FE 401 1_555 F OAG 95B . A 95B 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc4 D FE FE . A FE 401 1_555 F OAF 95B . A 95B 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc5 D FE FE . A FE 401 1_555 F OAE 95B . A 95B 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc6 D FE FE . A FE 401 1_555 F OAH 95B . A 95B 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc7 G N2 9RT . A 9RT 404 1_555 H IR1 RIR . A RIR 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc8 G N3 9RT . A 9RT 404 1_555 H IR1 RIR . A RIR 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc9 B OG1 THR 204 B THR 226 1_555 L IR IR . B IR 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? metalc ? metalc10 C ND1 HIS 205 C HIS 227 1_555 R IR IR . C IR 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc11 C NE2 HIS 205 C HIS 227 1_555 U IR1 RIR . C RIR 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc12 C OH TYR 266 C TYR 288 1_555 P FE FE . C FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc13 P FE FE . C FE 401 1_555 S OAE 95B . C 95B 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.982 ? metalc ? metalc14 P FE FE . C FE 401 1_555 S OAH 95B . C 95B 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? metalc ? metalc15 P FE FE . C FE 401 1_555 S OAF 95B . C 95B 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc16 P FE FE . C FE 401 1_555 S OAG 95B . C 95B 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc17 P FE FE . C FE 401 1_555 Y O HOH . C HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc18 Q IR IR . C IR 402 1_555 T N2 9RT . C 9RT 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc19 T N2 9RT . C 9RT 405 1_555 U IR1 RIR . C RIR 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc20 T N3 9RT . C 9RT 405 1_555 U IR1 RIR . C RIR 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? # _chem_comp.formula 'C13 H15 N3 O2 S' _chem_comp.formula_weight 277.342 _chem_comp.id 9RT _chem_comp.mon_nstd_flag . _chem_comp.name 4-(aminomethyl)-~{N}-(pyridin-2-ylmethyl)benzenesulfonamide _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 C11 C10 9RT doub 115 n y C11 N3 9RT sing 116 n y C10 C9 9RT sing 117 n y O2 S1 9RT doub 118 n n N3 C7 9RT doub 119 n y C9 C8 9RT doub 120 n y C7 C8 9RT sing 121 n y C7 C6 9RT sing 122 n n N2 S1 9RT sing 123 n n N2 C6 9RT sing 124 n n S1 O1 9RT doub 125 n n S1 C5 9RT sing 126 n n C12 C5 9RT doub 127 n y C12 C13 9RT sing 128 n y C5 C4 9RT sing 129 n y C13 C2 9RT doub 130 n y C4 C3 9RT doub 131 n y C2 C3 9RT sing 132 n y C2 C1 9RT sing 133 n n N1 C1 9RT sing 134 n n N1 H1 9RT sing 135 n n N1 H2 9RT sing 136 n n C1 H4 9RT sing 137 n n C1 H5 9RT sing 138 n n C3 H6 9RT sing 139 n n C4 H7 9RT sing 140 n n N2 H8 9RT sing 141 n n C6 H9 9RT sing 142 n n C6 H10 9RT sing 143 n n C8 H11 9RT sing 144 n n C9 H12 9RT sing 145 n n C10 H13 9RT sing 146 n n C11 H14 9RT sing 147 n n C12 H15 9RT sing 148 n n C13 H16 9RT sing 149 n n # _atom_sites.entry_id 5OD5 _atom_sites.fract_transf_matrix[1][1] 0.017639 _atom_sites.fract_transf_matrix[1][2] -0.003344 _atom_sites.fract_transf_matrix[1][3] -0.004093 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016218 _atom_sites.fract_transf_matrix[2][3] -0.00006 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015056 _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 D 2 FE A 1 401 311 FE FE . E 3 IR A 1 402 403 IR IR . F 4 95B A 1 403 312 95B CHE . G 5 9RT A 1 404 313 9RT CH2 . H 6 RIR A 1 405 314 RIR CP2 . I 7 PO4 A 1 406 2 PO4 PO4 . J 8 7PG B 1 401 1 7PG P7G . K 2 FE B 1 402 311 FE FE . L 3 IR B 1 403 401 IR IR . M 3 IR B 1 404 403 IR IR . N 3 IR B 1 405 405 IR IR . O 7 PO4 B 1 406 4 PO4 PO4 . P 2 FE C 1 401 311 FE FE . Q 3 IR C 1 402 403 IR IR . R 3 IR C 1 403 404 IR IR . S 4 95B C 1 404 312 95B CHE . T 5 9RT C 1 405 313 9RT CH2 . U 6 RIR C 1 406 314 RIR CP2 . V 7 PO4 C 1 407 1 PO4 PO4 . W 9 HOH A 1 501 80 HOH HOH . W 9 HOH A 2 502 71 HOH HOH . W 9 HOH A 3 503 51 HOH HOH . W 9 HOH A 4 504 7 HOH HOH . W 9 HOH A 5 505 121 HOH HOH . W 9 HOH A 6 506 54 HOH HOH . W 9 HOH A 7 507 38 HOH HOH . W 9 HOH A 8 508 95 HOH HOH . W 9 HOH A 9 509 82 HOH HOH . W 9 HOH A 10 510 111 HOH HOH . W 9 HOH A 11 511 120 HOH HOH . W 9 HOH A 12 512 5 HOH HOH . W 9 HOH A 13 513 81 HOH HOH . W 9 HOH A 14 514 25 HOH HOH . W 9 HOH A 15 515 36 HOH HOH . W 9 HOH A 16 516 119 HOH HOH . W 9 HOH A 17 517 50 HOH HOH . W 9 HOH A 18 518 91 HOH HOH . W 9 HOH A 19 519 22 HOH HOH . W 9 HOH A 20 520 2 HOH HOH . W 9 HOH A 21 521 101 HOH HOH . W 9 HOH A 22 522 83 HOH HOH . W 9 HOH A 23 523 68 HOH HOH . W 9 HOH A 24 524 79 HOH HOH . W 9 HOH A 25 525 23 HOH HOH . W 9 HOH A 26 526 62 HOH HOH . W 9 HOH A 27 527 44 HOH HOH . W 9 HOH A 28 528 114 HOH HOH . W 9 HOH A 29 529 60 HOH HOH . W 9 HOH A 30 530 76 HOH HOH . W 9 HOH A 31 531 24 HOH HOH . W 9 HOH A 32 532 89 HOH HOH . W 9 HOH A 33 533 106 HOH HOH . W 9 HOH A 34 534 85 HOH HOH . W 9 HOH A 35 535 109 HOH HOH . X 9 HOH B 1 501 56 HOH HOH . X 9 HOH B 2 502 104 HOH HOH . X 9 HOH B 3 503 61 HOH HOH . X 9 HOH B 4 504 43 HOH HOH . X 9 HOH B 5 505 9 HOH HOH . X 9 HOH B 6 506 48 HOH HOH . X 9 HOH B 7 507 19 HOH HOH . X 9 HOH B 8 508 117 HOH HOH . X 9 HOH B 9 509 57 HOH HOH . X 9 HOH B 10 510 35 HOH HOH . X 9 HOH B 11 511 118 HOH HOH . X 9 HOH B 12 512 108 HOH HOH . X 9 HOH B 13 513 46 HOH HOH . X 9 HOH B 14 514 102 HOH HOH . X 9 HOH B 15 515 8 HOH HOH . X 9 HOH B 16 516 52 HOH HOH . X 9 HOH B 17 517 30 HOH HOH . X 9 HOH B 18 518 116 HOH HOH . X 9 HOH B 19 519 66 HOH HOH . X 9 HOH B 20 520 74 HOH HOH . X 9 HOH B 21 521 73 HOH HOH . Y 9 HOH C 1 501 69 HOH HOH . Y 9 HOH C 2 502 75 HOH HOH . Y 9 HOH C 3 503 34 HOH HOH . Y 9 HOH C 4 504 88 HOH HOH . Y 9 HOH C 5 505 107 HOH HOH . Y 9 HOH C 6 506 96 HOH HOH . Y 9 HOH C 7 507 103 HOH HOH . Y 9 HOH C 8 508 4 HOH HOH . Y 9 HOH C 9 509 42 HOH HOH . Y 9 HOH C 10 510 58 HOH HOH . Y 9 HOH C 11 511 47 HOH HOH . Y 9 HOH C 12 512 87 HOH HOH . Y 9 HOH C 13 513 28 HOH HOH . Y 9 HOH C 14 514 11 HOH HOH . Y 