data_3W3M # _model_server_result.job_id vT3dOKRd28ev5Psms3-SXw _model_server_result.datetime_utc '2025-07-31 02:56:13' _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 3w3m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":901}' # _entry.id 3W3M # _exptl.entry_id 3W3M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 314.382 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[4-amino-2-(ethoxymethyl)-1H-imidazo[4,5-c]quinolin-1-yl]-2-methylpropan-2-ol _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 106.94 _cell.angle_gamma 90 _cell.entry_id 3W3M _cell.length_a 136.77 _cell.length_b 106 _cell.length_c 72.32 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W3M _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 2 5 3 MAN BMA C1 O1 . O6 HO6 . sing 5 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 6 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 1001 NAG 2 n B NAG 2 B 2 NAG A 1002 NAG 2 n B BMA 3 B 3 BMA A 1003 BMA 2 n B MAN 4 B 4 MAN A 1004 MAN 2 n B MAN 5 B 5 MAN A 1005 MAN 3 n C NAG 1 C 1 NAG A 1011 NAG 3 n C NAG 2 C 2 NAG A 1012 NAG 3 n C BMA 3 C 3 BMA A 1013 BMA 2 n D NAG 1 D 1 NAG A 911 NAG 2 n D NAG 2 D 2 NAG A 912 NAG 2 n D BMA 3 D 3 BMA A 913 BMA 2 n D MAN 4 D 4 MAN A 1024 MAN 2 n D MAN 5 D 5 MAN A 1023 MAN # 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 14 A CYS 36 1_555 A SG CYS 27 A CYS 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 159 A CYS 181 1_555 A SG CYS 165 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 235 A CYS 257 1_555 A SG CYS 248 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 A SG CYS 238 A CYS 260 1_555 A SG CYS 245 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 457 A CYS 479 1_555 A SG CYS 487 A CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 754 A CYS 776 1_555 A SG CYS 781 A CYS 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? covale ? covale1 A ND2 ASN 271 A ASN 293 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 373 A ASN 395 1_555 H C1 NAG . A NAG 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 489 A ASN 511 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale4 A ND2 ASN 524 A ASN 546 1_555 F C1 NAG . A NAG 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 A ND2 ASN 568 A ASN 590 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale6 A ND2 ASN 618 A ASN 640 1_555 I C1 NAG . A NAG 918 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale7 A ND2 ASN 658 A ASN 680 1_555 G C1 NAG . A NAG 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale9 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale13 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale14 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale15 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? covale ? covale16 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale17 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _chem_comp.formula 'C17 H22 N4 