data_5M7J # _model_server_result.job_id uwqQJMPIy83vaSJya696_g _model_server_result.datetime_utc '2024-11-08 13:50:27' _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 5m7j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":406}' # _entry.id 5M7J # _exptl.entry_id 5M7J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 356.54 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(Z)-octadec-9-enyl] (2R)-2,3-bis(oxidanyl)propanoate' _entity.pdbx_number_of_molecules 3 _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 5M7J _cell.length_a 57.9 _cell.length_b 84.8 _cell.length_c 384.3 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M7J _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 9 N N N ? 9 O N N ? 9 V 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 D C FME 1 D FME 1 1_555 D N TYR 2 D TYR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A NE2 HIS 111 A HIS 91 1_555 E FE HEC . A HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc2 A NE2 HIS 144 A HIS 124 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? metalc ? metalc3 A NE2 HIS 156 A HIS 136 1_555 F FE HEC . A HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc4 A NE2 HIS 268 A HIS 248 1_555 G FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc5 A NE2 HIS 329 A HIS 309 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc6 B NE2 HIS 191 B HIS 190 1_555 P FE FE2 . B FE2 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc7 B NE2 HIS 231 B HIS 230 1_555 P FE FE2 . B FE2 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? metalc ? metalc8 P FE FE2 . B FE2 307 1_555 C NE2 HIS 218 C HIS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc9 P FE FE2 . B FE2 307 1_555 C OE1 GLU 233 C GLU 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc10 P FE FE2 . B FE2 307 1_555 C OE2 GLU 233 C GLU 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc11 P FE FE2 . B FE2 307 1_555 C NE2 HIS 265 C HIS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? # _chem_comp.formula 'C21 H40 O4' _chem_comp.formula_weight 356.54 _chem_comp.id MPG _chem_comp.mon_nstd_flag . _chem_comp.name '[(Z)-octadec-9-enyl] (2R)-2,3-bis(oxidanyl)propanoate' _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 C2 C3 MPG sing 751 n n C2 C1 MPG sing 752 n n C3 C4 MPG sing 753 n n C4 C5 MPG sing 754 n n C5 C6 MPG sing 755 n n C6 C7 MPG sing 756 n n C7 C8 MPG sing 757 n n C8 C9 MPG sing 758 n n C9 C10 MPG doub 759 z n C10 C11 MPG sing 760 n n C11 C12 MPG sing 761 n n C12 C13 MPG sing 762 n n C13 C14 MPG sing 763 n n C14 C15 MPG sing 764 n n C15 C16 MPG sing 765 n n C16 C17 MPG sing 766 n n C17 C18 MPG sing 767 n n O1 C1 MPG sing 768 n n O1 CX3 MPG sing 769 n n CXD O2 MPG sing 770 n n CXD C21 MPG sing 771 n n CXD CX3 MPG sing 772 n n C21 O3 MPG sing 773 n n C2 H21C MPG sing 774 n n C2 H22C MPG sing 775 n n C3 H31C MPG sing 776 n n C3 H32C MPG sing 777 n n CX3 O4 MPG doub 778 n n C4 H41C MPG sing 779 n n C4 H42C MPG sing 780 n n C5 H51C MPG sing 781 n n C5 H52C MPG sing 782 n n C6 H61C MPG sing 783 n n C6 H62C MPG sing 784 n n C7 H71C MPG sing 785 n n C7 H72C MPG sing 786 n n C8 H81C MPG sing 787 n n C8 H82C MPG sing 788 n n C9 H9 MPG sing 789 n n C10 H10 MPG sing 790 n n C11 H111 MPG sing 791 n n C11 H112 MPG sing 792 n n C12 H121 MPG sing 793 n n C12 H122 MPG sing 794 n n C13 H131 MPG sing 795 n n C13 H132 MPG sing 796 n n C14 H141 MPG sing 797 n n C14 H142 MPG sing 798 n n C15 H151 MPG sing 799 n n C15 H152 MPG sing 800 n n C16 H161 MPG sing 801 n n C16 H162 MPG sing 802 n n C17 H171 MPG sing 803 n n C17 H172 MPG sing 804 n n C18 H181 MPG sing 805 n n C18 H182 MPG sing 806 n n C18 H183 MPG sing 807 n n C1 HX31 MPG sing 808 n n C1 HX32 MPG sing 809 n n CXD HXD MPG sing 810 n n O2 H2 MPG sing 811 n n C21 H211 MPG sing 812 n n C21 H212 MPG sing 813 n n O3 H3 MPG sing 814 n n # _atom_sites.entry_id 5M7J _atom_sites.fract_transf_matrix[1][1] 0.017271 _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] 0.011792 _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] 0.002602 _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 5 HEC A 1 401 1333 HEC HEM . F 5 HEC A 1 402 1334 HEC HEM . G 5 HEC A 1 403 1335 HEC HEM . H 5 HEC A 1 404 1336 HEC HEM . I 6 DGA A 1 405 1278 DGA DGA . J 7 BCL B 1 301 1274 BCL BCL . K 7 BCL B 1 302 1275 BCL BCL . L 7 BCL B 1 303 1276 BCL BCL . M 8 BPB B 1 304 1277 BPB BPB . N 9 MPG B 1 305 1279 MPG MPG . O 9 MPG B 1 306 1280 MPG MPG . P 10 FE2 B 1 307 1326 FE2 FE2 . Q 7 BCL C 1 401 1324 BCL BCL . R 8 BPB C 1 402 1325 BPB BPB . S 11 MQ7 C 1 403 1327 MQ7 MQ7 . T 12 NS5 C 1 404 1328 NS5 NS5 . U 13 OTP C 1 405 1329 OTP OTP . V 9 MPG C 1 406 1330 MPG MPG . W 14 PO4 C 1 407 1331 PO4 PO4 . X 14 PO4 C 1 408 1332 PO4 PO4 . # 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 C2 MPG . . . V 9 1.804 -48.305 29.732 1 72.6 ? C2 MPG 406 C 1 HETATM 2 C C3 MPG . . . V 9 0.929 -47.174 30.335 1 61.24 ? C3 MPG 406 C 1 HETATM 3 C C4 MPG . . . V 9 0.713 -46.066 29.27 1 67.49 ? C4 MPG 406 C 1 HETATM 4 C C5 MPG . . . V 9 0.782 -44.654 29.979 1 81.93 ? C5 MPG 406 C 1 HETATM 5 C C6 MPG . . . V 9 2.252 -44.341 30.342 1 70.96 ? C6 MPG 406 C 1 HETATM 6 C C7 MPG . . . V 9 2.329 -43.674 31.751 1 66.01 ? C7 MPG 406 C 1 HETATM 7 C C8 MPG . . . V 9 1.562 -42.352 31.745 1 70.94 ? C8 MPG 406 C 1 HETATM 8 C C9 MPG . . . V 9 1.077 -42.006 33.182 1 76.7 ? C9 MPG 406 C 1 HETATM 9 C C10 MPG . . . V 9 0.443 -40.802 33.414 1 87.09 ? C10 MPG 406 C 1 HETATM 10 C C11 MPG . . . V 9 -0.053 -40.428 34.842 1 106.12 ? C11 MPG 406 C 1 HETATM 11 C C12 MPG . . . V 9 -0.392 -38.968 34.883 1 107.14 ? C12 MPG 406 C 1 HETATM 12 C C13 MPG . . . V 9 0.562 -38.25 35.849 1 104 ? C13 MPG 406 C 1 HETATM 13 C C14 MPG . . . V 9 0.29 -36.727 35.801 1 96.6 ? C14 MPG 406 C 1 HETATM 14 C C15 MPG . . . V 9 0.828 -36.082 37.072 1 101.76 ? C15 MPG 406 C 1 HETATM 15 C C16 MPG . . . V 9 1.361 -34.641 36.743 1 97.15 ? C16 MPG 406 C 1 HETATM 16 C C17 MPG . . . V 9 2.295 -34.171 37.884 1 103.05 ? C17 MPG 406 C 1 HETATM 17 C C18 MPG . . . V 9 3.093 -32.94 37.436 1 79.67 ? C18 MPG 406 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 17 #