data_5D56
#
_model_server_result.job_id            Bfrr-9UUN-Ds3nmT_hMADw 
_model_server_result.datetime_utc      '2024-11-27 14:51:38' 
_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          5d56 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":201}' 
#
_entry.id    5D56 
#
_exptl.entry_id    5D56 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              314.46 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE 
_entity.pdbx_number_of_molecules    11 
_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            5D56 
_cell.length_a            74.8 
_cell.length_b            93.04 
_cell.length_c            143.05 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5D56 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA trimeric 3 author_and_software_defined_assembly 1 
PISA trimeric 3 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,G,H,I,J,K,L,M,N,U,V 1 1 
D,E,F,O,P,Q,R,S,T,W,X 2 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
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 R N N 
? 2 S N N 
? 2 T 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
metalc ? metalc1 D OE1 GLU 37 D GLU 28 1_555 O ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? 
metalc ? metalc2 D OE2 GLU 37 D GLU 28 1_555 O ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? 
metalc ? metalc3 D OE1 GLU 85 D GLU 76 1_555 O ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc4 D OE2 GLU 85 D GLU 76 1_555 O ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? 
#
_chem_comp.formula           'C18 H34 O4' 
_chem_comp.formula_weight    314.46 
_chem_comp.id                78M 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '7.8 MONOACYLGLYCEROL' 
#
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
O21 C20 78M sing 1 n n 
C20 C18 78M sing 2 n n 
C18 O19 78M sing 3 n n 
C18 C17 78M sing 4 n n 
C17 O2 78M sing 5 n n 
O2 C1 78M sing 6 n n 
C1 O1 78M doub 7 n n 
C1 C2 78M sing 8 n n 
C2 C3 78M sing 9 n n 
C3 C4 78M sing 10 n n 
C4 C5 78M sing 11 n n 
C5 C6 78M sing 12 n n 
C6 C7 78M sing 13 n n 
C7 C8 78M doub 14 z n 
C8 C9 78M sing 15 n n 
C9 C10 78M sing 16 n n 
C10 C11 78M sing 17 n n 
C11 C12 78M sing 18 n n 
C12 C13 78M sing 19 n n 
C15 C14 78M sing 20 n n 
C13 C14 78M sing 21 n n 
O21 H21 78M sing 22 n n 
C20 H201 78M sing 23 n n 
C20 H202 78M sing 24 n n 
C18 H18 78M sing 25 n n 
O19 H19 78M sing 26 n n 
C17 H171 78M sing 27 n n 
C17 H172 78M sing 28 n n 
C2 H21C 78M sing 29 n n 
C2 H22C 78M sing 30 n n 
C3 H31C 78M sing 31 n n 
C3 H32C 78M sing 32 n n 
C4 H41C 78M sing 33 n n 
C4 H42C 78M sing 34 n n 
C5 H51C 78M sing 35 n n 
C5 H52C 78M sing 36 n n 
C6 H61C 78M sing 37 n n 
C6 H62C 78M sing 38 n n 
C7 H7 78M sing 39 n n 
C8 H8 78M sing 40 n n 
C9 H91C 78M sing 41 n n 
C9 H92C 78M sing 42 n n 
C10 H101 78M sing 43 n n 
C10 H102 78M sing 44 n n 
C11 H111 78M sing 45 n n 
C11 H112 78M sing 46 n n 
C12 H121 78M sing 47 n n 
C12 H122 78M sing 48 n n 
C13 H131 78M sing 49 n n 
C13 H132 78M sing 50 n n 
C15 H151 78M sing 51 n n 
C15 H152 78M sing 52 n n 
C15 H153 78M sing 53 n n 
C14 H141 78M sing 54 n n 
C14 H142 78M sing 55 n n 
#
_atom_sites.entry_id                     5D56 
_atom_sites.fract_transf_matrix[1][1]    0.013369 
_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]    0.010748 
_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]    0.006991 
_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
G 2 78M A 1 201 1 78M 78M . 
H 2 78M A 1 202 2 78M 78M . 
I 2 78M A 1 203 13 78M 78M . 
J 2 78M A 1 204 14 78M 78M . 
K 2 78M B 1 201 1118 78M 78M . 
L 2 78M B 1 202 3 78M 78M . 
M 2 78M B 1 203 5 78M 78M . 
N 2 78M C 1 201 6 78M 78M . 
O 3 ZN D 1 201 1116 ZN ZN . 
P 4 FLC D 1 202 1115 FLC FLC . 
Q 5 ACT D 1 203 1114 ACT ACT . 
R 2 78M D 1 204 1119 78M 78M . 
S 2 78M D 1 205 1117 78M 78M . 
T 2 78M D 1 206 8 78M 78M . 
U 6 HOH A 1 301 68 HOH HOH . 
U 6 HOH A 2 302 58 HOH HOH . 
U 6 HOH A 3 303 82 HOH HOH . 
V 6 HOH B 1 301 83 HOH HOH . 
W 6 HOH D 1 301 77 HOH HOH . 
W 6 HOH D 2 302 51 HOH HOH . 
W 6 HOH D 3 303 46 HOH HOH . 
W 6 HOH D 4 304 62 HOH HOH . 
W 6 HOH D 5 305 84 HOH HOH . 
X 6 HOH E 1 201 70 HOH HOH . 
X 6 HOH E 2 202 65 HOH HOH . 
X 6 HOH E 3 203 81 HOH HOH . 
X 6 HOH E 4 204 33 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 O O21 78M . . . N 2 104.363 125.725 153.718 1 125.87 ? O21 78M 201 C 1 
HETATM 2 C C20 78M . . . N 2 103.454 125.914 152.644 1 126.76 ? C20 78M 201 C 1 
HETATM 3 C C18 78M . . . N 2 102.424 124.801 152.693 1 134.09 ? C18 78M 201 C 1 
HETATM 4 O O19 78M . . . N 2 103.007 123.578 152.286 1 114.04 ? O19 78M 201 C 1 
HETATM 5 C C17 78M . . . N 2 101.255 125.15 151.781 1 128.65 ? C17 78M 201 C 1 
HETATM 6 O O2 78M . . . N 2 100.874 123.971 151.029 1 144.66 ? O2 78M 201 C 1 
HETATM 7 C C1 78M . . . N 2 99.549 124.008 150.555 1 132.22 ? C1 78M 201 C 1 
HETATM 8 O O1 78M . . . N 2 98.636 124.133 151.337 1 134.53 ? O1 78M 201 C 1 
HETATM 9 C C2 78M . . . N 2 99.273 123.892 149.049 1 96.21 ? C2 78M 201 C 1 
HETATM 10 C C3 78M . . . N 2 97.806 124.235 148.691 1 101.43 ? C3 78M 201 C 1 
HETATM 11 C C4 78M . . . N 2 97.418 123.727 147.266 1 110.33 ? C4 78M 201 C 1 
HETATM 12 C C5 78M . . . N 2 96.985 122.251 147.277 1 97.14 ? C5 78M 201 C 1 
HETATM 13 C C6 78M . . . N 2 97.123 121.582 145.879 1 90.49 ? C6 78M 201 C 1 
HETATM 14 C C7 78M . . . N 2 98.392 120.734 145.773 1 94.61 ? C7 78M 201 C 1 
HETATM 15 C C8 78M . . . N 2 98.85 120.302 144.534 1 102.47 ? C8 78M 201 C 1 
HETATM 16 C C9 78M . . . N 2 98.109 120.66 143.279 1 67.88 ? C9 78M 201 C 1 
HETATM 17 C C10 78M . . . N 2 99.06 120.584 142.036 1 73.75 ? C10 78M 201 C 1 
HETATM 18 C C11 78M . . . N 2 98.744 121.685 141.026 1 91.9 ? C11 78M 201 C 1 
HETATM 19 C C12 78M . . . N 2 99.908 121.907 140.049 1 105.34 ? C12 78M 201 C 1 
HETATM 20 C C13 78M . . . N 2 99.59 122.975 139.003 1 98.41 ? C13 78M 201 C 1 
HETATM 21 C C15 78M . . . N 2 100.658 122.286 136.81 1 64.07 ? C15 78M 201 C 1 
HETATM 22 C C14 78M . . . N 2 100.728 123.185 138.027 1 96.56 ? C14 78M 201 C 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           22 
#