data_5YLU # _model_server_result.job_id -D_VL1Wo7HpUmMzNXGICMg _model_server_result.datetime_utc '2024-11-04 22:34:28' _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 5ylu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":304}' # _entry.id 5YLU # _exptl.entry_id 5YLU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 538.755 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'O-DODECANYL OCTAETHYLENE GLYCOL' _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 120 _cell.entry_id 5YLU _cell.length_a 104.82 _cell.length_b 104.82 _cell.length_c 367.08 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YLU _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 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,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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 G N N ? 6 K 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 B SG CYS 130 B CYS 131 1_555 B SG CYS 151 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? disulf ? disulf2 B SG CYS 161 B CYS 162 1_555 B SG CYS 177 B CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 B SG CYS 200 B CYS 201 1_555 B SG CYS 261 B CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? covale ? covale1 A NH1 ARG 214 A ARG 213 1_555 A ND2 ASN 251 A ASN 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.172 ? covale ? covale2 A C SER 385 A SER 384 1_555 A N BFD 386 A BFD 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 A C BFD 386 A BFD 385 1_555 A N LYS 387 A LYS 386 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 B ND2 ASN 98 B ASN 99 1_555 H C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 B ND2 ASN 129 B ASN 130 1_555 I C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale6 B ND2 ASN 160 B ASN 161 1_555 J C1 NAG . B NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? metalc ? metalc1 A OD2 BFD 386 A BFD 385 1_555 F MG MG . A MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? metalc ? metalc2 A O THR 388 A THR 387 1_555 F MG MG . A MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? metalc ? metalc3 A OD1 ASP 727 A ASP 726 1_555 F MG MG . A MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.856 ? # _chem_comp.formula 'C28 H58 O9' _chem_comp.formula_weight 538.755 _chem_comp.id CE1 _chem_comp.mon_nstd_flag . _chem_comp.name 'O-DODECANYL OCTAETHYLENE GLYCOL' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms THESIT # 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 C1 C2 CE1 sing 88 n n C1 H11 CE1 sing 89 n n C1 H12 CE1 sing 90 n n C1 H13 CE1 sing 91 n n C2 C3 CE1 sing 92 n n C2 H21 CE1 sing 93 n n C2 H22 CE1 sing 94 n n C3 C4 CE1 sing 95 n n C3 H31 CE1 sing 96 n n C3 H32 CE1 sing 97 n n C4 C5 CE1 sing 98 n n C4 H41 CE1 sing 99 n n C4 H42 CE1 sing 100 n n C5 C6 CE1 sing 101 n n C5 H51 CE1 sing 102 n n C5 H52 CE1 sing 103 n n C6 C7 CE1 sing 104 n n C6 H61 CE1 sing 105 n n C6 H62 CE1 sing 106 n n C7 C8 CE1 sing 107 n n C7 H71 CE1 sing 108 n n C7 H72 CE1 sing 109 n n C8 C9 CE1 sing 110 n n C8 H81 CE1 sing 111 n n C8 H82 CE1 sing 112 n n C9 C10 CE1 sing 113 n n C9 H91 CE1 sing 114 n n C9 H92 CE1 sing 115 n n C10 C11 CE1 sing 116 n n C10 H101 CE1 sing 117 n n C10 H102 CE1 sing 118 n n C11 C12 CE1 sing 119 n n C11 H111 CE1 sing 120 n n C11 H112 CE1 sing 121 n n C12 O13 CE1 sing 122 n n C12 H121 CE1 sing 123 n n C12 H122 CE1 sing 124 n n O13 C14 CE1 sing 125 n n C14 C15 CE1 sing 126 n n C14 H141 CE1 sing 127 n n C14 H142 CE1 sing 128 n n C15 O16 CE1 sing 129 n n C15 H151 CE1 sing 130 n n C15 H152 CE1 sing 131 n n O16 C17 CE1 sing 132 n n C17 C18 CE1 sing 133 n n C17 H171 CE1 sing 134 n n C17 H172 CE1 sing 135 n n C18 O19 CE1 sing 136 n n C18 H181 CE1 sing 137 n n C18 H182 CE1 sing 138 n n O19 C20 CE1 sing 139 n n C20 C21 CE1 sing 140 n n C20 H201 CE1 sing 141 n n C20 H202 CE1 sing 142 n n C21 O22 CE1 sing 143 n n C21 H211 CE1 sing 144 n n C21 H212 CE1 sing 145 n n O22 C23 CE1 sing 146 n n C23 C24 CE1 sing 147 n n C23 H231 CE1 sing 148 n n C23 H232 CE1 sing 149 n n C24 O25 CE1 sing 150 n n C24 H241 CE1 sing 151 n n