data_5O9H # _model_server_result.job_id Z6PtQdsS9jHZmhCewGM-1A _model_server_result.datetime_utc '2024-11-22 21:55:54' _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 5o9h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":401}' # _entry.id 5O9H # _exptl.entry_id 5O9H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 573.681 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-(1,3-benzodioxol-5-yl)-~{N}-(1,3-benzodioxol-5-ylmethyl)-~{N}-[(3-butyl-2,5-diphenyl-imidazol-4-yl)methyl]methanamine _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 106.73 _cell.angle_gamma 90 _cell.entry_id 5O9H _cell.length_a 83.093 _cell.length_b 51.096 _cell.length_c 118.936 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5O9H _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA _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 U 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 disulf ? disulf1 A SG CYS 80 A CYS 109 1_555 A SG CYS 159 A CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 B SG CYS 80 B CYS 109 1_555 B SG CYS 159 B CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C36 H35 N3 O4' _chem_comp.formula_weight 573.681 _chem_comp.id 9P2 _chem_comp.mon_nstd_flag . _chem_comp.name 1-(1,3-benzodioxol-5-yl)-~{N}-(1,3-benzodioxol-5-ylmethyl)-~{N}-[(3-butyl-2,5-diphenyl-imidazol-4-yl)methyl]methanamine _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 C20 O21 9P2 sing 1 n n C20 O19 9P2 sing 2 n n O21 C16 9P2 sing 3 n n O19 C17 9P2 sing 4 n n C16 C17 9P2 doub 5 n y C16 C15 9P2 sing 6 n y C17 C18 9P2 sing 7 n y C15 C14 9P2 doub 8 n y C18 C13 9P2 doub 9 n y C14 C13 9P2 sing 10 n y C13 C12 9P2 sing 11 n n C12 N11 9P2 sing 12 n n C40 C39 9P2 doub 13 n y C40 C41 9P2 sing 14 n y C34 C33 9P2 doub 15 n y C34 C35 9P2 sing 16 n y C33 C32 9P2 sing 17 n y C39 C38 9P2 sing 18 n y C41 C42 9P2 doub 19 n y C38 C01 9P2 sing 20 n n C38 C43 9P2 doub 21 n y N02 C01 9P2 doub 22 n y N02 C03 9P2 sing 23 n y N11 C22 9P2 sing 24 n n N11 C10 9P2 sing 25 n n C31 C30 9P2 doub 26 n y C31 C23 9P2 sing 27 n y C35 C36 9P2 doub 28 n y C01 N05 9P2 sing 29 n y C32 C03 9P2 sing 30 n n C32 C37 9P2 doub 31 n y C03 C04 9P2 doub 32 n y C42 C43 9P2 sing 33 n y C30 C29 9P2 sing 34 n y N05 C04 9P2 sing 35 n y N05 C06 9P2 sing 36 n n C22 C23 9P2 sing 37 n n C04 C10 9P2 sing 38 n n C06 C07 9P2 sing 39 n n C23 C24 9P2 doub 40 n y C36 C37 9P2 sing 41 n y C29 O28 9P2 sing 42 n n C29 C25 9P2 doub 43 n y C24 C25 9P2 sing 44 n y O28 C27 9P2 sing 45 n n C07 C08 9P2 sing 46 n n C25 O26 9P2 sing 47 n n C08 C09 9P2 sing 48 n n C27 O26 9P2 sing 49 n n C15 H1 9P2 sing 50 n n C18 H2 9P2 sing 51 n n C20 H3 9P2 sing 52 n n C20 H4 9P2 sing 53 n n C06 H5 9P2 sing 54 n n C06 H6 9P2 sing 55 n n C07 H7 9P2 sing 56 n n C07 H8 9P2 sing 57 n n C08 H9 9P2 sing 58 n n C08 H10 9P2 sing 59 n n C09 H11 9P2 sing 60 n n C09 H12 9P2 sing 61 n n C09 H13 9P2 sing 62 n n C10 H14 9P2 sing 63 n n C10 H15 9P2 sing 64 n n C12 H17 9P2 sing 65 n n C12 H18 9P2 sing 66 n n C14 H19 9P2 sing 67 n n C22 H20 9P2 sing 68 n n C22 H21 9P2 sing 69 n n C24 H22 9P2 sing 70 n n C27 H23 9P2 sing 71 n n C27 H24 9P2 sing 72 n n C30 H25 9P2 sing 73 n n C31 H26 9P2 sing 74 n n C33 H27 9P2 sing 75 n n C34 H28 9P2 sing 76 n n C35 H29 9P2 sing 77 n n C36 H30 9P2 sing 78 n n C37 H31 9P2 sing 79 n n C39 H32 9P2 sing 80 n n C40 H33 9P2 sing 81 n n C41 H34 9P2 sing 82 n n C42 H35 9P2 sing 83 n n C43 H36 9P2 sing 84 n n # _atom_sites.entry_id 5O9H _atom_sites.fract_transf_matrix[1][1] 0.012035 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003616 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019571 _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] 0.008779 _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 9P2 A 1 401 1 9P2 NDT . D 3 TLA A 1 402 1 TLA TLA . E 3 TLA A 1 403 2 TLA TLA . F 4 OLA A 1 404 1 OLA OLA . G 4 OLA A 1 405 6 OLA OLA . H 4 OLA A 1 406 8 OLA OLA . I 4 OLA A 1 407 10 OLA OLA . J 4 OLA A 1 408 13 OLA OLA . K 4 OLA A 1 409 14 OLA OLA . L 4 OLA A 1 410 17 OLA OLA . M 4 OLA A 1 411 18 OLA OLA . N 4 OLA A 1 412 19 OLA OLA . O 4 OLA A 1 413 20 OLA OLA . P 4 OLA A 1 414 21 OLA OLA . Q 4 OLA A 1 415 22 OLA OLA . R 4 OLA A 1 416 23 OLA OLA . S 4 OLA A 1 417 32 OLA OLA . T 4 OLA A 1 418 33 OLA OLA . U 2 9P2 B 1 401 2 9P2 NDT . V 3 TLA B 1 402 3 TLA TLA . W 4 OLA B 1 403 2 OLA OLA . X 4 OLA B 1 404 3 OLA OLA . Y 4 OLA B 1 405 5 OLA OLA . Z 4 OLA B 1 406 9 OLA OLA . AA 4 OLA B 1 407 11 OLA OLA . BA 4 OLA B 1 408 12 OLA OLA . CA 4 OLA B 1 409 16 OLA OLA . DA 4 OLA B 1 410 24 OLA OLA . EA 4 OLA B 1 411 25 OLA OLA . FA 4 OLA B 1 412 26 OLA OLA . GA 4 OLA B 1 413 27 OLA OLA . HA 4 OLA B 1 414 28 OLA OLA . IA 4 OLA B 1 415 29 OLA OLA . JA 4 OLA B 1 416 30 OLA OLA . KA 4 OLA B 1 417 31 OLA OLA . LA 4 OLA B 1 418 34 OLA OLA . MA 4 OLA B 1 419 35 OLA OLA . NA 5 CIT B 1 420 1 CIT CIT . OA 6 HOH A 1 501 70 HOH HOH . OA 6 HOH A 2 502 1 HOH HOH . OA 6 HOH A 3 503 36 HOH HOH . OA 6 HOH A 4 504 60 HOH HOH . OA 6 HOH A 5 505 33 HOH HOH . OA 6 HOH A 6 506 52 HOH HOH . OA 6 HOH A 7 507 23 HOH HOH . OA 6 HOH A 8 508 7 HOH HOH . OA 6 HOH A 9 509 24 HOH HOH . OA 6 HOH A 10 510 5 HOH HOH . OA 6 HOH A 11 511 34 HOH HOH . OA 6 HOH A 12 512 31 HOH HOH . OA 6 HOH A 13 513 9 HOH HOH . OA 6 HOH A 14 514 20 HOH HOH . OA 6 HOH A 15 515 2 HOH HOH . OA 6 HOH A 16 516 6 HOH HOH . OA 6 HOH A 17 517 4 HOH HOH . OA 6 HOH A 18 518 3 HOH HOH . OA 6 HOH A 19 519 30 HOH HOH . OA 6 HOH A 20 520 51 HOH HOH . OA 6 HOH A 21 521 71 HOH HOH . OA 6 HOH A 22 522 62 HOH HOH . OA 6 HOH A 23 523 28 HOH HOH . OA 6 HOH A 24 524 55 HOH HOH . OA 6 HOH A 25 525 64 HOH HOH . OA 6 HOH A 26 526 26 HOH HOH . OA 6 HOH A 27 527 38 HOH HOH . OA 6 HOH A 28 528 43 HOH HOH . OA 6 HOH A 29 529 32 HOH HOH . OA 6 HOH A 30 530 25 HOH HOH . OA 6 HOH A 31 531 37 HOH HOH . OA 6 HOH A 32 532 69 HOH HOH . OA 6 HOH A 33 533 29 HOH HOH . OA 6 HOH A 34 534 35 HOH HOH . OA 6 HOH A 35 535 54 HOH HOH . OA 6 HOH A 36 536 72 HOH HOH . OA 6 HOH A 37 537 63 HOH HOH . OA 6 HOH A 38 538 44 HOH HOH . OA 6 HOH A 39 539 59 HOH HOH . PA 6 HOH B 1 501 41 HOH HOH . PA 6 HOH B 2 502 8 HOH HOH . PA 6 HOH B 3 503 19 HOH HOH . PA 6 HOH B 4 504 57 HOH HOH . PA 6 HOH B 5 505 14 HOH HOH . PA 6 HOH B 6 506 61 HOH HOH . PA 6 HOH B 7 507 53 HOH HOH . PA 6 HOH B 8 508 46 HOH HOH . PA 6 HOH B 9 509 65 HOH HOH . PA 6 HOH B 10 510 58 HOH HOH . PA 6 HOH B 11 511 27 HOH HOH . PA 6 HOH B 12 512 12 HOH HOH . PA 6 HOH B 13 513 11 HOH HOH . PA 6 HOH B 14 514 13 HOH HOH . PA 6 HOH B 15 515 50 HOH HOH . PA 6 HOH B 16 516 15 HOH HOH . PA 6 HOH B 17 517 45 HOH HOH . PA 6 HOH B 18 518 18 HOH HOH . PA 6 HOH B 19 519 49 HOH HOH . PA 6 HOH B 20 520 42 HOH HOH . PA 6 HOH B 21 521 10 HOH HOH . PA 6 HOH B 22 522 22 HOH HOH . PA 6 HOH B 23 523 17 HOH HOH . PA 6 HOH B 24 524 16 HOH HOH . PA 6 HOH B 25 525 56 HOH HOH . PA 6 HOH B 26 526 73 HOH HOH . PA 6 HOH B 27 527 66 HOH HOH . PA 6 HOH B 28 528 21 HOH HOH . PA 6 HOH B 29 529 68 HOH HOH . PA 6 HOH B 30 530 47 HOH HOH . PA 6 HOH B 31 531 48 HOH HOH . PA 6 HOH B 32 532 67 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 C15 9P2 . . . U 2 109.075 -2.215 31.845 1 29.9 ? C15 9P2 401 B 1 HETATM 2 C C16 9P2 . . . U 2 109.12 -0.932 31.302 1 26.88 ? C16 9P2 401 B 1 HETATM 3 C C17 9P2 . . . U 2 108.105 -0.071 31.509 1 35.42 ? C17 9P2 401 B 1 HETATM 4 C C18 9P2 . . . U 2 106.924 -0.482 32.323 1 22.54 ? C18 9P2 401 B 1 HETATM 5 C C20 9P2 . . . U 2 109.858 1.073 30.565 1 37.62 ? C20 9P2 401 B 1 HETATM 6 C C01 9P2 . . . U 2 108.969 0.479 35.24 1 25.61 ? C01 9P2 401 B 1 HETATM 7 N N02 9P2 . . . U 2 107.856 1.347 35.154 1 35.85 ? N02 9P2 401 B 1 HETATM 8 C C03 9P2 . . . U 2 106.729 0.668 35.439 1 27.63 ? C03 9P2 401 B 1 HETATM 9 C C04 9P2 . . . U 2 107.127 -0.676 35.724 1 23.58 ? C04 9P2 401 B 1 HETATM 10 N N05 9P2 . . . U 2 108.515 -0.746 35.569 1 25.97 ? N05 9P2 401 B 1 HETATM 11 C C06 9P2 . . . U 2 109.289 -1.908 35.773 1 33.85 ? C06 9P2 401 B 1 HETATM 12 C C07 9P2 . . . U 2 109.435 -2.143 37.284 1 30.37 ? C07 9P2 401 B 1 HETATM 13 C C08 9P2 . . . U 2 110.769 -2.83 37.699 1 24.31 ? C08 9P2 401 B 1 HETATM 14 C C09 9P2 . . . U 2 110.795 -3.161 39.229 1 18.46 ? C09 9P2 401 B 1 HETATM 15 C C10 9P2 . . . U 2 106.189 -1.896 36.083 1 30.82 ? C10 9P2 401 B 1 HETATM 16 N N11 9P2 . . . U 2 106.284 -2.827 34.973 1 19.86 ? N11 9P2 401 B 1 HETATM 17 C C12 9P2 . . . U 2 105.707 -2.246 33.718 1 33.06 ? C12 9P2 401 B 1 HETATM 18 C C13 9P2 . . . U 2 106.879 -1.771 32.859 1 26.7 ? C13 9P2 401 B 1 HETATM 19 C C14 9P2 . . . U 2 107.913 -2.627 32.653 1 41.5 ? C14 9P2 401 B 1 HETATM 20 O O19 9P2 . . . U 2 108.427 1.162 30.835 1 39.19 ? O19 9P2 401 B 1 HETATM 21 O O21 9P2 . . . U 2 110.133 -0.311 30.496 1 20.51 ? O21 9P2 401 B 1 HETATM 22 C C22 9P2 . . . U 2 105.703 -4.104 35.305 1 23.23 ? C22 9P2 401 B 1 HETATM 23 C C23 9P2 . . . U 2 106.702 -4.896 36.221 1 33.17 ? C23 9P2 401 B 1 HETATM 24 C C24 9P2 . . . U 2 107.917 -5.294 35.732 1 26.68 ? C24 9P2 401 B 1 HETATM 25 C C25 9P2 . . . U 2 108.864 -6.046 36.619 1 35.42 ? C25 9P2 401 B 1 HETATM 26 O O26 9P2 . . . U 2 110.107 -6.555 36.4 1 30.02 ? O26 9P2 401 B 1 HETATM 27 C C27 9P2 . . . U 2 110.622 -6.874 37.673 1 31.24 ? C27 9P2 401 B 1 HETATM 28 O O28 9P2 . . . U 2 109.541 -7.019 38.51 1 38.85 ? O28 9P2 401 B 1 HETATM 29 C C29 9P2 . . . U 2 108.512 -6.332 37.925 1 26.42 ? C29 9P2 401 B 1 HETATM 30 C C30 9P2 . . . U 2 107.238 -5.91 38.436 1 30.65 ? C30 9P2 401 B 1 HETATM 31 C C31 9P2 . . . U 2 106.333 -5.192 37.589 1 28.83 ? C31 9P2 401 B 1 HETATM 32 C C32 9P2 . . . U 2 105.468 1.204 35.456 1 24.27 ? C32 9P2 401 B 1 HETATM 33 C C33 9P2 . . . U 2 105.03 1.979 34.381 1 28.6 ? C33 9P2 401 B 1 HETATM 34 C C34 9P2 . . . U 2 103.729 2.55 34.388 1 25.9 ? C34 9P2 401 B 1 HETATM 35 C C35 9P2 . . . U 2 102.877 2.344 35.479 1 25.17 ? C35 9P2 401 B 1 HETATM 36 C C36 9P2 . . . U 2 103.321 1.563 36.58 1 27.67 ? C36 9P2 401 B 1 HETATM 37 C C37 9P2 . . . U 2 104.6 1.005 36.573 1 28.92 ? C37 9P2 401 B 1 HETATM 38 C C38 9P2 . . . U 2 110.353 0.892 34.968 1 29.42 ? C38 9P2 401 B 1 HETATM 39 C C39 9P2 . . . U 2 110.925 1.972 35.656 1 28.07 ? C39 9P2 401 B 1 HETATM 40 C C40 9P2 . . . U 2 112.225 2.369 35.378 1 32.43 ? C40 9P2 401 B 1 HETATM 41 C C41 9P2 . . . U 2 112.956 1.719 34.42 1 19.71 ? C41 9P2 401 B 1 HETATM 42 C C42 9P2 . . . U 2 112.382 0.64 33.717 1 17.78 ? C42 9P2 401 B 1 HETATM 43 C C43 9P2 . . . U 2 111.076 0.252 33.999 1 21.62 ? C43 9P2 401 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #