data_6VYI
#
_model_server_result.job_id            QjjMFf58aivmc8Vpolf31g 
_model_server_result.datetime_utc      '2024-11-23 06:05:16' 
_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          6vyi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    6VYI 
#
_exptl.entry_id    6VYI 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              717.996 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate' 
_entity.pdbx_number_of_molecules    4 
_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            6VYI 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VYI 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
#
_chem_comp.formula           'C39 H76 N O8 P' 
_chem_comp.formula_weight    717.996 
_chem_comp.id                6OU 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate' 
_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
C48 C47 6OU sing 1 n n 
C48 C49 6OU sing 2 n n 
C47 C46 6OU sing 3 n n 
C41 C40 6OU doub 4 z n 
C41 C42 6OU sing 5 n n 
C40 C39 6OU sing 6 n n 
C27 C28 6OU sing 7 n n 
C27 O26 6OU sing 8 n n 
C28 N29 6OU sing 9 n n 
C01 C02 6OU sing 10 n n 
C42 C43 6OU sing 11 n n 
C02 C03 6OU sing 12 n n 
C45 C46 6OU sing 13 n n 
C45 C44 6OU sing 14 n n 
C39 C38 6OU sing 15 n n 
C33 C34 6OU sing 16 n n 
C33 C31 6OU sing 17 n n 
C44 C43 6OU sing 18 n n 
O26 P23 6OU sing 19 n n 
O24 P23 6OU doub 20 n n 
C35 C34 6OU sing 21 n n 
C35 C36 6OU sing 22 n n 
C38 C37 6OU sing 23 n n 
C36 C37 6OU sing 24 n n 
C31 O30 6OU sing 25 n n 
C31 O32 6OU doub 26 n n 
O22 P23 6OU sing 27 n n 
O22 C21 6OU sing 28 n n 
O30 C20 6OU sing 29 n n 
P23 O25 6OU sing 30 n n 
C03 C04 6OU sing 31 n n 
C04 C05 6OU sing 32 n n 
C19 C20 6OU sing 33 n n 
C19 O18 6OU sing 34 n n 
C21 C20 6OU sing 35 n n 
C15 C14 6OU sing 36 n n 
C15 C16 6OU sing 37 n n 
O18 C16 6OU sing 38 n n 
C14 C13 6OU sing 39 n n 
C05 C06 6OU sing 40 n n 
C16 O17 6OU doub 41 n n 
C06 C07 6OU sing 42 n n 
C11 C10 6OU sing 43 n n 
C11 C12 6OU sing 44 n n 
C13 C12 6OU sing 45 n n 
C10 C09 6OU sing 46 n n 
C07 C08 6OU sing 47 n n 
C09 C08 6OU sing 48 n n 
C01 H1 6OU sing 49 n n 
C01 H2 6OU sing 50 n n 
C01 H3 6OU sing 51 n n 
C02 H4 6OU sing 52 n n 
C02 H5 6OU sing 53 n n 
C03 H6 6OU sing 54 n n 
C03 H7 6OU sing 55 n n 
C04 H8 6OU sing 56 n n 
C04 H9 6OU sing 57 n n 
C05 H10 6OU sing 58 n n 
C05 H11 6OU sing 59 n n 
C06 H12 6OU sing 60 n n 
C06 H13 6OU sing 61 n n 
C07 H14 6OU sing 62 n n 
C07 H15 6OU sing 63 n n 
C08 H16 6OU sing 64 n n 
C08 H17 6OU sing 65 n n 
C09 H18 6OU sing 66 n n 
C09 H19 6OU sing 67 n n 
C10 H20 6OU sing 68 n n 
C10 H21 6OU sing 69 n n 
C11 H22 6OU sing 70 n n 
C11 H23 6OU sing 71 n n 
C12 H24 6OU sing 72 n n 
C12 H25 6OU sing 73 n n 
C13 H26 6OU sing 74 n n 
C13 H27 6OU sing 75 n n 
C14 H28 6OU sing 76 n n 
