data_7VYF # _model_server_result.job_id lnXrVlDvdB4aHC_d85hB-Q _model_server_result.datetime_utc '2024-12-21 16:55:52' _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 7vyf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":401}' # _entry.id 7VYF # _exptl.entry_id 7VYF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 744.034 _entity.id 23 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine _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 7VYF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7VYF _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octadecameric _pdbx_struct_assembly.oligomeric_count 18 _pdbx_struct_assembly.details author_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 ? _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 23 _struct_asym.id Z _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 E SG CYS 11 F CYS 24 1_555 E SG CYS 45 F CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? covale ? covale1 P C HIS 40 Q HIS 117 1_555 P N 2MR 41 Q 2MR 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 P C 2MR 41 Q 2MR 118 1_555 P N GLY 42 Q GLY 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 A SG CYS 354 A CYS 379 1_555 S FE4 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc2 A SG CYS 357 A CYS 382 1_555 S FE1 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc3 A SG CYS 360 A CYS 385 1_555 S FE3 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc4 A SG CYS 400 A CYS 425 1_555 S FE2 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc5 B SG CYS 77 B CYS 113 1_555 U FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc6 B SG CYS 80 B CYS 116 1_555 U FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc7 B SG CYS 83 B CYS 119 1_555 U FE3 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc8 B SG CYS 87 B CYS 123 1_555 V FE1 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc9 B SG CYS 116 B CYS 152 1_555 V FE2 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc10 B SG CYS 119 B CYS 155 1_555 V FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc11 B SG CYS 122 B CYS 158 1_555 V FE3 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc12 B SG CYS 126 B CYS 162 1_555 U FE4 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc13 C SG CYS 31 C CYS 71 1_555 W FE3 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc14 C SG CYS 32 C CYS 72 1_555 W FE2 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc15 C SG CYS 96 C CYS 136 1_555 W FE4 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc16 C SG CYS 126 C CYS 166 1_555 W FE1 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc17 L SG CYS 36 M CYS 64 1_555 EA FE2 FES . M FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc18 L SG CYS 47 M CYS 75 1_555 EA FE2 FES . M FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc19 L SG CYS 50 M CYS 78 1_555 EA FE1 FES . M FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc20 L SG CYS 64 M CYS 92 1_555 EA FE1 FES . M FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc21 L NE2 HIS 96 M HIS 124 1_555 CA FE3 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc22 L SG CYS 100 M CYS 128 1_555 CA FE2 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc23 L SG CYS 103 M CYS 131 1_555 CA FE1 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc24 L SG CYS 109 M CYS 137 1_555 CA FE4 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc25 L SG CYS 148 M CYS 176 1_555 DA FE4 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc26 L SG CYS 151 M CYS 179 1_555 DA FE1 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc27 L SG CYS 154 M CYS 182 1_555 DA FE3 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc28 L O ILE 195 M ILE 223 1_555 FA MG MG . M MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc29 L SG CYS 198 M CYS 226 1_555 DA FE2 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc30 L O CYS 198 M CYS 226 1_555 FA MG MG . M MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.95 ? metalc ? metalc31 L O LEU 203 M LEU 231 1_555 FA MG MG . M MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc32 N SG CYS 103 O CYS 135 1_555 HA FE1 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc33 N SG CYS 108 O CYS 140 1_555 HA FE1 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc34 N SG CYS 144 O CYS 176 1_555 HA FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc35 N SG CYS 148 O CYS 180 1_555 HA FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc36 Q SG CYS 59 T CYS 86 1_555 IA ZN ZN . T ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc37 Q NE2 HIS 68 T HIS 95 1_555 IA ZN ZN . T ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc38 Q SG CYS 84 T CYS 111 1_555 IA ZN ZN . T ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? # _chem_comp.formula 'C41 H78 N O8 P' _chem_comp.formula_weight 744.034 _chem_comp.id PEE _chem_comp.mon_nstd_flag n _chem_comp.name 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DOPE # _atom_sites.entry_id 7VYF _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 S 19 SF4 A 1 501 501 SF4 SF4 . T 20 FMN A 1 502 502 FMN FMN . U 19 SF4 B 1 301 301 SF4 SF4 . V 19 SF4 B 1 302 302 SF4 SF4 . W 19 SF4 C 1 301 301 SF4 SF4 . X 21 970 C 1 302 501 970 970 . Y 22 8Q1 G 1 201 201 8Q1 8Q1 . Z 23 PEE J 1 401 311 PEE PEE . AA 24 NDP J 1 402 401 NDP NDP . BA 25 UQ J 1 403 402 UQ UQ . CA 19 SF4 M 1 801 801 SF4 SF4 . DA 19 SF4 M 1 802 802 SF4 SF4 . EA 26 FES M 1 803 803 FES FES . FA 27 MG M 1 804 805 MG MG . GA 28 CDL N 1 201 202 CDL CDL . HA 26 FES O 1 301 301 FES FES . IA 29 ZN T 1 201 150 ZN ZN . # 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 C23 PEE . . . Z 23 106.474 135.926 134.689 1 38.71 ? C23 PEE 401 J 1 HETATM 2 C C22 PEE . . . Z 23 106.401 136.371 136.148 1 38.71 ? C22 PEE 401 J 1 HETATM 3 C C21 PEE . . . Z 23 106.218 137.885 136.287 1 38.71 ? C21 PEE 401 J 1 HETATM 4 C C20 PEE . . . Z 23 105.981 138.306 137.739 1 38.71 ? C20 PEE 401 J 1 HETATM 5 C C19 PEE . . . Z 23 104.774 139.235 137.891 1 38.71 ? C19 PEE 401 J 1 HETATM 6 C C18 PEE . . . Z 23 103.588 138.548 138.572 1 38.71 ? C18 PEE 401 J 1 HETATM 7 C C17 PEE . . . Z 23 102.615 139.551 139.196 1 38.71 ? C17 PEE 401 J 1 HETATM 8 C C16 PEE . . . Z 23 102.979 139.899 140.641 1 38.71 ? C16 PEE 401 J 1 HETATM 9 C C15 PEE . . . Z 23 102.661 141.354 140.995 1 38.71 ? C15 PEE 401 J 1 HETATM 10 C C14 PEE . . . Z 23 102.917 141.671 142.471 1 38.71 ? C14 PEE 401 J 1 HETATM 11 C C13 PEE . . . Z 23 101.641 141.587 143.317 1 38.71 ? C13 PEE 401 J 1 HETATM 12 C C12 PEE . . . Z 23 101.654 142.57 144.496 1 38.71 ? C12 PEE 401 J 1 HETATM 13 C C11 PEE . . . Z 23 102.221 141.944 145.773 1 38.71 ? C11 PEE 401 J 1 HETATM 14 C C10 PEE . . . Z 23 102.636 142.983 146.823 1 38.71 ? C10 PEE 401 J 1 HETATM 15 O O4 PEE . . . Z 23 103.123 144.007 146.488 1 38.71 ? O4 PEE 401 J 1 HETATM 16 O O2 PEE . . . Z 23 102.443 142.714 148.185 1 38.71 ? O2 PEE 401 J 1 HETATM 17 C C2 PEE . . . Z 23 103.622 142.67 148.94 1 38.71 ? C2 PEE 401 J 1 HETATM 18 C C1 PEE . . . Z 23 103.326 143.164 150.353 1 38.71 ? C1 PEE 401 J 1 HETATM 19 O O3P PEE . . . Z 23 103.357 144.566 150.343 1 38.71 ? O3P PEE 401 J 1 HETATM 20 P P PEE . . . Z 23 102.455 145.378 151.462 1 38.71 ? P PEE 401 J 1 HETATM 21 O O2P PEE . . . Z 23 101.994 146.688 150.878 1 38.71 ? O2P PEE 401 J 1 HETATM 22 O O1P PEE . . . Z 23 101.257 144.544 151.832 1 38.71 ? O1P PEE 401 J 1 HETATM 23 O O4P PEE . . . Z 23 103.371 145.669 152.805 1 38.71 ? O4P PEE 401 J 1 HETATM 24 C C4 PEE . . . Z 23 104.604 146.323 152.646 1 38.71 ? C4 PEE 401 J 1 HETATM 25 C C5 PEE . . . Z 23 104.946 147.051 153.947 1 38.71 ? C5 PEE 401 J 1 HETATM 26 N N PEE . . . Z 23 105.439 146.111 154.935 1 38.71 ? N PEE 401 J 1 HETATM 27 C C3 PEE . . . Z 23 104.128 141.234 149.016 1 38.71 ? C3 PEE 401 J 1 HETATM 28 O O3 PEE . . . Z 23 105.212 141.091 148.143 1 38.71 ? O3 PEE 401 J 1 HETATM 29 C C30 PEE . . . Z 23 105.542 139.755 147.884 1 38.71 ? C30 PEE 401 J 1 HETATM 30 O O5 PEE . . . Z 23 105.271 138.917 148.675 1 38.71 ? O5 PEE 401 J 1 HETATM 31 C C31 PEE . . . Z 23 106.253 139.374 146.585 1 38.71 ? C31 PEE 401 J 1 HETATM 32 C C32 PEE . . . Z 23 105.271 139.101 145.443 1 38.71 ? C32 PEE 401 J 1 HETATM 33 C C33 PEE . . . Z 23 105.271 137.632 145.016 1 38.71 ? C33 PEE 401 J 1 HETATM 34 C C34 PEE . . . Z 23 104.087 137.294 144.11 1 38.71 ? C34 PEE 401 J 1 HETATM 35 C C35 PEE . . . Z 23 104.532 136.755 142.746 1 38.71 ? C35 PEE 401 J 1 HETATM 36 C C36 PEE . . . Z 23 103.949 135.372 142.447 1 38.71 ? C36 PEE 401 J 1 HETATM 37 C C37 PEE . . . Z 23 105.03 134.361 142.063 1 38.71 ? C37 PEE 401 J 1 HETATM 38 C C38 PEE . . . Z 23 105.402 134.437 140.584 1 38.71 ? C38 PEE 401 J 1 HETATM 39 C C39 PEE . . . Z 23 106.717 133.725 140.287 1 38.71 ? C39 PEE 401 J 1 HETATM 40 C C40 PEE . . . Z 23 107.404 134.28 139.046 1 38.71 ? C40 PEE 401 J 1 HETATM 41 C C41 PEE . . . Z 23 108.866 133.861 138.95 1 38.71 ? C41 PEE 401 J 1 HETATM 42 C C42 PEE . . . Z 23 109.598 134.609 137.842 1 38.71 ? C42 PEE 401 J 1 HETATM 43 C C43 PEE . . . Z 23 111.03 134.123 137.635 1 38.71 ? C43 PEE 401 J 1 HETATM 44 C C44 PEE . . . Z 23 111.115 132.629 137.354 1 38.71 ? C44 PEE 401 J 1 HETATM 45 C C45 PEE . . . Z 23 111.789 131.854 138.484 1 38.71 ? C45 PEE 401 J 1 HETATM 46 C C46 PEE . . . Z 23 112.542 130.629 137.97 1 38.71 ? C46 PEE 401 J 1 HETATM 47 C C47 PEE . . . Z 23 113.529 130.972 136.855 1 38.71 ? C47 PEE 401 J 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 82 _model_server_stats.query_time_ms 526 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 47 #