O2' _chem_comp.formula_weight 314.382 _chem_comp.id RX8 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[4-amino-2-(ethoxymethyl)-1H-imidazo[4,5-c]quinolin-1-yl]-2-methylpropan-2-ol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms R848;Resiquimod # 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 N C RX8 sing 355 n n C N1 RX8 doub 356 n y C C4 RX8 sing 357 n y N1 C1 RX8 sing 358 n y C4 N2 RX8 sing 359 n y C4 C3 RX8 doub 360 n y N2 C5 RX8 doub 361 n y C1 C16 RX8 doub 362 n y C1 C2 RX8 sing 363 n y C16 C15 RX8 sing 364 n y C7 C8 RX8 sing 365 n n C7 O RX8 sing 366 n n C3 C2 RX8 sing 367 n y C3 N3 RX8 sing 368 n y C5 C6 RX8 sing 369 n n C5 N3 RX8 sing 370 n y C2 C13 RX8 doub 371 n y C6 O RX8 sing 372 n n C15 C14 RX8 doub 373 n y N3 C9 RX8 sing 374 n n C13 C14 RX8 sing 375 n y C9 C10 RX8 sing 376 n n O1 C10 RX8 sing 377 n n C10 C12 RX8 sing 378 n n C10 C11 RX8 sing 379 n n O1 H1 RX8 sing 380 n n C11 H2 RX8 sing 381 n n C11 H3 RX8 sing 382 n n C11 H4 RX8 sing 383 n n C12 H5 RX8 sing 384 n n C12 H6 RX8 sing 385 n n C12 H7 RX8 sing 386 n n C9 H8 RX8 sing 387 n n C9 H9 RX8 sing 388 n n C6 H10 RX8 sing 389 n n C6 H11 RX8 sing 390 n n C7 H12 RX8 sing 391 n n C7 H13 RX8 sing 392 n n C8 H14 RX8 sing 393 n n C8 H15 RX8 sing 394 n n C8 H16 RX8 sing 395 n n N H17 RX8 sing 396 n n N H18 RX8 sing 397 n n C13 H19 RX8 sing 398 n n C14 H20 RX8 sing 399 n n C15 H21 RX8 sing 400 n n C16 H22 RX8 sing 401 n n # _atom_sites.entry_id 3W3M _atom_sites.fract_transf_matrix[1][1] 0.007312 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002227 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009434 _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] 0.014455 _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 4 RX8 A 1 901 900 RX8 RX8 . F 5 NAG A 1 910 1018 NAG NAG . G 5 NAG A 1 916 1025 NAG NAG . H 5 NAG A 1 917 1027 NAG NAG . I 5 NAG A 1 918 1032 NAG NAG . J 6 SO4 A 1 919 1 SO4 SO4 . K 7 HOH A 1 1001 1 HOH HOH . K 7 HOH A 2 1002 2 HOH HOH . K 7 HOH A 3 1003 3 HOH HOH . K 7 HOH A 4 1004 4 HOH HOH . K 7 HOH A 5 1005 5 HOH HOH . K 7 HOH A 6 1006 7 HOH HOH . K 7 HOH A 7 1007 8 HOH HOH . K 7 HOH A 8 1008 9 HOH HOH . K 7 HOH A 9 1009 10 HOH HOH . K 7 HOH A 10 1010 11 HOH HOH . K 7 HOH A 11 1011 12 HOH HOH . K 7 HOH A 12 1012 13 HOH HOH . K 7 HOH A 13 1013 14 HOH HOH . K 7 HOH A 14 1014 15 HOH HOH . K 7 HOH A 15 1015 16 HOH HOH . K 7 HOH A 16 1016 17 HOH HOH . K 7 HOH A 17 1017 18 HOH HOH . K 7 HOH A 18 1018 19 HOH HOH . K 7 HOH A 19 1019 20 HOH HOH . K 7 HOH A 20 1020 21 HOH HOH . K 7 HOH A 21 1021 22 HOH HOH . K 7 HOH A 22 1022 23 HOH HOH . K 7 HOH A 23 1023 24 HOH HOH . K 7 HOH A 24 1024 25 HOH HOH . K 7 HOH A 25 1025 26 HOH HOH . K 7 HOH A 26 1026 27 HOH HOH . K 7 HOH A 27 1027 28 HOH HOH . K 7 HOH A 28 1028 29 HOH HOH . K 7 HOH A 29 1029 30 HOH HOH . K 7 HOH A 30 1030 31 HOH HOH . K 7 HOH A 31 1031 32 HOH HOH . K 7 HOH A 32 1032 33 HOH HOH . K 7 HOH A 33 1033 34 HOH HOH . K 