data_6RF0 # _model_server_result.job_id G4rMYGJBLGQiPx4hZPdQZQ _model_server_result.datetime_utc '2024-11-16 08:42:17' _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 6rf0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":304}' # _entry.id 6RF0 # _exptl.entry_id 6RF0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 282.547 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description EICOSANE _entity.pdbx_number_of_molecules 10 _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 6RF0 _cell.length_a 128.184 _cell.length_b 239.719 _cell.length_c 131.909 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RF0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA _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 ? 4 H N N ? 4 L N N ? 4 M N N ? 4 O N N ? 4 R N N ? 4 T N N ? 4 W N N ? 4 Y N N ? 4 AA N N ? 4 CA 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 covale ? covale1 A NZ LYS 255 A LYS 255 1_555 J C15 RET . A RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 B NZ LYS 255 B LYS 255 1_555 P C15 RET . B RET 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale3 C NZ LYS 255 C LYS 255 1_555 U C15 RET . C RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale4 D NZ LYS 255 D LYS 255 1_555 Z C15 RET . D RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 E NZ LYS 255 E LYS 255 1_555 DA C15 RET . E RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? metalc ? metalc1 A OH TYR 25 A TYR 25 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc2 A O THR 83 A THR 83 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 A O PHE 86 A PHE 86 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc4 A OD1 ASP 102 A ASP 102 1_555 I NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc5 A OD2 ASP 102 A ASP 102 1_555 I NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc6 F NA NA . A NA 301 1_555 B OD1 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc7 F NA NA . A NA 301 1_555 B OD2 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? metalc ? metalc8 I NA NA . A NA 304 1_555 E OH TYR 25 E TYR 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.981 ? metalc ? metalc9 I NA NA . A NA 304 1_555 E O THR 83 E THR 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc10 I NA NA . A NA 304 1_555 E O PHE 86 E PHE 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc11 B OH TYR 25 B TYR 25 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc12 B O THR 83 B THR 83 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc13 B O PHE 86 B PHE 86 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc14 K NA NA . B NA 301 1_555 C OD1 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.89 ? metalc ? metalc15 K NA NA . B NA 301 1_555 C OD2 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? metalc ? metalc16 C OH TYR 25 C TYR 25 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc17 C O THR 83 C THR 83 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc18 C O PHE 86 C PHE 86 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc19 Q NA NA . C NA 301 1_555 D OD1 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.968 ? metalc ? metalc20 Q NA NA . C NA 301 1_555 D OD2 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.969 ? metalc ? metalc21 D OH TYR 25 D TYR 25 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.037 ? metalc ? metalc22 D O THR 83 D THR 83 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc23 D O PHE 86 D PHE 86 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc24 V NA NA . D NA 301 1_555 E OD1 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.812 ? metalc ? metalc25 V NA NA . D NA 301 1_555 E OD2 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? # _chem_comp.formula 'C20 H42' _chem_comp.formula_weight 282.547 _chem_comp.id LFA _chem_comp.mon_nstd_flag . _chem_comp.name EICOSANE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'LIPID FRAGMENT' # 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 LFA sing 181 n n C1 H11 LFA sing 182 n n C1 H12 LFA sing 183 n n C1 H13 LFA sing 184 n n C2 C3 LFA sing 185 n n C2 H21 LFA sing 186 n n C2 H22 LFA sing 187 n n C3 C4 LFA sing 188 n n C3 H31 LFA sing 189 n n C3 H32 LFA sing 190 n n C4 C5 LFA sing 191 n n C4 H41 LFA sing 192 n n C4 H42 LFA sing 193 n n C5 C6 LFA sing 194 n n C5 H51 LFA sing 195 n n C5 H52 LFA sing 196 n n C6 C7 LFA sing 197 n n C6 H61 LFA sing 198 n n C6 H62 LFA sing 199 n n C7 C8 LFA sing 200 n n C7 H71 LFA sing 201 n n C7 H72 LFA sing 202 n n C8 C9 LFA sing 203 n n C8 H81 LFA sing 204 n n C8 H82 LFA sing 205 n n C9 C10 LFA sing 206 n n C9 H91 LFA sing 207 n n C9 H92 LFA sing 208 n n C10 C11 LFA sing 209 n n C10 H101 LFA sing 210 n n C10 H102 LFA sing 211 n n C11 C12 LFA sing 212 n n C11 H111 LFA sing 213 n n C11 H112 LFA sing 214 n n C12 C13 LFA sing 215 n n C12 H121 LFA sing 216 n n C12 H122 LFA sing 217 n n C13 C14 LFA sing 218 n n C13 H131 LFA sing 219 n n C13 H132 LFA sing 220 n n C14 C15 LFA sing 221 n n C14 H141 LFA sing 222 n n C14 H142 LFA sing 223 n n C15 C16 LFA sing 224 n n C15 H151 LFA sing 225 n n C15 H152 LFA sing 226 n n C16 C17 LFA sing 227 n n C16 H161 LFA sing 228 n n C16 H162 LFA sing 229 n n C17 C18 LFA sing 230 n n C17 H171 LFA sing 231 n n C17 H172 LFA sing 232 n n C18 C19 LFA sing 233 n n C18 H181 LFA sing 234 n n C18 H182 LFA sing 235 n n C19 C20 LFA sing 236 n n C19 H191 LFA sing 237 n n C19 H192 LFA sing 238 n n C20 H201 LFA sing 239 n n C20 H202 LFA sing 240 n n C20 H203 LFA sing 241 n n # _atom_sites.entry_id 6RF0 _atom_sites.fract_transf_matrix[1][1] 0.007801 _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] 0.004172 _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] 0.007581 _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 F 2 NA A 1 301 301 NA NA . G 3 OLC A 1 302 401 OLC OLC . H 4 LFA A 1 303 501 LFA LFA . I 2 NA A 1 304 301 NA NA . J 5 RET A 1 305 255 RET LYR . K 2 NA B 1 301 301 NA NA . L 4 LFA B 1 302 303 LFA LFA . M 4 LFA B 1 303 304 LFA LFA . N 3 OLC B 1 304 401 OLC OLC . O 4 LFA B 1 305 501 LFA LFA . P 5 RET B 1 306 255 RET LYR . Q 2 NA C 1 301 301 NA NA . R 4 LFA C 1 302 303 LFA LFA . S 3 OLC C 1 303 401 OLC OLC . T 4 LFA C 1 304 501 LFA LFA . U 5 RET C 1 305 255 RET LYR . V 2 NA D 1 301 301 NA NA . W 4 LFA D 1 302 303 LFA LFA . X 3 OLC D 1 303 401 OLC OLC . Y 4 LFA D 1 304 501 LFA LFA . Z 5 RET D 1 305 255 RET LYR . AA 4 LFA E 1 301 302 LFA LFA . BA 3 OLC E 1 302 401 OLC OLC . CA 4 LFA E 1 303 601 LFA LFA . DA 5 RET E 1 304 255 RET LYR . EA 6 HOH A 1 401 9 HOH HOH . EA 6 HOH A 2 402 28 HOH HOH . EA 6 HOH A 3 403 3 HOH HOH . EA 6 HOH A 4 404 32 HOH HOH . EA 6 HOH A 5 405 23 HOH HOH . EA 6 HOH A 6 406 10 HOH HOH . EA 6 HOH A 7 407 2 HOH HOH . EA 6 HOH A 8 408 35 HOH HOH . EA 6 HOH A 9 409 41 HOH HOH . FA 6 HOH B 1 401 33 HOH HOH . FA 6 HOH B 2 402 21 HOH HOH . FA 6 HOH B 3 403 42 HOH HOH . FA 6 HOH B 4 404 12 HOH HOH . FA 6 HOH B 5 405 36 HOH HOH . FA 6 HOH B 6 406 24 HOH HOH . GA 6 HOH C 1 401 29 HOH HOH . GA 6 HOH C 2 402 14 HOH HOH . GA 6 HOH C 3 403 13 HOH HOH . GA 6 HOH C 4 404 22 HOH HOH . GA 6 HOH C 5 405 8 HOH HOH . GA 6 HOH C 6 406 16 HOH HOH . GA 6 HOH C 7 407 15 HOH HOH . GA 6 HOH C 8 408 34 HOH HOH . GA 6 HOH C 9 409 27 HOH HOH . GA 6 HOH C 10 410 37 HOH HOH . HA 6 HOH D 1 401 30 HOH HOH . HA 6 HOH D 2 402 7 HOH HOH . HA 6 HOH D 3 403 11 HOH HOH . HA 6 HOH D 4 404 19 HOH HOH . HA 6 HOH D 5 405 38 HOH HOH . HA 6 HOH D 6 406 39 HOH HOH . HA 6 HOH D 7 407 6 HOH HOH . HA 6 HOH D 8 408 40 HOH HOH . HA 6 HOH D 9 409 17 HOH HOH . IA 6 HOH E 1 401 31 HOH HOH . IA 6 HOH E 2 402 20 HOH HOH . IA 6 HOH E 3 403 18 HOH HOH . IA 6 HOH E 4 404 25 HOH HOH . IA 6 HOH E 5 405 5 HOH HOH . IA 6 HOH E 6 406 26 HOH HOH . IA 6 HOH E 7 407 1 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 C7 LFA . . . Y 4 -50.687 -49.338 -12.639 1 33.74 ? C7 LFA 304 D 1 HETATM 2 C C8 LFA . . . Y 4 -49.524 -48.622 -11.951 1 36.22 ? C8 LFA 304 D 1 HETATM 3 C C9 LFA . . . Y 4 -49.954 -47.275 -11.362 1 38.31 ? C9 LFA 304 D 1 HETATM 4 C C10 LFA . . . Y 4 -48.782 -46.542 -10.704 1 41.78 ? C10 LFA 304 D 1 HETATM 5 C C11 LFA . . . Y 4 -48.962 -45.021 -10.7 1 42.4 ? C11 LFA 304 D 1 HETATM 6 C C12 LFA . . . Y 4 -47.684 -44.293 -10.257 1 46.6 ? C12 LFA 304 D 1 HETATM 7 C C13 LFA . . . Y 4 -47.475 -42.966 -10.998 1 47.06 ? C13 LFA 304 D 1 HETATM 8 C C14 LFA . . . Y 4 -46.675 -41.934 -10.198 1 44.92 ? C14 LFA 304 D 1 HETATM 9 C C15 LFA . . . Y 4 -46.308 -40.709 -11.041 1 47.45 ? C15 LFA 304 D 1 HETATM 10 C C16 LFA . . . Y 4 -46.913 -39.402 -10.52 1 48.78 ? C16 LFA 304 D 1 HETATM 11 C C17 LFA . . . Y 4 -48.409 -39.296 -10.828 1 50.83 ? C17 LFA 304 D 1 HETATM 12 C C18 LFA . . . Y 4 -48.731 -38.135 -11.771 1 51.31 ? C18 LFA 304 D 1 HETATM 13 C C19 LFA . . . Y 4 -50.205 -38.129 -12.186 1 45.16 ? C19 LFA 304 D 1 HETATM 14 C C20 LFA . . . Y 4 -50.696 -36.739 -12.547 1 38.68 ? C20 LFA 304 D 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #