data_6O3C # _model_server_result.job_id cR89CujmCShiScx4gHAJhQ _model_server_result.datetime_utc '2025-01-02 21:33:46' _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 6o3c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":611}' # _entry.id 6O3C # _exptl.entry_id 6O3C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 556.066 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-chloro-4,7-difluoro-N-{[2-methoxy-5-(pyridin-4-yl)phenyl]methyl}-N-[trans-4-(methylamino)cyclohexyl]-1-benzothiophene-2-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 6O3C _cell.length_a 39.01 _cell.length_b 121.09 _cell.length_c 157.01 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6O3C _symmetry.cell_setting ? _symmetry.Int_Tables_number 17 _symmetry.space_group_name_Hall 'P 2c 2' _symmetry.space_group_name_H-M 'P 2 2 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,K,L,M,N,O,P _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 7 _struct_asym.id M _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 27 A CYS 68 1_555 A SG CYS 141 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 33 A CYS 74 1_555 A SG CYS 97 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 41 A CYS 82 1_555 A SG CYS 90 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 81 A CYS 122 1_555 A SG CYS 117 A CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 110 A CYS 151 1_555 A SG CYS 132 A CYS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf6 A SG CYS 156 A CYS 197 1_555 A SG CYS 176 A CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 A SG CYS 180 A CYS 221 1_555 A SG CYS 258 A CYS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 A SG CYS 277 A CYS 318 1_555 A SG CYS 353 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 A SG CYS 453 A CYS 494 1_555 A SG CYS 470 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 B SG CYS 22 B CYS 22 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 39 A ASN 80 1_555 K C1 NAG . A NAG 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 456 A ASN 497 1_555 L C1 NAG . A NAG 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A O THR 53 A THR 94 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc2 A O ALA 56 A ALA 97 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc3 A O SER 59 A SER 100 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc4 A OD1 ASP 60 A ASP 101 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.021 ? # _chem_comp.formula 'C29 H28 Cl F2 N3 O2 S' _chem_comp.formula_weight 556.066 _chem_comp.id LKD _chem_comp.mon_nstd_flag . _chem_comp.name 3-chloro-4,7-difluoro-N-{[2-methoxy-5-(pyridin-4-yl)phenyl]methyl}-N-[trans-4-(methylamino)cyclohexyl]-1-benzothiophene-2-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 C33 C32 LKD doub 271 n y C33 N34 LKD sing 272 n y C32 C31 LKD sing 273 n y N34 C35 LKD doub 274 n y C12 N11 LKD sing 275 n n F22 C21 LKD sing 276 n n C13 C14 LKD sing 277 n n C13 C10 LKD sing 278 n n C14 C07 LKD sing 279 n n C31 C30 LKD sing 280 n n C31 C36 LKD doub 281 n y C35 C36 LKD sing 282 n y C29 C30 LKD doub 283 n y C29 C04 LKD sing 284 n y C10 N11 LKD sing 285 n n C10 C09 LKD sing 286 n n C05 C04 LKD sing 287 n n C05 N06 LKD sing 288 n n C30 C37 LKD sing 289 n y C04 C03 LKD doub 290 n y C21 C23 LKD doub 291 n y C21 C20 LKD sing 292 n y S27 C20 LKD sing 293 n y S27 C16 LKD sing 294 n y C07 N06 LKD sing 295 n n C07 C08 LKD sing 296 n n N06 C15 LKD sing 297 n n C09 C08 LKD sing 298 n n C23 C24 LKD sing 299 n y C37 C38 LKD doub 300 n y C20 C19 LKD doub 301 n y C03 C38 LKD sing 302 n y C03 O02 LKD sing 303 n n O02 C01 LKD sing 304 n n C16 C15 LKD sing 305 n n C16 C17 LKD doub 306 n y C15 O28 LKD doub 307 n n C24 C25 LKD doub 308 n y C19 C17 LKD sing 309 n y C19 C25 LKD sing 310 n y C17 CL18 LKD sing 311 n n C25 F26 LKD sing 312 n n C10 H1 LKD sing 313 n n C13 H2 LKD sing 314 n n C13 H3 LKD sing 315 n n C24 H4 LKD sing 316 n n C01 H5 LKD sing 317 n n C01 H6 LKD sing 318 n n C01 H7 LKD sing 319 n n C05 H8 LKD sing 320 n n C05 H9 LKD sing 321 n n C07 H10 LKD sing 322 n n C08 H11 LKD sing 323 n n C08 H12 LKD sing 324 n n C09 H13 LKD sing 325 n n C09 H14 LKD sing 326 n n C12 H15 LKD sing 327 n n C12 H16 LKD sing 328 n n C12 H17 LKD sing 329 n n C14 H18 LKD sing 330 n n C14 H19 LKD sing 331 n n C23 H20 LKD sing 332 n n C29 H21 LKD sing 333 n n C32 H22 LKD sing 334 n n C33 H23 LKD sing 335 n n C35 H24 LKD sing 336 n n C36 H25 LKD sing 337 n n C37 H26 LKD sing 338 n n C38 H27 LKD sing 339 n n N11 H28 LKD sing 340 n n # _atom_sites.entry_id 6O3C _atom_sites.fract_transf_matrix[1][1] 0.025634 _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] 0.008258 _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] 0.006369 _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 PO4 A 1 601 6 PO4 PO4 . D 4 NA A 1 602 7 NA NA . E 5 OLB A 1 603 10 OLB OLB . F 5 OLB A 1 604 11 OLB OLB . G 5 OLB A 1 605 12 OLB OLB . H 5 OLB A 1 606 13 OLB OLB . I 5 OLB A 1 607 14 OLB OLB . J 5 OLB A 1 608 15 OLB OLB . K 6 NAG A 1 609 100 NAG NAG . L 6 NAG A 1 610 101 NAG NAG . M 7 LKD A 1 611 102 LKD LIG . N 8 CLR A 1 612 103 CLR CLR . O 8 CLR A 1 613 104 CLR CLR . P 9 HOH A 1 701 1 HOH HOH . P 9 HOH A 2 702 3 HOH HOH . P 9 HOH A 3 703 2 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 LKD . . . M 7 -6.893 13.263 17.724 1 65.94 ? C10 LKD 611 A 1 HETATM 2 C C13 LKD . . . M 7 -7.887 14.419 17.735 1 66.54 ? C13 LKD 611 A 1 HETATM 3 C C15 LKD . . . M 7 -5.934 18.309 19.583 1 59.18 ? C15 LKD 611 A 1 HETATM 4 C C17 LKD . . . M 7 -4.417 20.313 20.424 1 60.68 ? C17 LKD 611 A 1 HETATM 5 C C20 LKD . . . M 7 -4.818 22.154 18.878 1 73.99 ? C20 LKD 611 A 1 HETATM 6 C C21 LKD . . . M 7 -4.631 23.456 18.393 1 69.38 ? C21 LKD 611 A 1 HETATM 7 C C24 LKD . . . M 7 -3.054 23.892 20.18 1 69.31 ? C24 LKD 611 A 1 HETATM 8 C C01 LKD . . . M 7 -2.107 16.006 20.746 1 64.02 ? C01 LKD 611 A 1 HETATM 9 C C03 LKD . . . M 7 -2.363 17.567 18.988 1 61.14 ? C03 LKD 611 A 1 HETATM 10 C C04 LKD . . . M 7 -3.165 18.209 18.024 1 63.4 ? C04 LKD 611 A 1 HETATM 11 C C05 LKD . . . M 7 -4.519 17.552 17.516 1 61.75 ? C05 LKD 611 A 1 HETATM 12 C C07 LKD . . . M 7 -6.123 15.922 18.748 1 51.18 ? C07 LKD 611 A 1 HETATM 13 C C08 LKD . . . M 7 -5.078 14.825 18.627 1 48.4 ? C08 LKD 611 A 1 HETATM 14 C C09 LKD . . . M 7 -5.743 13.442 18.724 1 59.69 ? C09 LKD 611 A 1 HETATM 15 C C12 LKD . . . M 7 -7.691 11.169 16.884 1 80.21 ? C12 LKD 611 A 1 HETATM 16 C C14 LKD . . . M 7 -7.196 15.786 17.666 1 48.85 ? C14 LKD 611 A 1 HETATM 17 C C16 LKD . . . M 7 -5.369 19.746 19.516 1 71.06 ? C16 LKD 611 A 1 HETATM 18 C C19 LKD . . . M 7 -4.131 21.726 20.002 1 65.37 ? C19 LKD 611 A 1 HETATM 19 C C23 LKD . . . M 7 -3.748 24.322 19.046 1 74.62 ? C23 LKD 611 A 1 HETATM 20 C C25 LKD . . . M 7 -3.239 22.603 20.662 1 61.47 ? C25 LKD 611 A 1 HETATM 21 C C29 LKD . . . M 7 -2.768 19.455 17.507 1 62.6 ? C29 LKD 611 A 1 HETATM 22 C C30 LKD . . . M 7 -1.572 20.056 17.945 1 60.38 ? C30 LKD 611 A 1 HETATM 23 C C31 LKD . . . M 7 -1.135 21.44 17.373 1 68.28 ? C31 LKD 611 A 1 HETATM 24 C C32 LKD . . . M 7 -1.891 22.064 16.393 1 76.08 ? C32 LKD 611 A 1 HETATM 25 C C33 LKD . . . M 7 -1.461 23.304 15.915 1 73.85 ? C33 LKD 611 A 1 HETATM 26 C C35 LKD . . . M 7 0.371 23.305 17.307 1 65.13 ? C35 LKD 611 A 1 HETATM 27 C C36 LKD . . . M 7 0.019 22.066 17.846 1 75.57 ? C36 LKD 611 A 1 HETATM 28 C C37 LKD . . . M 7 -0.779 19.415 18.901 1 61.98 ? C37 LKD 611 A 1 HETATM 29 C C38 LKD . . . M 7 -1.176 18.165 19.423 1 56.44 ? C38 LKD 611 A 1 HETATM 30 F F22 LKD . . . M 7 -5.31 23.873 17.286 1 66.54 ? F22 LKD 611 A 1 HETATM 31 F F26 LKD . . . M 7 -2.558 22.184 21.773 1 83.4 ? F26 LKD 611 A 1 HETATM 32 N N06 LKD . . . M 7 -5.51 17.274 18.618 1 56.16 ? N06 LKD 611 A 1 HETATM 33 N N11 LKD . . . M 7 -7.619 12.026 18.06 1 66.86 ? N11 LKD 611 A 1 HETATM 34 N N34 LKD . . . M 7 -0.361 23.881 16.376 1 63.6 ? N34 LKD 611 A 1 HETATM 35 O O02 LKD . . . M 7 -2.748 16.318 19.518 1 67.13 ? O02 LKD 611 A 1 HETATM 36 O O28 LKD . . . M 7 -6.724 18.03 20.421 1 75.69 ? O28 LKD 611 A 1 HETATM 37 S S27 LKD . . . M 7 -5.777 20.885 18.352 1 81.93 ? S27 LKD 611 A 1 HETATM 38 CL CL18 LKD . . . M 7 -3.694 19.469 21.824 1 84.09 ? CL18 LKD 611 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 38 #