7 HOH A 34 1034 35 HOH HOH . K 7 HOH A 35 1035 36 HOH HOH . K 7 HOH A 36 1036 37 HOH HOH . K 7 HOH A 37 1037 38 HOH HOH . K 7 HOH A 38 1038 39 HOH HOH . K 7 HOH A 39 1039 40 HOH HOH . K 7 HOH A 40 1040 41 HOH HOH . K 7 HOH A 41 1041 42 HOH HOH . K 7 HOH A 42 1042 43 HOH HOH . K 7 HOH A 43 1043 44 HOH HOH . K 7 HOH A 44 1044 46 HOH HOH . K 7 HOH A 45 1045 47 HOH HOH . K 7 HOH A 46 1046 49 HOH HOH . K 7 HOH A 47 1047 50 HOH HOH . K 7 HOH A 48 1048 51 HOH HOH . K 7 HOH A 49 1049 52 HOH HOH . K 7 HOH A 50 1050 53 HOH HOH . K 7 HOH A 51 1051 54 HOH HOH . K 7 HOH A 52 1052 55 HOH HOH . K 7 HOH A 53 1053 56 HOH HOH . K 7 HOH A 54 1054 57 HOH HOH . K 7 HOH A 55 1055 58 HOH HOH . K 7 HOH A 56 1056 59 HOH HOH . K 7 HOH A 57 1057 60 HOH HOH . K 7 HOH A 58 1058 61 HOH HOH . K 7 HOH A 59 1059 62 HOH HOH . K 7 HOH A 60 1060 63 HOH HOH . K 7 HOH A 61 1061 64 HOH HOH . K 7 HOH A 62 1062 65 HOH HOH . K 7 HOH A 63 1063 66 HOH HOH . K 7 HOH A 64 1064 67 HOH HOH . K 7 HOH A 65 1065 68 HOH HOH . K 7 HOH A 66 1066 69 HOH HOH . K 7 HOH A 67 1067 70 HOH HOH . K 7 HOH A 68 1068 71 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 O O1 RX8 . . . E 4 -21.948 -31.369 -0.922 1 36.55 ? O1 RX8 901 A 1 HETATM 2 C C10 RX8 . . . E 4 -21.749 -30.658 0.241 1 40 ? C10 RX8 901 A 1 HETATM 3 C C11 RX8 . . . E 4 -23.04 -30.581 1.005 1 36.65 ? C11 RX8 901 A 1 HETATM 4 C C12 RX8 . . . E 4 -21.292 -29.267 -0.112 1 42.79 ? C12 RX8 901 A 1 HETATM 5 C C9 RX8 . . . E 4 -20.685 -31.361 1.081 1 36.67 ? C9 RX8 901 A 1 HETATM 6 N N3 RX8 . . . E 4 -19.982 -32.452 0.385 1 37.72 ? N3 RX8 901 A 1 HETATM 7 C C5 RX8 . . . E 4 -20.469 -33.716 0.256 1 40.73 ? C5 RX8 901 A 1 HETATM 8 C C6 RX8 . . . E 4 -21.788 -34.194 0.822 1 48.44 ? C6 RX8 901 A 1 HETATM 9 O O RX8 . . . E 4 -21.754 -34.841 2.066 1 50.86 ? O RX8 901 A 1 HETATM 10 C C7 RX8 . . . E 4 -20.622 -34.718 2.881 1 51.89 ? C7 RX8 901 A 1 HETATM 11 C C8 RX8 . . . E 4 -20.819 -34.23 4.294 1 52.76 ? C8 RX8 901 A 1 HETATM 12 N N2 RX8 . . . E 4 -19.59 -34.469 -0.448 1 36.76 ? N2 RX8 901 A 1 HETATM 13 C C4 RX8 . . . E 4 -18.504 -33.651 -0.786 1 34.49 ? C4 RX8 901 A 1 HETATM 14 C C RX8 . . . E 4 -17.285 -33.874 -1.513 1 28.53 ? C RX8 901 A 1 HETATM 15 N N RX8 . . . E 4 -17.019 -35.173 -2.056 1 37.66 ? N RX8 901 A 1 HETATM 16 C C3 RX8 . . . E 4 -18.739 -32.374 -0.269 1 36.65 ? C3 RX8 901 A 1 HETATM 17 C C2 RX8 . . . E 4 -17.732 -31.298 -0.482 1 30.42 ? C2 RX8 901 A 1 HETATM 18 C C13 RX8 . . . E 4 -17.895 -29.975 0.014 1 31.5 ? C13 RX8 901 A 1 HETATM 19 C C14 RX8 . . . E 4 -16.915 -28.995 -0.216 1 51.16 ? C14 RX8 901 A 1 HETATM 20 C C15 RX8 . . . E 4 -15.763 -29.315 -0.935 1 31.44 ? C15 RX8 901 A 1 HETATM 21 C C16 RX8 . . . E 4 -15.59 -30.607 -1.424 1 38.76 ? C16 RX8 901 A 1 HETATM 22 C C1 RX8 . . . E 4 -16.596 -31.599 -1.191 1 37.7 ? C1 RX8 901 A 1 HETATM 23 N N1 RX8 . . . E 4 -16.388 -32.885 -1.694 1 28.91 ? N1 RX8 901 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 23 #