C14 H29 6OU sing 77 n n 
C15 H30 6OU sing 78 n n 
C15 H31 6OU sing 79 n n 
C19 H32 6OU sing 80 n n 
C19 H33 6OU sing 81 n n 
C20 H34 6OU sing 82 n n 
C21 H35 6OU sing 83 n n 
C21 H36 6OU sing 84 n n 
O25 H37 6OU sing 85 n n 
C27 H38 6OU sing 86 n n 
C27 H39 6OU sing 87 n n 
C28 H40 6OU sing 88 n n 
C28 H41 6OU sing 89 n n 
N29 H42 6OU sing 90 n n 
N29 H43 6OU sing 91 n n 
C33 H45 6OU sing 92 n n 
C33 H46 6OU sing 93 n n 
C34 H47 6OU sing 94 n n 
C34 H48 6OU sing 95 n n 
C35 H49 6OU sing 96 n n 
C35 H50 6OU sing 97 n n 
C36 H51 6OU sing 98 n n 
C36 H52 6OU sing 99 n n 
C37 H53 6OU sing 100 n n 
C37 H54 6OU sing 101 n n 
C38 H55 6OU sing 102 n n 
C38 H56 6OU sing 103 n n 
C39 H57 6OU sing 104 n n 
C39 H58 6OU sing 105 n n 
C40 H59 6OU sing 106 n n 
C41 H60 6OU sing 107 n n 
C42 H61 6OU sing 108 n n 
C42 H62 6OU sing 109 n n 
C43 H63 6OU sing 110 n n 
C43 H64 6OU sing 111 n n 
C44 H65 6OU sing 112 n n 
C44 H66 6OU sing 113 n n 
C45 H67 6OU sing 114 n n 
C45 H68 6OU sing 115 n n 
C46 H69 6OU sing 116 n n 
C46 H70 6OU sing 117 n n 
C47 H71 6OU sing 118 n n 
C47 H72 6OU sing 119 n n 
C48 H73 6OU sing 120 n n 
C48 H74 6OU sing 121 n n 
C49 H75 6OU sing 122 n n 
C49 H76 6OU sing 123 n n 
C49 H77 6OU sing 124 n n 
#
_atom_sites.entry_id                     6VYI 
_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
C 2 6OU A 1 501 1 6OU PPE . 
D 2 6OU A 1 502 2 6OU PPE . 
E 2 6OU A 1 503 3 6OU PPE . 
F 2 6OU B 1 501 4 6OU PPE . 
#
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 C01 6OU . . . D 2 95.154 116.833 118.943 1 47.46 ? C01 6OU 502 A 1 
HETATM 2 C C02 6OU . . . D 2 94.579 117.879 118.026 1 47.46 ? C02 6OU 502 A 1 
HETATM 3 C C03 6OU . . . D 2 95.376 118.059 116.746 1 47.46 ? C03 6OU 502 A 1 
HETATM 4 C C04 6OU . . . D 2 94.772 119.06 115.768 1 47.46 ? C04 6OU 502 A 1 
HETATM 5 C C05 6OU . . . D 2 95.427 119.059 114.395 1 47.46 ? C05 6OU 502 A 1 
HETATM 6 C C06 6OU . . . D 2 94.712 119.908 113.351 1 47.46 ? C06 6OU 502 A 1 
HETATM 7 C C07 6OU . . . D 2 95.24 119.707 111.939 1 47.46 ? C07 6OU 502 A 1 
HETATM 8 C C08 6OU . . . D 2 94.918 118.344 111.363 1 47.46 ? C08 6OU 502 A 1 
HETATM 9 C C09 6OU . . . D 2 95.98 117.782 110.431 1 47.46 ? C09 6OU 502 A 1 
HETATM 10 C C10 6OU . . . D 2 96.264 118.627 109.204 1 47.46 ? C10 6OU 502 A 1 
HETATM 11 C C11 6OU . . . D 2 97.26 117.986 108.252 1 47.46 ? C11 6OU 502 A 1 
HETATM 12 C C12 6OU . . . D 2 97.577 118.811 107.016 1 47.46 ? C12 6OU 502 A 1 
HETATM 13 C C13 6OU . . . D 2 98.528 118.12 106.056 1 47.46 ? C13 6OU 502 A 1 
HETATM 14 C C14 6OU . . . D 2 98.621 118.786 104.704 1 47.46 ? C14 6OU 502 A 1 
HETATM 15 C C15 6OU . . . D 2 99.159 117.858 103.624 1 47.46 ? C15 6OU 502 A 1 
HETATM 16 C C16 6OU . . . D 2 100.649 117.729 103.626 1 47.46 ? C16 6OU 502 A 1 
HETATM 17 O O17 6OU . . . D 2 101.264 116.828 103.129 1 47.46 ? O17 6OU 502 A 1 
HETATM 18 O O18 6OU . . . D 2 101.216 118.763 104.239 1 47.46 ? O18 6OU 502 A 1 
HETATM 19 C C19 6OU . . . D 2 102.661 118.805 104.259 1 47.46 ? C19 6OU 502 A 1 
HETATM 20 C C20 6OU . . . D 2 103.099 120.238 104.16 1 47.46 ? C20 6OU 502 A 1 
HETATM 21 C C21 6OU . . . D 2 104.168 120.382 103.125 1 47.46 ? C21 6OU 502 A 1 
HETATM 22 O O22 6OU . . . D 2 103.738 119.617 101.985 1 47.46 ? O22 6OU 502 A 1 
HETATM 23 P P23 6OU . . . D 2 104.469 118.836 100.853 1 47.46 ? P23 6OU 502 A 1 
HETATM 24 O O24 6OU . . . D 2 103.496 117.769 100.404 1 47.46 ? O24 6OU 502 A 1 
HETATM 25 O O25 6OU . . . D 2 105.777 118.319 101.287 1 47.46 ? O25 6OU 502 A 1 
HETATM 26 O O26 6OU . . . D 2 104.556 119.941 99.712 1 47.46 ? O26 6OU 502 A 1 
HETATM 27 C C27 6OU . . . D 2 104.124 121.321 99.797 1 47.46 ? C27 6OU 502 A 1 
HETATM 28 C C28 6OU . . . D 2 104.971 122.176 98.844 1 47.46 ? C28 6OU 502 A 1 
HETATM 29 N N29 6OU . . . D 2 104.789 121.556 97.542 1 47.46 ? N29 6OU 502 A 1 
HETATM 30 O O30 6OU . . . D 2 103.657 120.645 105.444 1 47.46 ? O30 6OU 502 A 1 
HETATM 31 C C31 6OU . . . D 2 103.099 121.7 106.049 1 47.46 ? C31 6OU 502 A 1 
HETATM 32 O O32 6OU . . . D 2 102.201 122.344 105.579 1 47.46 ? O32 6OU 502 A 1 
HETATM 33 C C33 6OU . . . D 2 103.729 121.951 107.383 1 47.46 ? C33 6OU 502 A 1 
HETATM 34 C C34 6OU . . . D 2 104.07 120.669 108.129 1 47.46 ? C34 6OU 502 A 1 
HETATM 35 C C35 6OU . . . D 2 104.236 120.869 109.62 1 47.46 ? C35 6OU 502 A 1 
HETATM 36 C C36 6OU . . . D 2 102.962 121.295 110.331 1 47.46 ? C36 6OU 502 A 1 
HETATM 37 C C37 6OU . . . D 2 102.808 122.793 110.521 1 47.46 ? C37 6OU 502 A 1 
HETATM 38 C C38 6OU . . . D 2 101.419 123.224 110.942 1 47.46 ? C38 6OU 502 A 1 
HETATM 39 C C39 6OU . . . D 2 100.956 122.63 112.262 1 47.46 ? C39 6OU 502 A 1 
HETATM 40 C C40 6OU . . . D 2 99.709 123.289 112.752 1 47.46 ? C40 6OU 502 A 1 
HETATM 41 C C41 6OU . . . D 2 98.565 122.7 113.024 1 47.46 ? C41 6OU 502 A 1 
HETATM 42 C C42 6OU . . . D 2 97.328 123.382 113.512 1 47.46 ? C42 6OU 502 A 1 
HETATM 43 C C43 6OU . . . D 2 96.665 122.686 114.697 1 47.46 ? C43 6OU 502 A 1 
HETATM 44 C C44 6OU . . . D 2 95.417 123.396 115.193 1 47.46 ? C44 6OU 502 A 1 
HETATM 45 C C45 6OU . . . D 2 94.6 122.6 116.196 1 47.46 ? C45 6OU 502 A 1 
HETATM 46 C C46 6OU . . . D 2 95.287 122.371 117.528 1 47.46 ? C46 6OU 502 A 1 
HETATM 47 C C47 6OU . . . D 2 95.601 123.651 118.28 1 47.46 ? C47 6OU 502 A 1 
HETATM 48 C C48 6OU . . . D 2 94.398 124.533 118.54 1 47.46 ? C48 6OU 502 A 1 
HETATM 49 C C49 6OU . . . D 2 94.746 125.803 119.278 1 47.46 ? C49 6OU 502 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           367 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           49 
#