data_5M7L
#
_model_server_result.job_id            QPep7mV3v4EYL_IACW-bhg 
_model_server_result.datetime_utc      '2024-10-14 06:22:34' 
_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          5m7l 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":306}' 
#
_entry.id    5M7L 
#
_exptl.entry_id    5M7L 
_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            5M7L 
_cell.length_a            57.6 
_cell.length_b            82.9 
_cell.length_c            382.1 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M7L 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? 
metalc ? metalc2 A NE2 HIS 144 A HIS 124 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc3 A NE2 HIS 156 A HIS 136 1_555 F FE HEC . A HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc4 A NE2 HIS 268 A HIS 248 1_555 G FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? 
metalc ? metalc5 A NE2 HIS 329 A HIS 309 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc6 B NE2 HIS 191 B HIS 190 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? 
metalc ? metalc7 B NE2 HIS 231 B HIS 230 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.601 ? 
metalc ? metalc8 C NE2 HIS 218 C HIS 217 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? 
metalc ? metalc9 C OE1 GLU 233 C GLU 232 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? 
metalc ? metalc10 C OE2 GLU 233 C GLU 232 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? 
metalc ? metalc11 C NE2 HIS 265 C HIS 264 1_555 R FE FE2 . C FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? 
#
_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                     5M7L 
_atom_sites.fract_transf_matrix[1][1]    0.017361 
_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]    0.012063 
_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]    0.002617 
_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 7 BCL C 1 401 1324 BCL BCL . 
Q 8 BPB C 1 402 1325 BPB BPB . 
R 10 FE2 C 1 403 1326 FE2 FE2 . 
S 11 MQ7 C 1 404 1327 MQ7 MQ7 . 
T 12 NS5 C 1 405 1328 NS5 NS5 . 
U 13 OTP C 1 406 1329 OTP OTP . 
V 9 MPG C 1 407 1330 MPG MPG . 
W 14 PO4 C 1 408 1331 PO4 PO4 . 
X 14 PO4 C 1 409 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 . . . O 9 -1.571 -27.583 -34.172 1 106.43 ? C2 MPG 306 B 1 
HETATM 2 C C3 MPG . . . O 9 -1.714 -28.555 -35.379 1 88.76 ? C3 MPG 306 B 1 
HETATM 3 C C4 MPG . . . O 9 -1.507 -27.768 -36.707 1 86.52 ? C4 MPG 306 B 1 
HETATM 4 C C5 MPG . . . O 9 -0.781 -28.669 -37.79 1 76.43 ? C5 MPG 306 B 1 
HETATM 5 C C6 MPG . . . O 9 0.634 -28.104 -38.066 1 76.31 ? C6 MPG 306 B 1 
HETATM 6 C C7 MPG . . . O 9 1.341 -28.948 -39.173 1 77.38 ? C7 MPG 306 B 1 
HETATM 7 C C8 MPG . . . O 9 2.833 -28.608 -39.268 1 77.69 ? C8 MPG 306 B 1 
HETATM 8 C C9 MPG . . . O 9 3.585 -29.847 -39.843 1 79.7 ? C9 MPG 306 B 1 
HETATM 9 C C10 MPG . . . O 9 4.84 -29.771 -40.423 1 79.46 ? C10 MPG 306 B 1 
HETATM 10 C C11 MPG . . . O 9 5.63 -28.434 -40.555 1 94.17 ? C11 MPG 306 B 1 
HETATM 11 C C12 MPG . . . O 9 7.094 -28.689 -40.316 1 94.89 ? C12 MPG 306 B 1 
HETATM 12 C C13 MPG . . . O 9 7.801 -29.189 -41.591 1 94.27 ? C13 MPG 306 B 1 
HETATM 13 C C14 MPG . . . O 9 8.627 -28.04 -42.234 1 116.64 ? C14 MPG 306 B 1 
HETATM 14 C C15 MPG . . . O 9 9.97 -28.548 -42.762 1 116.89 ? C15 MPG 306 B 1 
HETATM 15 C C16 MPG . . . O 9 10.65 -27.48 -43.709 1 86.63 ? C16 MPG 306 B 1 
HETATM 16 C C17 MPG . . . O 9 11.641 -26.583 -42.921 1 80.34 ? C17 MPG 306 B 1 
HETATM 17 C C18 MPG . . . O 9 12.381 -25.64 -43.879 1 80.45 ? C18 MPG 306 B 1 
HETATM 18 O O1 MPG . . . O 9 -1.943 -27.37 -31.767 1 108.59 ? O1 MPG 306 B 1 
HETATM 19 C C1 MPG . . . O 9 -2.316 -28.116 -32.945 1 107.48 ? C1 MPG 306 B 1 
HETATM 20 C CXD MPG . . . O 9 -3.022 -25.807 -30.032 1 110.18 ? CXD MPG 306 B 1 
HETATM 21 O O2 MPG . . . O 9 -3.296 -24.449 -30.021 1 110 ? O2 MPG 306 B 1 
HETATM 22 C C21 MPG . . . O 9 -1.815 -26.075 -29.163 1 111.15 ? C21 MPG 306 B 1 
HETATM 23 O O3 MPG . . . O 9 -2.194 -26.771 -27.978 1 112.17 ? O3 MPG 306 B 1 
HETATM 24 O O4 MPG . . . O 9 -3.302 -25.642 -32.369 1 107.57 ? O4 MPG 306 B 1 
HETATM 25 C CX3 MPG . . . O 9 -2.778 -26.25 -31.471 1 108.68 ? CX3 MPG 306 B 1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           290 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           25 
#