data_6IBL # _model_server_result.job_id WiaSj3seDzn0_p_TYLaiew _model_server_result.datetime_utc '2024-11-08 22:30:03' _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 6ibl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":501}' # _entry.id 6IBL # _exptl.entry_id 6IBL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 344.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-[5-[(1~{R})-2-[[(2~{R})-1-(4-methoxyphenyl)propan-2-yl]amino]-1-oxidanyl-ethyl]-2-oxidanyl-phenyl]methanamide _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 90 _cell.angle_gamma 90 _cell.entry_id 6IBL _cell.length_a 116.65 _cell.length_b 121.12 _cell.length_c 129.84 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6IBL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,J,K,Q,R 1 1 C,D,L,M,N,O,P,S,T 2 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 ? 3 E N N ? 3 L 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 185 A CYS 114 1_555 A SG CYS 270 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf2 A SG CYS 263 A CYS 192 1_555 A SG CYS 269 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf3 B SG CYS 23 C CYS 22 1_555 B SG CYS 96 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 C SG CYS 185 B CYS 114 1_555 C SG CYS 270 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf5 C SG CYS 263 B CYS 192 1_555 C SG CYS 269 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf6 D SG CYS 23 D CYS 22 1_555 D SG CYS 96 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc1 A O CYS 263 A CYS 192 1_555 F NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc2 A O ASP 266 A ASP 195 1_555 F NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc3 A O CYS 269 A CYS 198 1_555 F NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc4 F NA NA . A NA 502 1_555 Q O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc5 C O CYS 263 B CYS 192 1_555 M NA NA . B NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc6 C O ASP 266 B ASP 195 1_555 M NA NA . B NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc7 C O CYS 269 B CYS 198 1_555 M NA NA . B NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc8 M NA NA . B NA 502 1_555 S O HOH . B HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc9 M NA NA . B NA 502 1_555 S O HOH . B HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? # _chem_comp.formula 'C19 H24 N2 O4' _chem_comp.formula_weight 344.405 _chem_comp.id H98 _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-[5-[(1~{R})-2-[[(2~{R})-1-(4-methoxyphenyl)propan-2-yl]amino]-1-oxidanyl-ethyl]-2-oxidanyl-phenyl]methanamide _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 O2 C16 H98 sing 191 n n O3 C19 H98 doub 192 n n N2 C19 H98 sing 193 n n N2 C15 H98 sing 194 n n C16 C15 H98 doub 195 n y C16 C17 H98 sing 196 n y C15 C14 H98 sing 197 n y C17 C18 H98 doub 198 n y C14 C13 H98 doub 199 n y C18 C13 H98 sing 200 n y C13 C12 H98 sing 201 n n C12 C11 H98 sing 202 n n C12 O4 H98 sing 203 n n C11 N1 H98 sing 204 n n N1 C2 H98 sing 205 n n C1 C2 H98 sing 206 n n C2 C3 H98 sing 207 n n C3 C4 H98 sing 208 n n C5 C4 H98 doub 209 n y C5 C6 H98 sing 210 n y C4 C9 H98 sing 211 n y C6 C7 H98 doub 212 n y C10 O1 H98 sing 213 n n C9 C8 H98 doub 214 n y C7 C8 H98 sing 215 n y C7 O1 H98 sing 216 n n C1 H1 H98 sing 217 n n C1 H2 H98 sing 218 n n C1 H3 H98 sing 219 n n C2 H4 H98 sing 220 n n C3 H5 H98 sing 221 n n C3 H6 H98 sing 222 n n C5 H7 H98 sing 223 n n C6 H8 H98 sing 224 n n C8 H9 H98 sing 225 n n C9 H10 H98 sing 226 n n C10 H11 H98 sing 227 n n C10 H12 H98 sing 228 n n C10 H13 H98 sing 229 n n N1 H14 H98 sing 230 n n C11 H16 H98 sing 231 n n C11 H17 H98 sing 232 n n C12 H18 H98 sing 233 n n C14 H19 H98 sing 234 n n C17 H20 H98 sing 235 n n C18 H21 H98 sing 236 n n O2 H22 H98 sing 237 n n N2 H23 H98 sing 238 n n C19 H24 H98 sing 239 n n O4 H25 H98 sing 240 n n # _atom_sites.entry_id 6IBL _atom_sites.fract_transf_matrix[1][1] 0.008573 _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] 0.008256 _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] 0.007702 _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 E 3 H98 A 1 501 401 H98 UNL . F 4 NA A 1 502 402 NA NA . G 5 2CV A 1 503 501 2CV 2CV . H 5 2CV A 1 504 502 2CV 2CV . I 5 2CV A 1 505 503 2CV 2CV . J 5 2CV A 1 506 504 2CV 2CV . K 5 2CV A 1 507 501 2CV 2CV . L 3 H98 B 1 501 401 H98 UNL . M 4 NA B 1 502 402 NA NA . N 5 2CV B 1 503 501 2CV 2CV . O 5 2CV B 1 504 503 2CV 2CV . P 5 2CV B 1 505 504 2CV 2CV . Q 6 HOH A 1 601 27 HOH HOH . Q 6 HOH A 2 602 37 HOH HOH . Q 6 HOH A 3 603 3 HOH HOH . Q 6 HOH A 4 604 26 HOH HOH . Q 6 HOH A 5 605 28 HOH HOH . Q 6 HOH A 6 606 2 HOH HOH . Q 6 HOH A 7 607 21 HOH HOH . Q 6 HOH A 8 608 403 HOH HOH . R 6 HOH C 1 201 36 HOH HOH . R 6 HOH C 2 202 38 HOH HOH . R 6 HOH C 3 203 17 HOH HOH . R 6 HOH C 4 204 22 HOH HOH . R 6 HOH C 5 205 29 HOH HOH . R 6 HOH C 6 206 11 HOH HOH . S 6 HOH B 1 601 19 HOH HOH . S 6 HOH B 2 602 13 HOH HOH . S 6 HOH B 3 603 30 HOH HOH . S 6 HOH B 4 604 25 HOH HOH . S 6 HOH B 5 605 18 HOH HOH . S 6 HOH B 6 606 15 HOH HOH . S 6 HOH B 7 607 23 HOH HOH . S 6 HOH B 8 608 403 HOH HOH . S 6 HOH B 9 609 24 HOH HOH . S 6 HOH B 10 610 12 HOH HOH . S 6 HOH B 11 611 404 HOH HOH . T 6 HOH D 1 201 8 HOH HOH . T 6 HOH D 2 202 10 HOH HOH . T 6 HOH D 3 203 31 HOH HOH . T 6 HOH D 4 204 35 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 C1 H98 . . . L 3 -32.475 32.217 -49.437 1 57.5 ? C1 H98 501 B 1 HETATM 2 C C2 H98 . . . L 3 -33.234 33.389 -50.049 1 58.24 ? C2 H98 501 B 1 HETATM 3 C C3 H98 . . . L 3 -32.671 34.734 -49.559 1 62.36 ? C3 H98 501 B 1 HETATM 4 C C4 H98 . . . L 3 -31.514 35.231 -50.4 1 65.93 ? C4 H98 501 B 1 HETATM 5 C C5 H98 . . . L 3 -30.207 35.184 -49.936 1 65.78 ? C5 H98 501 B 1 HETATM 6 C C6 H98 . . . L 3 -29.144 35.621 -50.718 1 67.81 ? C6 H98 501 B 1 HETATM 7 C C7 H98 . . . L 3 -29.375 36.1 -52.004 1 68.53 ? C7 H98 501 B 1 HETATM 8 C C8 H98 . . . L 3 -30.678 36.148 -52.486 1 70.75 ? C8 H98 501 B 1 HETATM 9 C C9 H98 . . . L 3 -31.724 35.714 -51.686 1 71.25 ? C9 H98 501 B 1 HETATM 10 O O1 H98 . . . L 3 -28.291 36.531 -52.725 1 65.05 ? O1 H98 501 B 1 HETATM 11 C C10 H98 . . . L 3 -28.149 36.201 -54.112 1 65.14 ? C10 H98 501 B 1 HETATM 12 N N1 H98 . . . L 3 -34.694 33.305 -49.816 1 56.01 ? N1 H98 501 B 1 HETATM 13 C C11 H98 . . . L 3 -35.344 32.071 -50.283 1 54.68 ? C11 H98 501 B 1 HETATM 14 C C12 H98 . . . L 3 -36.782 32.296 -50.74 1 55.63 ? C12 H98 501 B 1 HETATM 15 C C13 H98 . . . L 3 -37.409 30.967 -51.13 1 58.68 ? C13 H98 501 B 1 HETATM 16 C C14 H98 . . . L 3 -37.012 30.358 -52.313 1 58.58 ? C14 H98 501 B 1 HETATM 17 C C15 H98 . . . L 3 -37.556 29.142 -52.711 1 60.61 ? C15 H98 501 B 1 HETATM 18 C C16 H98 . . . L 3 -38.507 28.513 -51.896 1 58.94 ? C16 H98 501 B 1 HETATM 19 C C17 H98 . . . L 3 -38.908 29.121 -50.709 1 57.33 ? C17 H98 501 B 1 HETATM 20 C C18 H98 . . . L 3 -38.361 30.33 -50.335 1 59.47 ? C18 H98 501 B 1 HETATM 21 O O2 H98 . . . L 3 -39.013 27.329 -52.311 1 62.16 ? O2 H98 501 B 1 HETATM 22 N N2 H98 . . . L 3 -37.203 28.491 -53.92 1 62.87 ? N2 H98 501 B 1 HETATM 23 C C19 H98 . . . L 3 -36.263 28.849 -54.802 1 66.93 ? C19 H98 501 B 1 HETATM 24 O O3 H98 . . . L 3 -35.677 28.087 -55.555 1 76.57 ? O3 H98 501 B 1 HETATM 25 O O4 H98 . . . L 3 -37.469 32.987 -49.714 1 58.1 ? O4 H98 501 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 232 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 25 #