data_2BRD # _model_server_result.job_id rWV1q3dRPfs41W2dNzQQ_A _model_server_result.datetime_utc '2024-12-01 01:13:02' _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 2brd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":265}' # _entry.id 2BRD # _exptl.entry_id 2BRD _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _entity.details ? _entity.formula_weight 887.195 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHORIC ACID 2,3-BIS-(3,7,11,15-TETRAMETHYL-HEXADECYLOXY)-PROPYL ESTER 2-HYDROXO-3-PHOSPHONOOXY-PROPYL ESTER' _entity.pdbx_number_of_molecules 10 _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 120 _cell.entry_id 2BRD _cell.length_a 62.45 _cell.length_b 62.45 _cell.length_c 100.9 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2BRD _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 3' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 216 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 216 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id L _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 271 _struct_conn.ptnr2_symmetry 1_555 _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 1.312 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C46 H96 O11 P2' _chem_comp.formula_weight 887.195 _chem_comp.id DPG _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHORIC ACID 2,3-BIS-(3,7,11,15-TETRAMETHYL-HEXADECYLOXY)-PROPYL ESTER 2-HYDROXO-3-PHOSPHONOOXY-PROPYL ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DPHPG # 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 C1 C2 DPG sing 70 n n C1 O1 DPG sing 71 n n C1 H11 DPG sing 72 n n C1 H12 DPG sing 73 n n C2 C3 DPG sing 74 n n C2 O2 DPG sing 75 n n C2 H2 DPG sing 76 n n C3 O3 DPG sing 77 n n C3 H31 DPG sing 78 n n C3 H32 DPG sing 79 n n C4 C5 DPG sing 80 n n C4 O6 DPG sing 81 n n C4 H41 DPG sing 82 n n C4 H42 DPG sing 83 n n C5 C6 DPG sing 84 n n C5 O7 DPG sing 85 n n C5 H5 DPG sing 86 n n C6 O8 DPG sing 87 n n C6 H61 DPG sing 88 n n C6 H62 DPG sing 89 n n C11 C12 DPG sing 90 n n C11 O1 DPG sing 91 n n C11 H111 DPG sing 92 n n C11 H112 DPG sing 93 n n C12 C13 DPG sing 94 n n C12 H121 DPG sing 95 n n C12 H122 DPG sing 96 n n C13 C14 DPG sing 97 n n C13 C15 DPG sing 98 n n C13 H13 DPG sing 99 n n C14 H141 DPG sing 100 n n C14 H142 DPG sing 101 n n C14 H143 DPG sing 102 n n C15 C16 DPG sing 103 n n C15 H151 DPG sing 104 n n C15 H152 DPG sing 105 n n C16 C17 DPG sing 106 n n C16 H161 DPG sing 107 n n C16 H162 DPG sing 108 n n C17 C18 DPG sing 109 n n C17 H171 DPG sing 110 n n C17 H172 DPG sing 111 n n C18 C19 DPG sing 112 n n C18 C20 DPG sing 113 n n C18 H18 DPG sing 114 n n C19 H191 DPG sing 115 n n C19 H192 DPG