C24 H242 CE1 sing 152 n n O25 C26 CE1 sing 153 n n C26 C27 CE1 sing 154 n n C26 H261 CE1 sing 155 n n C26 H262 CE1 sing 156 n n C27 O28 CE1 sing 157 n n C27 H271 CE1 sing 158 n n C27 H272 CE1 sing 159 n n O28 C29 CE1 sing 160 n n C29 C30 CE1 sing 161 n n C29 H291 CE1 sing 162 n n C29 H292 CE1 sing 163 n n C30 O31 CE1 sing 164 n n C30 H301 CE1 sing 165 n n C30 H302 CE1 sing 166 n n O31 C32 CE1 sing 167 n n C32 C33 CE1 sing 168 n n C32 H321 CE1 sing 169 n n C32 H322 CE1 sing 170 n n C33 O34 CE1 sing 171 n n C33 H331 CE1 sing 172 n n C33 H332 CE1 sing 173 n n O34 C35 CE1 sing 174 n n C35 C36 CE1 sing 175 n n C35 H351 CE1 sing 176 n n C35 H352 CE1 sing 177 n n C36 O37 CE1 sing 178 n n C36 H361 CE1 sing 179 n n C36 H362 CE1 sing 180 n n O37 H37 CE1 sing 181 n n # _atom_sites.entry_id 5YLU _atom_sites.fract_transf_matrix[1][1] 0.00954 _atom_sites.fract_transf_matrix[1][2] 0.005508 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011016 _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] 0.002724 _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 HKT A 1 1101 1101 HKT HKT . D 4 PCW A 1 1102 1102 PCW PCW . E 4 PCW A 1 1103 1103 PCW PCW . F 5 MG A 1 1104 1104 MG MG . G 6 CE1 A 1 1105 1105 CE1 CE1 . H 7 NAG B 1 301 301 NAG NAG . I 7 NAG B 1 302 302 NAG NAG . J 7 NAG B 1 303 303 NAG NAG . K 6 CE1 B 1 304 304 CE1 CE1 . L 8 HOH A 1 1201 1201 HOH HOH . L 8 HOH A 2 1202 1202 HOH HOH . L 8 HOH A 3 1203 1203 HOH HOH . L 8 HOH A 4 1204 1204 HOH HOH . L 8 HOH A 5 1205 1205 HOH HOH . L 8 HOH A 6 1206 1206 HOH HOH . L 8 HOH A 7 1207 1207 HOH HOH . L 8 HOH A 8 1208 1208 HOH HOH . L 8 HOH A 9 1209 1209 HOH HOH . L 8 HOH A 10 1210 1210 HOH HOH . L 8 HOH A 11 1211 1211 HOH HOH . L 8 HOH A 12 1212 1212 HOH HOH . L 8 HOH A 13 1213 1213 HOH HOH . L 8 HOH A 14 1214 1214 HOH HOH . L 8 HOH A 15 1215 1215 HOH HOH . L 8 HOH A 16 1216 1216 HOH HOH . L 8 HOH A 17 1217 1217 HOH HOH . L 8 HOH A 18 1218 1218 HOH HOH . L 8 HOH A 19 1219 1219 HOH HOH . L 8 HOH A 20 1220 1220 HOH HOH . L 8 HOH A 21 1221 1221 HOH HOH . L 8 HOH A 22 1222 1222 HOH HOH . L 8 HOH A 23 1223 1223 HOH HOH . L 8 HOH A 24 1224 1224 HOH HOH . L 8 HOH A 25 1225 1225 HOH HOH . L 8 HOH A 26 1226 1226 HOH HOH . L 8 HOH A 27 1227 1227 HOH HOH . L 8 HOH A 28 1228 1228 HOH HOH . L 8 HOH A 29 1229 1229 HOH HOH . L 8 HOH A 30 1230 1230 HOH HOH . M 8 HOH B 1 401 401 HOH HOH . M 8 HOH B 2 402 402 HOH HOH . M 8 HOH B 3 403 403 HOH HOH . M 8 HOH B 4 404 404 HOH HOH . M 8 HOH B 5 405 405 HOH HOH . M 8 HOH B 6 406 406 HOH HOH . M 8 HOH B 7 407 407 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 CE1 . . . K 6 51.482 10.074 -9.872 1 40.88 ? C1 CE1 304 B 1 HETATM 2 C C2 CE1 . . . K 6 52.223 10.427 -11.142 1 49.04 ? C2 CE1 304 B 1 HETATM 3 C C3 CE1 . . . K 6 53.745 10.311 -10.986 1 51.26 ? C3 CE1 304 B 1 HETATM 4 C C4 CE1 . . . K 6 54.484 10.826 -12.223 1 45.9 ? C4 CE1 304 B 1 HETATM 5 C C5 CE1 . . . K 6 55.953 10.413 -12.235 1 45.15 ? C5 CE1 304 B 1 HETATM 6 C C6 CE1 . . . K 6 56.803 11.397 -13.043 1 55.22 ? C6 CE1 304 B 1 HETATM 7 C C7 CE1 . . . K 6 58.177 10.823 -13.373 1 52.1 ? C7 CE1 304 B 1 HETATM 8 C C8 CE1 . . . K 6 59.101 11.851 -14.012 1 54.75 ? C8 CE1 304 B 1 HETATM 9 C C9 CE1 . . . K 6 60.47 11.209 -14.189 1 64.05 ? C9 CE1 304 B 1 HETATM 10 C C10 CE1 . . . K 6 61.607 12.188 -14.477 1 67.72 ? C10 CE1 304 B 1 HETATM 11 C C11 CE1 . . . K 6 62.91 11.396 -14.589 1 65.5 ? C11 CE1 304 B 1 HETATM 12 C C12 CE1 . . . K 6 63.965 12.012 -15.507 1 64.52 ? C12 CE1 304 B 1 HETATM 13 O O13 CE1 . . . K 6 63.822 11.547 -16.854 1 62.27 ? O13 CE1 304 B 1 HETATM 14 C C14 CE1 . . . K 6 64.217 10.175 -16.967 1 57.25 ? C14 CE1 304 B 1 HETATM 15 C C15 CE1 . . . K 6 65.456 10.046 -17.84 1 61.15 ? C15 CE1 304 B 1 HETATM 16 O O16 CE1 . . . K 6 66.626 10.185 -17.032 1 64.05 ? O16 CE1 304 B 1 HETATM 17 C C17 CE1 . . . K 6 67.797 10.457 -17.812 1 59 ? C17 CE1 304 B 1 HETATM 18 C C18 CE1 . . . K 6 69.038 10.446 -16.921 1 61.71 ? C18 CE1 304 B 1 HETATM 19 O O19 CE1 . . . K 6 69.33 9.106 -16.51 1 66.5 ? O19 CE1 304 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #