data_6W2X # _model_server_result.job_id GF_-S7hUcehf1uTTL_gq7A _model_server_result.datetime_utc '2025-08-31 11:58:35' _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 6w2x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1003}' # _entry.id 6W2X # _exptl.entry_id 6W2X _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 746.05 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _entity.pdbx_number_of_molecules 2 _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 6W2X _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6W2X _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,G,H,I,J _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 ? 5 G N N ? 5 J N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG A 1003 NAG 3 n C NAG 2 C 2 NAG A 1004 NAG 3 n D NAG 1 D 1 NAG B 1001 NAG 3 n D NAG 2 D 2 NAG B 1002 NAG # 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 disulf ? disulf1 A SG CYS 82 A CYS 103 1_555 A SG CYS 108 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf2 B SG CYS 75 B CYS 108 1_555 B SG CYS 102 B CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 B SG CYS 204 B CYS 237 1_555 B SG CYS 233 B CYS 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 520 B CYS 553 1_555 B SG CYS 615 B CYS 648 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 302 A ASN 323 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 344 A ASN 365 1_555 F C1 NAG . A NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 376 A ASN 397 1_555 E C1 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 B ND2 ASN 371 B ASN 404 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale6 D O3 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? metalc ? metalc1 A O GLY 256 A GLY 277 1_555 I MG MG . A MG 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? # _chem_comp.formula 'C41 H80 N O8 P' _chem_comp.formula_weight 746.05 _chem_comp.id L9Q _chem_comp.mon_nstd_flag . _chem_comp.name '(1S)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-stearoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine # 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 C5 N L9Q sing 171 n n N HN L9Q sing 172 n n N HNA L9Q sing 173 n n O3P P L9Q sing 174 n n O1P P L9Q doub 175 n n P O2P L9Q sing 176 n n P O4P L9Q sing 177 n n C2 C1 L9Q sing 178 n n O3P C1 L9Q sing 179 n n C1 H1 L9Q sing 180 n n C1 H1A L9Q sing 181 n n C3 C2 L9Q sing 182 n n C2 O2 L9Q sing 183 n n C2 H2 L9Q sing 184 n n C31 O2 L9Q sing 185 n n O3 C3 L9Q sing 186 n n C3 H3 L9Q sing 187 n n C3 H3A L9Q sing 188 n n C11 O3 L9Q sing 189 n n O4P C4 L9Q sing 190 n n C4 C5 L9Q sing 191 n n C4 H4 L9Q sing 192 n n C4 H4A L9Q sing 193 n n C5 H5 L9Q sing 194 n n C5 H5A L9Q sing 195 n n C12 C11 L9Q sing 196 n n O11 C11 L9Q doub 197 n n C12 C13 L9Q sing 198 n n C12 H12 L9Q sing 199 n n C12 H12A L9Q sing 200 n n C14 C13 L9Q sing 201 n n C13 H13 L9Q sing 202 n n C13 H13A L9Q sing 203 n n C15 C14 L9Q sing 204 n n C14 H14 L9Q sing 205 n n C14 H14A L9Q sing 206 n n C16 C15 L9Q sing 207 n n C15 H15 L9Q sing 208 n n C15 H15A L9Q sing 209 n n C16 C17 L9Q sing 210 n n C16 H16 L9Q sing 211 n n C16 H16A L9Q sing 212 n n C17 C18 L9Q sing 213 n n C17 H17 L9Q sing 214 n n C17 H17A L9Q sing 215 n n C19 C18 L9Q sing 216 n n C18 H18 L9Q sing 217 n n C18 H18A L9Q sing 218 n n C19 C20 L9Q sing 219 n n C19 H19 L9Q sing 220 n n C19 H19A L9Q sing 221 n n C21 C20 L9Q sing 222 n n C20 H20 L9Q sing 223 n n C20 H20A L9Q sing 224 n n C21 C22 L9Q sing 225 n n C21 H21 L9Q sing 226 n n C21 H21A L9Q sing 227 n n C23 C22 L9Q sing 228 n n C22 H22 L9Q sing 229 n n C22 H22A L9Q sing 230 n n C23 C24 L9Q sing 231 n n C23 H23 L9Q sing 232 n n C23 H23A L9Q sing 233 n n C25 C24 L9Q sing 234 n n C24 H24 L9Q sing 235 n n C24 H24A L9Q sing 236 n n C25 C26 L9Q sing 237 n n C25 H25 L9Q sing 238 n n C25 H25A L9Q sing 239 n n C27 C26 L9Q sing 240 n n C26 H26 L9Q sing 241 n n C26 H26A L9Q sing 242 n n C28 C27 L9Q sing 243 n n C27 H27 L9Q sing 244 n n C27 H27A L9Q sing 245 n n C28 H28 L9Q sing 246 n n C28 H28A L9Q sing 247 n n C28 H28B L9Q sing 248 n n O2P HO2P L9Q sing 249 n n C32 C31 L9Q sing 250 n n C31 O31 L9Q doub 251 n n C32 C33 L9Q sing 252 n n C32 H32 L9Q sing 253 n n C32 H32A L9Q sing 254 n n C34 C33 L9Q sing 255 n n C33 H33 L9Q sing 256 n n C33 H33A L9Q sing 257 n n C34 C35 L9Q sing 258 n n C34 H34 L9Q sing 259 n n C34 H34A L9Q sing 260 n n C36 C35 L9Q sing 261 n n C35 H35 L9Q sing 262 n n C35 H35A L9Q sing 263 n n C36 C37 L9Q sing 264 n n C36 H36 L9Q sing 265 n n C36 H36A L9Q sing 266 n n C38 C37 L9Q sing 267 n n C37 H37 L9Q sing 268 n n C37 H37A L9Q sing 269 n n C39 C38 L9Q sing 270 z n C38 H38 L9Q sing 271 n n C38 H38A L9Q sing 272 n n C39 C40 L9Q doub 273 n n C39 H39 L9Q sing 274 n n C40 C41 L9Q sing 275 n n C40 H40 L9Q sing 276 n n C41 C42 L9Q sing 277 n n C41 H41 L9Q sing 278 n n C41 H41A L9Q sing 279 n n C42 C43 L9Q sing 280 n n C42 H42 L9Q sing 281 n n C42 H42A L9Q sing 282 n n C43 C44 L9Q sing 283 n n C43 H43 L9Q sing 284 n n C43 H43A L9Q sing 285 n n C44 C45 L9Q sing 286 n n C44 H44 L9Q sing 287 n n C44 H44A L9Q sing 288 n n C45 C46 L9Q sing 289 n n C45 H45 L9Q sing 290 n n C45 H45A L9Q sing 291 n n C46 C47 L9Q sing 292 n n C46 H46 L9Q sing 293 n n C46 H46A L9Q sing 294 n n C47 C48 L9Q sing 295 n n C47 H47 L9Q sing 296 n n C47 H47A L9Q sing 297 n n C48 H48 L9Q sing 298 n n C48 H48A L9Q sing 299 n n C48 H48B L9Q sing 300 n n # _atom_sites.entry_id 6W2X _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 E 4 NAG A 1 901 801 NAG NAG . F 4 NAG A 1 902 1002 NAG NAG . G 5 L9Q A 1 905 801 L9Q L9Q . H 6 SGG A 1 906 900 SGG LIG . I 7 MG A 1 907 1 MG MG . J 5 L9Q B 1 1003 801 L9Q L9Q . # 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 N N L9Q . . . J 5 146.18 173.078 153.086 0.99 36.51 ? N L9Q 1003 B 1 HETATM 2 P P L9Q . . . J 5 150.117 172.826 155.366 0.99 36.51 ? P L9Q 1003 B 1 HETATM 3 C C1 L9Q . . . J 5 149.657 171.833 157.744 0.99 36.51 ? C1 L9Q 1003 B 1 HETATM 4 C C2 L9Q . . . J 5 149.268 172.545 159.038 0.99 36.51 ? C2 L9Q 1003 B 1 HETATM 5 O O2 L9Q . . . J 5 149.228 173.924 158.81 0.99 36.51 ? O2 L9Q 1003 B 1 HETATM 6 C C3 L9Q . . . J 5 147.893 172.057 159.488 0.99 36.51 ? C3 L9Q 1003 B 1 HETATM 7 O O3 L9Q . . . J 5 147.571 172.614 160.73 0.99 36.51 ? O3 L9Q 1003 B 1 HETATM 8 C C4 L9Q . . . J 5 148.219 174.028 154.013 0.99 36.51 ? C4 L9Q 1003 B 1 HETATM 9 C C5 L9Q . . . J 5 147.028 173.107 154.264 0.99 36.51 ? C5 L9Q 1003 B 1 HETATM 10 C C11 L9Q . . . J 5 148.328 172.116 161.795 0.99 36.51 ? C11 L9Q 1003 B 1 HETATM 11 O O11 L9Q . . . J 5 149.107 171.242 161.613 0.99 36.51 ? O11 L9Q 1003 B 1 HETATM 12 C C12 L9Q . . . J 5 148.15 172.695 163.196 0.99 36.51 ? C12 L9Q 1003 B 1 HETATM 13 C C13 L9Q . . . J 5 146.662 172.761 163.532 0.99 36.51 ? C13 L9Q 1003 B 1 HETATM 14 C C14 L9Q . . . J 5 146.486 172.715 165.048 0.99 36.51 ? C14 L9Q 1003 B 1 HETATM 15 C C15 L9Q . . . J 5 145.023 172.434 165.382 0.99 36.51 ? C15 L9Q 1003 B 1 HETATM 16 C C16 L9Q . . . J 5 144.921 171.882 166.802 0.99 36.51 ? C16 L9Q 1003 B 1 HETATM 17 C C17 L9Q . . . J 5 143.463 171.56 167.115 0.99 36.51 ? C17 L9Q 1003 B 1 HETATM 18 C C18 L9Q . . . J 5 142.733 172.838 167.52 0.99 36.51 ? C18 L9Q 1003 B 1 HETATM 19 C C19 L9Q . . . J 5 143.022 173.155 168.986 0.99 36.51 ? C19 L9Q 1003 B 1 HETATM 20 O O1P L9Q . . . J 5 149.528 171.534 154.855 0.99 36.51 ? O1P L9Q 1003 B 1 HETATM 21 C C20 L9Q . . . J 5 142.712 174.624 169.26 0.99 36.51 ? C20 L9Q 1003 B 1 HETATM 22 C C21 L9Q . . . J 5 141.922 174.736 170.561 0.99 36.51 ? C21 L9Q 1003 B 1 HETATM 23 C C22 L9Q . . . J 5 141.704 176.207 170.909 0.99 36.51 ? C22 L9Q 1003 B 1 HETATM 24 C C23 L9Q . . . J 5 140.636 176.315 171.994 0.99 36.51 ? C23 L9Q 1003 B 1 HETATM 25 C C24 L9Q . . . J 5 140.55 177.759 172.482 0.99 36.51 ? C24 L9Q 1003 B 1 HETATM 26 C C25 L9Q . . . J 5 139.653 177.826 173.716 0.99 36.51 ? C25 L9Q 1003 B 1 HETATM 27 O O2P L9Q . . . J 5 151.388 173.135 154.613 0.99 36.51 ? O2P L9Q 1003 B 1 HETATM 28 C C31 L9Q . . . J 5 150.256 174.634 159.439 0.99 36.51 ? C31 L9Q 1003 B 1 HETATM 29 O O31 L9Q . . . J 5 151.313 174.125 159.6 0.99 36.51 ? O31 L9Q 1003 B 1 HETATM 30 C C32 L9Q . . . J 5 150.014 176.067 159.907 0.99 36.51 ? C32 L9Q 1003 B 1 HETATM 31 C C33 L9Q . . . J 5 151.21 176.559 160.719 0.99 36.51 ? C33 L9Q 1003 B 1 HETATM 32 C C34 L9Q . . . J 5 151.34 175.718 161.987 0.99 36.51 ? C34 L9Q 1003 B 1 HETATM 33 C C35 L9Q . . . J 5 151.379 176.628 163.212 0.99 36.51 ? C35 L9Q 1003 B 1 HETATM 34 C C36 L9Q . . . J 5 151.047 175.809 164.456 0.99 36.51 ? C36 L9Q 1003 B 1 HETATM 35 C C37 L9Q . . . J 5 150.789 176.741 165.637 0.99 36.51 ? C37 L9Q 1003 B 1 HETATM 36 C C38 L9Q . . . J 5 150.139 175.949 166.768 0.99 36.51 ? C38 L9Q 1003 B 1 HETATM 37 C C39 L9Q . . . J 5 149.874 176.871 167.956 0.99 36.51 ? C39 L9Q 1003 B 1 HETATM 38 O O3P L9Q . . . J 5 150.455 172.681 156.971 0.99 36.51 ? O3P L9Q 1003 B 1 HETATM 39 C C40 L9Q . . . J 5 148.915 176.589 168.813 0.99 36.51 ? C40 L9Q 1003 B 1 HETATM 40 C C41 L9Q . . . J 5 148.061 175.338 168.622 0.99 36.51 ? C41 L9Q 1003 B 1 HETATM 41 C C42 L9Q . . . J 5 148.191 174.434 169.845 0.99 36.51 ? C42 L9Q 1003 B 1 HETATM 42 C C43 L9Q . . . J 5 147.673 173.042 169.492 0.99 36.51 ? C43 L9Q 1003 B 1 HETATM 43 C C44 L9Q . . . J 5 148.65 171.986 170.002 0.99 36.51 ? C44 L9Q 1003 B 1 HETATM 44 C C45 L9Q . . . J 5 148.353 171.676 171.466 0.99 36.51 ? C45 L9Q 1003 B 1 HETATM 45 C C46 L9Q . . . J 5 148.559 170.185 171.716 0.99 36.51 ? C46 L9Q 1003 B 1 HETATM 46 O O4P L9Q . . . J 5 149.037 174.051 155.147 0.99 36.51 ? O4P L9Q 1003 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 411 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 46 #