sing 116 n n C19 H193 DPG sing 117 n n C20 C21 DPG sing 118 n n C20 H201 DPG sing 119 n n C20 H202 DPG sing 120 n n C21 C22 DPG sing 121 n n C21 H211 DPG sing 122 n n C21 H212 DPG sing 123 n n C22 C23 DPG sing 124 n n C22 H221 DPG sing 125 n n C22 H222 DPG sing 126 n n C23 C24 DPG sing 127 n n C23 C25 DPG sing 128 n n C23 H23 DPG sing 129 n n C24 H241 DPG sing 130 n n C24 H242 DPG sing 131 n n C24 H243 DPG sing 132 n n C25 C26 DPG sing 133 n n C25 H251 DPG sing 134 n n C25 H252 DPG sing 135 n n C26 C27 DPG sing 136 n n C26 H261 DPG sing 137 n n C26 H262 DPG sing 138 n n C27 C28 DPG sing 139 n n C27 H271 DPG sing 140 n n C27 H272 DPG sing 141 n n C28 C29 DPG sing 142 n n C28 C30 DPG sing 143 n n C28 H28 DPG sing 144 n n C29 H291 DPG sing 145 n n C29 H292 DPG sing 146 n n C29 H293 DPG sing 147 n n C30 H301 DPG sing 148 n n C30 H302 DPG sing 149 n n C30 H303 DPG sing 150 n n C41 C42 DPG sing 151 n n C41 O2 DPG sing 152 n n C41 H411 DPG sing 153 n n C41 H412 DPG sing 154 n n C42 C43 DPG sing 155 n n C42 H421 DPG sing 156 n n C42 H422 DPG sing 157 n n C43 C44 DPG sing 158 n n C43 C45 DPG sing 159 n n C43 H43 DPG sing 160 n n C44 H441 DPG sing 161 n n C44 H442 DPG sing 162 n n C44 H443 DPG sing 163 n n C45 C46 DPG sing 164 n n C45 H451 DPG sing 165 n n C45 H452 DPG sing 166 n n C46 C47 DPG sing 167 n n C46 H461 DPG sing 168 n n C46 H462 DPG sing 169 n n C47 C48 DPG sing 170 n n C47 H471 DPG sing 171 n n C47 H472 DPG sing 172 n n C48 C49 DPG sing 173 n n C48 C50 DPG sing 174 n n C48 H48 DPG sing 175 n n C49 H491 DPG sing 176 n n C49 H492 DPG sing 177 n n C49 H493 DPG sing 178 n n C50 C51 DPG sing 179 n n C50 H501 DPG sing 180 n n C50 H502 DPG sing 181 n n C51 C52 DPG sing 182 n n C51 H511 DPG sing 183 n n C51 H512 DPG sing 184 n n C52 C53 DPG sing 185 n n C52 H521 DPG sing 186 n n C52 H522 DPG sing 187 n n C53 C54 DPG sing 188 n n C53 C55 DPG sing 189 n n C53 H53 DPG sing 190 n n C54 H541 DPG sing 191 n n C54 H542 DPG sing 192 n n C54 H543 DPG sing 193 n n C55 C56 DPG sing 194 n n C55 H551 DPG sing 195 n n C55 H552 DPG sing 196 n n C56 C57 DPG sing 197 n n C56 H561 DPG sing 198 n n C56 H562 DPG sing 199 n n C57 C58 DPG sing 200 n n C57 H571 DPG sing 201 n n C57 H572 DPG sing 202 n n C58 C59 DPG sing 203 n n C58 C60 DPG sing 204 n n C58 H58 DPG sing 205 n n C59 H591 DPG sing 206 n n C59 H592 DPG sing 207 n n C59 H593 DPG sing 208 n n C60 H601 DPG sing 209 n n C60 H602 DPG sing 210 n n C60 H603 DPG sing 211 n n O3 P1 DPG sing 212 n n O4 P1 DPG doub 213 n n O5 P1 DPG sing 214 n n O5 HO5 DPG sing 215 n n O6 P1 DPG sing 216 n n O7 HO7 DPG sing 217 n n O8 P2 DPG sing 218 n n O9 P2 DPG doub 219 n n O10 P2 DPG sing 220 n n O10 HO0 DPG sing 221 n n O11 P2 DPG sing 222 n n O11 HO1 DPG sing 223 n n # _atom_sites.entry_id 2BRD _atom_sites.fract_transf_matrix[1][1] 0.016013 _atom_sites.fract_transf_matrix[1][2] 0.009245 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01849 _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] 0.009911 _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 B 2 DPG A 1 261 261 DPG DPG . C 2 DPG A 1 262 262 DPG DPG . D 2 DPG A 1 263 263 DPG DPG . E 2 DPG A 1 264 264 DPG DPG . F 2 DPG A 1 265 265 DPG DPG . G 2 DPG A 1 266 266 DPG DPG . H 2 DPG A 1 267 267 DPG DPG . I 2 DPG A 1 268 268 DPG DPG . J 2 DPG A 1 269 269 DPG DPG . K 2 DPG A 1 270 270 DPG DPG . L 3 RET A 1 271 216 RET RET . # 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 C1 DPG . . . F 2 31.307 -11.964 -11.106 1 210.37 ? C1 DPG 265 A 1 HETATM 2 C C2 DPG . . . F 2 32.491 -11.058 -11.465 1 212.57 ? C2 DPG 265 A 1 HETATM 3 C C3 DPG . . . F 2 32.911 -11.263 -12.914 1 219.54 ? C3 DPG 265 A 1 HETATM 4 C C4 DPG . . . F 2 31.652 -11.578 -15 1 223.17 ? C4 DPG 265 A 1 HETATM 5 C C5 DPG . . . F 2 30.268 -12.351 -14.914 1 223.19 ? C5 DPG 265 A 1 HETATM 6 C C6 DPG . . . F 2 30.537 -13.826 -14.504 1 223.08 ? C6 DPG 265 A 1 HETATM 7 C C11 DPG . . . F 2 30.209 -12.611 -9.056 1 194.87 ? C11 DPG 265 A 1 HETATM 8 C C12 DPG . . . F 2 29.977 -12.043 -7.646 1 182 ? C12 DPG 265 A 1 HETATM 9 C C13 DPG . . . F 2 30.065 -13.134 -6.617 1 171.86 ? C13 DPG 265 A 1 HETATM 10 C C14 DPG . . . F 2 31.489 -13.139 -6.161 1 167.24 ? C14 DPG 265 A 1 HETATM 11 C C15 DPG . . . F 2 29.104 -12.825 -5.498 1 160.44 ? C15 DPG 265 A 1 HETATM 12 C C16 DPG . . . F 2 29.147 -13.661 -4.215 1 147.21 ? C16 DPG 265 A 1 HETATM 13 C C17 DPG . . . F 2 28.646 -13.031 -2.888 1 133.84 ? C17 DPG 265 A 1 HETATM 14 C C18 DPG . . . F 2 29.208 -13.566 -1.525 1 120.95 ? C18 DPG 265 A 1 HETATM 15 C C19 DPG . . . F 2 28.775 -14.999 -1.224 1 118.28 ? C19 DPG 265 A 1 HETATM 16 C C20 DPG . . . F 2 28.907 -12.689 -0.293 1 110.5 ? C20 DPG 265 A 1 HETATM 17 C C21 DPG . . . F 2 30.027 -12.899 0.721 1 103.04 ? C21 DPG 265 A 1 HETATM 18 C C22 DPG . . . F 2 29.746 -12.115 2.037 1 95.28 ? C22 DPG 265 A 1 HETATM 19 C C23 DPG . . . F 2 30.605 -12.345 3.372 1 90.1 ? C23 DPG 265 A 1 HETATM 20 C C24 DPG . . . F 2 32.094 -12.421 3 1 91.24 ? C24 DPG 265 A 1 HETATM 21 C C25 DPG . . . F 2 30.472 -11.146 4.372 1 88.31 ? C25 DPG 265 A 1 HETATM 22 C C26 DPG . . . F 2 31.064 -11.24 5.758 1 89.21 ? C26 DPG 265 A 1 HETATM 23 C C27 DPG . . . F 2 31.367 -9.835 6.164 1 90.29 ? C27 DPG 265 A 1 HETATM 24 C C28 DPG . . . F 2 32.375 -9.82 7.262 1 95.24 ? C28 DPG 265 A 1 HETATM 25 C C29 DPG . . . F 2 32.146 -8.583 8.11 1 101.23 ? C29 DPG 265 A 1 HETATM 26 C C30 DPG . . . F 2 33.821 -9.899 6.752 1 92.56 ? C30 DPG 265 A 1 HETATM 27 C C41 DPG . . . F 2 34.1 -10.238 -9.868 1 201.55 ? C41 DPG 265 A 1 HETATM 28 C C42 DPG . . . F 2 33.51 -10.472 -8.445 1 189.47 ? C42 DPG 265 A 1 HETATM 29 C C43 DPG . . . F 2 34.045 -9.67 -7.225 1 177.91 ? C43 DPG 265 A 1 HETATM 30 C C44 DPG . . . F 2 33.721 -8.165 -7.51 1 180.69 ? C44 DPG 265 A 1 HETATM 31 C C45 DPG . . . F 2 33.511 -10.261 -5.848 1 164.04 ? C45 DPG 265 A 1 HETATM 32 C C46 DPG . . . F 2 34.155 -9.845 -4.472 1 149.85 ? C46 DPG 265 A 1 HETATM 33 C C47 DPG . . . F 2 33.222 -9.795 -3.225 1 137.18 ? C47 DPG 265 A 1 HETATM 34 C C48 DPG . . . F 2 33.843 -9.698 -1.81 1 123.55 ? C48 DPG 265 A 1 HETATM 35 C C49 DPG . . . F 2 33.216 -10.773 -0.894 1 115.43 ? C49 DPG 265 A 1 HETATM 36 C C50 DPG . . . F 2 33.625 -8.276 -1.31 1 119.04 ? C50 DPG 265 A 1 HETATM 37 C C51 DPG . . . F 2 33.705 -8.045 0.197 1 106.75 ? C51 DPG 265 A 1 HETATM 38 C C52 DPG . . . F 2 33.853 -6.578 0.584 1 103.97 ? C52 DPG 265 A 1 HETATM 39 C C53 DPG . . . F 2 33.136 -6.044 1.893 1 96.01 ? C53 DPG 265 A 1 HETATM 40 C C54 DPG . . . F 2 31.572 -6.24 2.044 1 95.24 ? C54 DPG 265 A 1 HETATM 41 C C55 DPG . . . F 2 33.882 -6.554 3.183 1 90.65 ? C55 DPG 265 A 1 HETATM 42 C C56 DPG . . . F 2 33.651 -5.706 4.456 1 88.25 ? C56 DPG 265 A 1 HETATM 43 C C57 DPG . . . F 2 33.783 -6.443 5.786 1 89.27 ? C57 DPG 265 A 1 HETATM 44 C C58 DPG . . . F 2 33.878 -5.389 6.889 1 93.22 ? C58 DPG 265 A 1 HETATM 45 C C59 DPG . . . F 2 32.642 -4.498 7.072 1 94.17 ? C59 DPG 265 A 1 HETATM 46 C C60 DPG . . . F 2 35.214 -4.659 7.079 1 94.2 ? C60 DPG 265 A 1 HETATM 47 O O1 DPG . . . F 2 30.754 -11.516 -9.841 1 201.34 ? O1 DPG 265 A 1 HETATM 48 O O2 DPG . . . F 2 33.599 -11.363 -10.619 1 207.11 ? O2 DPG 265 A 1 HETATM 49 O O3 DPG . . . F 2 33.473 -10.036 -13.416 1 221.16 ? O3 DPG 265 A 1 HETATM 50 O O4 DPG . . . F 2 33.464 -8.311 -15.161 1 223.09 ? O4 DPG 265 A 1 HETATM 51 O O5 DPG . . . F 2 31.673 -8.079 -13.407 1 221.13 ? O5 DPG 265 A 1 HETATM 52 O O6 DPG . . . F 2 31.614 -10.108 -15.091 1 223.13 ? O6 DPG 265 A 1 HETATM 53 O O7 DPG . . . F 2 29.473 -12.362 -16.14 1 221.34 ? O7 DPG 265 A 1 HETATM 54 O O8 DPG . . . F 2 29.335 -14.445 -13.988 1 222.45 ? O8 DPG 265 A 1 HETATM 55 O O9 DPG . . . F 2 29.673 -16.068 -12.018 1 215.61 ? O9 DPG 265 A 1 HETATM 56 O O10 DPG . . . F 2 27.944 -16.591 -13.781 1 222.05 ? O10 DPG 265 A 1 HETATM 57 O O11 DPG . . . F 2 30.327 -16.745 -14.344 1 222.94 ? O11 DPG 265 A 1 HETATM 58 P P1 DPG . . . F 2 32.527 -9.001 -14.249 1 222.83 ? P1 DPG 265 A 1 HETATM 59 P P2 DPG . . . F 2 29.316 -16.009 -13.501 1 221.39 ? P2 DPG 265 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 59 #