9 HOH C 15 515 93 HOH HOH . Y 9 HOH C 16 516 12 HOH HOH . Y 9 HOH C 17 517 1 HOH HOH . Y 9 HOH C 18 518 67 HOH HOH . Y 9 HOH C 19 519 14 HOH HOH . Y 9 HOH C 20 520 97 HOH HOH . Y 9 HOH C 21 521 78 HOH HOH . Y 9 HOH C 22 522 3 HOH HOH . Y 9 HOH C 23 523 49 HOH HOH . Y 9 HOH C 24 524 18 HOH HOH . Y 9 HOH C 25 525 45 HOH HOH . Y 9 HOH C 26 526 29 HOH HOH . Y 9 HOH C 27 527 6 HOH HOH . Y 9 HOH C 28 528 16 HOH HOH . Y 9 HOH C 29 529 31 HOH HOH . Y 9 HOH C 30 530 20 HOH HOH . Y 9 HOH C 31 531 21 HOH HOH . Y 9 HOH C 32 532 72 HOH HOH . Y 9 HOH C 33 533 90 HOH HOH . Y 9 HOH C 34 534 105 HOH HOH . Y 9 HOH C 35 535 32 HOH HOH . Y 9 HOH C 36 536 59 HOH HOH . Y 9 HOH C 37 537 13 HOH HOH . Y 9 HOH C 38 538 63 HOH HOH . Y 9 HOH C 39 539 55 HOH HOH . Y 9 HOH C 40 540 64 HOH HOH . Y 9 HOH C 41 541 110 HOH HOH . Y 9 HOH C 42 542 39 HOH HOH . Y 9 HOH C 43 543 17 HOH HOH . Y 9 HOH C 44 544 10 HOH HOH . Y 9 HOH C 45 545 115 HOH HOH . Y 9 HOH C 46 546 15 HOH HOH . Y 9 HOH C 47 547 99 HOH HOH . Y 9 HOH C 48 548 33 HOH HOH . Y 9 HOH C 49 549 86 HOH HOH . Y 9 HOH C 50 550 70 HOH HOH . Y 9 HOH C 51 551 98 HOH HOH . Y 9 HOH C 52 552 37 HOH HOH . Y 9 HOH C 53 553 92 HOH HOH . Y 9 HOH C 54 554 122 HOH HOH . Y 9 HOH C 55 555 100 HOH HOH . Y 9 HOH C 56 556 77 HOH HOH . Y 9 HOH C 57 557 84 HOH HOH . Y 9 HOH C 58 558 112 HOH HOH . Y 9 HOH C 59 559 40 HOH HOH . Y 9 HOH C 60 560 26 HOH HOH . Y 9 HOH C 61 561 113 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 N1 9RT . . . T 5 31.542 31.969 14.163 0.64 41.79 ? N1 9RT 405 C 1 HETATM 2 C C1 9RT . . . T 5 32.86 32.328 14.754 0.64 38.9 ? C1 9RT 405 C 1 HETATM 3 C C2 9RT . . . T 5 33.966 31.354 14.419 0.64 36.75 ? C2 9RT 405 C 1 HETATM 4 C C3 9RT . . . T 5 35.233 31.809 14.082 0.64 39.72 ? C3 9RT 405 C 1 HETATM 5 C C4 9RT . . . T 5 36.26 30.925 13.806 0.64 42.71 ? C4 9RT 405 C 1 HETATM 6 C C5 9RT . . . T 5 36.015 29.557 13.851 0.64 41.64 ? C5 9RT 405 C 1 HETATM 7 S S1 9RT . . . T 5 37.317 28.412 13.504 0.64 43.8 ? S1 9RT 405 C 1 HETATM 8 O O1 9RT . . . T 5 38.427 28.782 14.332 0.64 41.72 ? O1 9RT 405 C 1 HETATM 9 O O2 9RT . . . T 5 36.744 27.102 13.607 0.64 43.76 ? O2 9RT 405 C 1 HETATM 10 N N2 9RT . . . T 5 37.852 28.603 11.974 0.64 38.22 ? N2 9RT 405 C 1 HETATM 11 C C6 9RT . . . T 5 36.856 28.577 10.906 0.64 36.72 ? C6 9RT 405 C 1 HETATM 12 C C7 9RT . . . T 5 37.358 29.019 9.562 0.64 33.6 ? C7 9RT 405 C 1 HETATM 13 C C8 9RT . . . T 5 36.483 29.516 8.612 0.64 33.06 ? C8 9RT 405 C 1 HETATM 14 C C9 9RT . . . T 5 36.978 29.895 7.379 0.64 33.13 ? C9 9RT 405 C 1 HETATM 15 C C10 9RT . . . T 5 38.315 29.771 7.132 0.64 35.31 ? C10 9RT 405 C 1 HETATM 16 C C11 9RT . . . T 5 39.115 29.243 8.134 0.64 35.35 ? C11 9RT 405 C 1 HETATM 17 N N3 9RT . . . T 5 38.668 28.859 9.337 0.64 28.23 ? N3 9RT 405 C 1 HETATM 18 C C12 9RT . . . T 5 34.759 29.084 14.197 0.64 38.02 ? C12 9RT 405 C 1 HETATM 19 C C13 9RT . . . T 5 33.744 29.982 14.486 0.64 34.62 ? C13 9RT 405 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #