data_9BXF # _model_server_result.job_id aU1vIGH1AdyfkX2if0qzBg _model_server_result.datetime_utc '2025-07-18 13:40:37' _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 9bxf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":511}' # _entry.id 9BXF # _exptl.entry_id 9BXF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 453.941 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3S)-1-[4-(2-carbamimidamidoethyl)piperazine-1-carbonyl]-N-(4-chloro-3-fluorophenyl)piperidine-3-carboxamide _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 9BXF _cell.length_a 61.479 _cell.length_b 66.191 _cell.length_c 90.873 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9BXF _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 _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 L _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 disulf ? disulf1 A SG CYS 13 A CYS 54 1_555 A SG CYS 33 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 78 A CYS 119 1_555 A SG CYS 91 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 104 A CYS 218 1_555 A SG CYS 133 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 114 A CYS 228 1_555 A SG CYS 125 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 182 A CYS 296 1_555 A SG CYS 201 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 A SG CYS 247 A CYS 378 1_555 A SG CYS 308 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 A SG CYS 254 A CYS 385 1_555 A SG CYS 281 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 A SG CYS 264 A CYS 395 1_555 A SG CYS 273 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 120 A ASN 234 1_555 B C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 127 A ASN 241 1_555 C C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 A ND2 ASN 148 A ASN 262 1_555 D C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 162 A ASN 276 1_555 E C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 A ND2 ASN 175 A ASN 289 1_555 F C1 NAG . A NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 A ND2 ASN 181 A ASN 295 1_555 G C1 NAG . A NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale7 A ND2 ASN 204 A ASN 334 1_555 H C1 NAG . A NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 A ND2 ASN 255 A ASN 386 1_555 I C1 NAG . A NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.417 ? covale ? covale9 A ND2 ASN 311 A ASN 448 1_555 J C1 NAG . A NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? # _chem_comp.formula 'C20 H29 Cl F N7 O2' _chem_comp.formula_weight 453.941 _chem_comp.id A1AS8 _chem_comp.mon_nstd_flag . _chem_comp.name (3S)-1-[4-(2-carbamimidamidoethyl)piperazine-1-carbonyl]-N-(4-chloro-3-fluorophenyl)piperidine-3-carboxamide _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 CL1 C17 A1AS8 sing 1 n n C19 C17 A1AS8 doub 2 n y C19 C20 A1AS8 sing 3 n y C17 C15 A1AS8 sing 4 n y C20 C13 A1AS8 doub 5 n y C15 F16 A1AS8 sing 6 n n C15 C14 A1AS8 doub 7 n y C13 C14 A1AS8 sing 8 n y C13 N12 A1AS8 sing 9 n n N12 C10 A1AS8 sing 10 n n C10 O11 A1AS8 doub 11 n n C10 C09 A1AS8 sing 12 n n C09 C21 A1AS8 sing 13 n n C09 C08 A1AS8 sing 14 n n C21 C22 A1AS8 sing 15 n n C08 N07 A1AS8 sing 16 n n C22 C23 A1AS8 sing 17 n n N07 C23 A1AS8 sing 18 n n N07 C06 A1AS8 sing 19 n n C25 C26 A1AS8 sing 20 n n C25 N05 A1AS8 sing 21 n n C26 N02 A1AS8 sing 22 n n C06 N05 A1AS8 sing 23 n n C06 O24 A1AS8 doub 24 n n N05 C04 A1AS8 sing 25 n n N02 C01 A1AS8 sing 26 n n N02 C03 A1AS8 sing 27 n n C01 CD A1AS8 sing 28 n n C04 C03 A1AS8 sing 29 n n CD NE A1AS8 sing 30 n n NH2 CZ A1AS8 doub 31 n n NE CZ A1AS8 sing 32 n n CZ NH1 A1AS8 sing 33 n n CD H1 A1AS8 sing 34 n n CD H2 A1AS8 sing 35 n n NE H3 A1AS8 sing 36 n n NH1 H4 A1AS8 sing 37 n n NH1 H5 A1AS8 sing 38 n n NH2 H6 A1AS8 sing 39 n n C01 H7 A1AS8 sing 40 n n C01 H8 A1AS8 sing 41 n n C03 H9 A1AS8 sing 42 n n C03 H10 A1AS8 sing 43 n n C04 H11 A1AS8 sing 44 n n C04 H12 A1AS8 sing 45 n n C08 H13 A1AS8 sing 46 n n C08 H14 A1AS8 sing 47 n n C09 H15 A1AS8 sing 48 n n C14 H16 A1AS8 sing 49 n n C19 H17 A1AS8 sing 50 n n C20 H18 A1AS8 sing 51 n n C21 H19 A1AS8 sing 52 n n C21 H20 A1AS8 sing 53 n n C22 H21 A1AS8 sing 54 n n C22 H22 A1AS8 sing 55 n n C23 H23 A1AS8 sing 56 n n C23 H24 A1AS8 sing 57 n n C25 H25 A1AS8 sing 58 n n C25 H26 A1AS8 sing 59 n n C26 H27 A1AS8 sing 60 n n C26 H28 A1AS8 sing 61 n n N12 H30 A1AS8 sing 62 n n # _atom_sites.entry_id 9BXF _atom_sites.fract_transf_matrix[1][1] 0.016266 _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] 0.015108 _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] 0.011004 _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 NAG A 1 501 501 NAG NAG . C 2 NAG A 1 502 502 NAG NAG . D 2 NAG A 1 503 503 NAG NAG . E 2 NAG A 1 504 504 NAG NAG . F 2 NAG A 1 505 505 NAG NAG . G 2 NAG A 1 506 506 NAG NAG . H 2 NAG A 1 507 507 NAG NAG . I 2 NAG A 1 508 508 NAG NAG . J 2 NAG A 1 509 510 NAG NAG . K 3 EPE A 1 510 512 EPE EPE . L 4 A1AS8 A 1 511 1 A1AS8 MW5 . M 5 HOH A 1 601 6 HOH HOH . M 5 HOH A 2 602 7 HOH HOH . M 5 HOH A 3 603 8 HOH HOH . M 5 HOH A 4 604 4 HOH HOH . M 5 HOH A 5 605 9 HOH HOH . M 5 HOH A 6 606 5 HOH HOH . M 5 HOH A 7 607 1 HOH HOH . M 5 HOH A 8 608 3 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 C10 A1AS8 . . . L 4 -2.635 17.539 -14.602 1 58.42 ? C10 A1AS8 511 A 1 HETATM 2 C CD A1AS8 . . . L 4 -1.968 10.196 -7.99 1 94.88 ? CD A1AS8 511 A 1 HETATM 3 N NE A1AS8 . . . L 4 -1.651 10.056 -6.523 1 91.78 ? NE A1AS8 511 A 1 HETATM 4 C CZ A1AS8 . . . L 4 -1.565 8.655 -5.86 1 99.88 ? CZ A1AS8 511 A 1 HETATM 5 N NH1 A1AS8 . . . L 4 -1.317 8.508 -4.635 1 98.97 ? NH1 A1AS8 511 A 1 HETATM 6 N NH2 A1AS8 . . . L 4 -1.774 7.637 -6.557 1 104.17 ? NH2 A1AS8 511 A 1 HETATM 7 C C01 A1AS8 . . . L 4 -1.899 11.677 -8.463 1 98.23 ? C01 A1AS8 511 A 1 HETATM 8 C C03 A1AS8 . . . L 4 -0.033 12.84 -8.331 1 96.91 ? C03 A1AS8 511 A 1 HETATM 9 C C04 A1AS8 . . . L 4 -0.29 14.352 -8.397 1 102.38 ? C04 A1AS8 511 A 1 HETATM 10 C C06 A1AS8 . . . L 4 -1.031 16.321 -9.757 1 81.37 ? C06 A1AS8 511 A 1 HETATM 11 C C08 A1AS8 . . . L 4 -1.503 16.732 -12.396 1 74.16 ? C08 A1AS8 511 A 1 HETATM 12 C C09 A1AS8 . . . L 4 -1.493 17.818 -13.523 1 68.84 ? C09 A1AS8 511 A 1 HETATM 13 C C13 A1AS8 . . . L 4 -3.32 17.315 -17.111 1 60.49 ? C13 A1AS8 511 A 1 HETATM 14 C C14 A1AS8 . . . L 4 -4.715 17.327 -16.881 1 54.48 ? C14 A1AS8 511 A 1 HETATM 15 C C15 A1AS8 . . . L 4 -5.598 17.084 -17.937 1 68.07 ? C15 A1AS8 511 A 1 HETATM 16 C C17 A1AS8 . . . L 4 -5.107 16.827 -19.233 1 68.77 ? C17 A1AS8 511 A 1 HETATM 17 C C19 A1AS8 . . . L 4 -3.721 16.813 -19.463 1 61.56 ? C19 A1AS8 511 A 1 HETATM 18 C C20 A1AS8 . . . L 4 -2.839 17.055 -18.41 1 71.24 ? C20 A1AS8 511 A 1 HETATM 19 C C21 A1AS8 . . . L 4 -1.756 19.204 -13.114 1 70.07 ? C21 A1AS8 511 A 1 HETATM 20 C C22 A1AS8 . . . L 4 -1.013 19.356 -11.873 1 77.48 ? C22 A1AS8 511 A 1 HETATM 21 C C23 A1AS8 . . . L 4 -1.785 18.592 -10.795 1 68.94 ? C23 A1AS8 511 A 1 HETATM 22 C C25 A1AS8 . . . L 4 -0.414 13.828 -10.699 1 76.66 ? C25 A1AS8 511 A 1 HETATM 23 C C26 A1AS8 . . . L 4 -1.004 12.418 -10.445 1 100.55 ? C26 A1AS8 511 A 1 HETATM 24 F F16 A1AS8 . . . L 4 -6.931 17.089 -17.742 1 62.89 ? F16 A1AS8 511 A 1 HETATM 25 N N02 A1AS8 . . . L 4 -0.836 11.995 -9.104 1 100.27 ? N02 A1AS8 511 A 1 HETATM 26 N N05 A1AS8 . . . L 4 -0.62 14.846 -9.681 1 72.71 ? N05 A1AS8 511 A 1 HETATM 27 N N07 A1AS8 . . . L 4 -1.422 17.153 -10.963 1 62.54 ? N07 A1AS8 511 A 1 HETATM 28 N N12 A1AS8 . . . L 4 -2.325 17.563 -16.047 1 63.79 ? N12 A1AS8 511 A 1 HETATM 29 O O11 A1AS8 . . . L 4 -3.727 17.344 -14.215 1 56.41 ? O11 A1AS8 511 A 1 HETATM 30 O O24 A1AS8 . . . L 4 -1.064 16.925 -8.686 1 97.21 ? O24 A1AS8 511 A 1 HETATM 31 CL CL1 A1AS8 . . . L 4 -6.248 16.522 -20.558 1 96.39 ? CL1 A1AS8 511 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #