data_9AYH # _model_server_result.job_id gUgT6o8Rq4ccjuLMTRozUA _model_server_result.datetime_utc '2024-11-14 16:55:13' _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 9ayh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":2410}' # _entry.id 9AYH # _exptl.entry_id 9AYH _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 663.906 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2~{R})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate' _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 9AYH _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9AYH _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,K,L,M,N _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 ? 7 H N N ? 7 J N N ? 7 K N N ? 7 L 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 disulf ? disulf1 A SG CYS 166 A CYS 123 1_555 A SG CYS 702 A CYS 939 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 303 A CYS 260 1_555 A SG CYS 345 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 334 A CYS 291 1_555 A SG CYS 390 A CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 1222 A CYS 1459 1_555 A SG CYS 1236 A CYS 1473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 1539 A CYS 1776 1_555 A SG CYS 1545 A CYS 1782 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 A SG CYS 1584 A CYS 1821 1_555 A SG CYS 1591 A CYS 1828 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A OE2 GLU 421 A GLU 378 1_555 E CA CA . A CA 2404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc2 A OE1 GLU 737 A GLU 974 1_555 E CA CA . A CA 2404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? metalc ? metalc3 A OD1 ASP 1267 A ASP 1504 1_555 E CA CA . A CA 2404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? # _chem_comp.formula 'C35 H70 N O8 P' _chem_comp.formula_weight 663.906 _chem_comp.id JL3 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2~{R})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1,2-Dipentadecanoyl-sn-glycero-3-phosphoethanolamine;PE(15:0/15:0) # 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 C13 C12 JL3 sing 221 n n C13 C14 JL3 sing 222 n n C12 C11 JL3 sing 223 n n O16 C15 JL3 doub 224 n n C10 C11 JL3 sing 225 n n C10 C09 JL3 sing 226 n n C14 C15 JL3 sing 227 n n C15 O17 JL3 sing 228 n n C09 C08 JL3 sing 229 n n C07 C08 JL3 sing 230 n n C07 C06 JL3 sing 231 n n O17 C18 JL3 sing 232 n n O24 P22 JL3 doub 233 n n C18 C19 JL3 sing 234 n n C06 C05 JL3 sing 235 n n C05 C04 JL3 sing 236 n n C20 C19 JL3 sing 237 n n C20 O21 JL3 sing 238 n n O23 P22 JL3 sing 239 n n C19 O29 JL3 sing 240 n n P22 O21 JL3 sing 241 n n P22 O25 JL3 sing 242 n n C04 C03 JL3 sing 243 n n C33 C34 JL3 sing 244 n n C33 C32 JL3 sing 245 n n C36 C37 JL3 sing 246 n n C36 C35 JL3 sing 247 n n C37 C38 JL3 sing 248 n n C35 C34 JL3 sing 249 n n C03 C02 JL3 sing 250 n n O25 C26 JL3 sing 251 n n O29 C30 JL3 sing 252 n n C32 C30 JL3 sing 253 n n C38 C39 JL3 sing 254 n n C30 O31 JL3 doub 255 n n C39 C40 JL3 sing 256 n n C40 C41 JL3 sing 257 n n C42 C41 JL3 sing 258 n n C42 C43 JL3 sing 259 n n C44 C43 JL3 sing 260 n n C44 C45 JL3 sing 261 n n C02 C01 JL3 sing 262 n n C26 C27 JL3 sing 263 n n N28 C27 JL3 sing 264 n n C01 H1 JL3 sing 265 n n C01 H2 JL3 sing 266 n n C01 H3 JL3 sing 267 n n C02 H4 JL3 sing 268 n n C02 H5 JL3 sing 269 n n C03 H6 JL3 sing 270 n n C03 H7 JL3 sing 271 n n C04 H8 JL3 sing 272 n n C04 H9 JL3 sing 273 n n C05 H10 JL3 sing 274 n n C05 H11 JL3 sing 275 n n C06 H12 JL3 sing 276 n n C06 H13 JL3 sing 277 n n C07 H14 JL3 sing 278 n n C07 H15 JL3 sing 279 n n C08 H16 JL3 sing 280 n n C08 H17 JL3 sing 281 n n C09 H18 JL3 sing 282 n n C09 H19 JL3 sing 283 n n C10 H20 JL3 sing 284 n n C10 H21 JL3 sing 285 n n C11 H22 JL3 sing 286 n n C11 H23 JL3 sing 287 n n C12 H24 JL3 sing 288 n n C12 H25 JL3 sing 289 n n C13 H26 JL3 sing 290 n n C13 H27 JL3 sing 291 n n C14 H28 JL3 sing 292 n n C14 H29 JL3 sing 293 n n C18 H30 JL3 sing 294 n n C18 H31 JL3 sing 295 n n C19 H32 JL3 sing 296 n n C20 H33 JL3 sing 297 n n C20 H34 JL3 sing 298 n n O23 H35 JL3 sing 299 n n C26 H36 JL3 sing 300 n n C26 H37 JL3 sing 301 n n C27 H38 JL3 sing 302 n n C27 H39 JL3 sing 303 n n N28 H40 JL3 sing 304 n n N28 H41 JL3 sing 305 n n C32 H43 JL3 sing 306 n n C32 H44 JL3 sing 307 n n C33 H45 JL3 sing 308 n n C33 H46 JL3 sing 309 n n C34 H47 JL3 sing 310 n n C34 H48 JL3 sing 311 n n C35 H49 JL3 sing 312 n n C35 H50 JL3 sing 313 n n C36 H51 JL3 sing 314 n n C36 H52 JL3 sing 315 n n C37 H53 JL3 sing 316 n n C37 H54 JL3 sing 317 n n C38 H55 JL3 sing 318 n n C38 H56 JL3 sing 319 n n C39 H57 JL3 sing 320 n n C39 H58 JL3 sing 321 n n C40 H59 JL3 sing 322 n n C40 H60 JL3 sing 323 n n C41 H61 JL3 sing 324 n n C41 H62 JL3 sing 325 n n C42 H63 JL3 sing 326 n n C42 H64 JL3 sing 327 n n C43 H65 JL3 sing 328 n n C43 H66 JL3 sing 329 n n C44 H67 JL3 sing 330 n n C44 H68 JL3 sing 331 n n C45 H69 JL3 sing 332 n n C45 H70 JL3 sing 333 n n C45 H71 JL3 sing 334 n n # _atom_sites.entry_id 9AYH _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 B 2 A1AHH A 1 2401 1901 A1AHH LIG . C 3 NAG A 1 2402 1 NAG NAG . D 3 NAG A 1 2403 2 NAG NAG . E 4 CA A 1 2404 3 CA CA . F 5 LPE A 1 2405 10 LPE LPE . G 6 Y01 A 1 2406 11 Y01 Y01 . H 7 JL3 A 1 2407 12 JL3 3PE . I 6 Y01 A 1 2408 13 Y01 Y01 . J 7 JL3 A 1 2409 14 JL3 3PE . K 7 JL3 A 1 2410 15 JL3 3PE . L 7 JL3 A 1 2411 16 JL3 3PE . M 6 Y01 A 1 2412 17 Y01 Y01 . N 6 Y01 A 1 2413 18 Y01 Y01 . # 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 P P22 JL3 . . . K 7 133.41 130.864 140.459 1 81.48 ? P22 JL3 2410 A 1 HETATM 2 C C05 JL3 . . . K 7 147.664 129.65 131.801 1 47.43 ? C05 JL3 2410 A 1 HETATM 3 C C06 JL3 . . . K 7 147.026 131.011 132.049 1 50.15 ? C06 JL3 2410 A 1 HETATM 4 C C07 JL3 . . . K 7 147.277 131.575 133.442 1 46.09 ? C07 JL3 2410 A 1 HETATM 5 C C08 JL3 . . . K 7 146.539 132.886 133.685 1 46.1 ? C08 JL3 2410 A 1 HETATM 6 C C09 JL3 . . . K 7 145.023 132.747 133.694 1 50.14 ? C09 JL3 2410 A 1 HETATM 7 C C10 JL3 . . . K 7 144.317 133.989 134.224 1 50.78 ? C10 JL3 2410 A 1 HETATM 8 C C11 JL3 . . . K 7 142.806 133.834 134.347 1 51.24 ? C11 JL3 2410 A 1 HETATM 9 C C12 JL3 . . . K 7 142.394 132.864 135.446 1 53.05 ? C12 JL3 2410 A 1 HETATM 10 C C13 JL3 . . . K 7 140.884 132.689 135.563 1 49.37 ? C13 JL3 2410 A 1 HETATM 11 C C14 JL3 . . . K 7 140.501 132.052 136.888 1 57.86 ? C14 JL3 2410 A 1 HETATM 12 C C15 JL3 . . . K 7 139.019 131.959 137.119 1 55.94 ? C15 JL3 2410 A 1 HETATM 13 O O16 JL3 . . . K 7 138.167 132.128 136.285 1 52.59 ? O16 JL3 2410 A 1 HETATM 14 O O17 JL3 . . . K 7 138.745 131.66 138.386 1 50.99 ? O17 JL3 2410 A 1 HETATM 15 C C18 JL3 . . . K 7 137.378 131.582 138.778 1 49.69 ? C18 JL3 2410 A 1 HETATM 16 C C19 JL3 . . . K 7 137.343 130.949 140.153 1 56.65 ? C19 JL3 2410 A 1 HETATM 17 C C20 JL3 . . . K 7 136.001 131.178 140.839 1 52.6 ? C20 JL3 2410 A 1 HETATM 18 O O21 JL3 . . . K 7 134.982 130.584 140.067 1 58.83 ? O21 JL3 2410 A 1 HETATM 19 O O23 JL3 . . . K 7 133.231 130.252 141.805 1 58.99 ? O23 JL3 2410 A 1 HETATM 20 O O24 JL3 . . . K 7 133.045 132.274 140.135 1 63.44 ? O24 JL3 2410 A 1 HETATM 21 O O25 JL3 . . . K 7 132.611 129.955 139.331 1 52.14 ? O25 JL3 2410 A 1 HETATM 22 C C26 JL3 . . . K 7 131.879 128.825 139.744 1 50.54 ? C26 JL3 2410 A 1 HETATM 23 C C27 JL3 . . . K 7 130.518 128.862 139.086 1 52.49 ? C27 JL3 2410 A 1 HETATM 24 N N28 JL3 . . . K 7 130.609 128.636 137.622 1 57.82 ? N28 JL3 2410 A 1 HETATM 25 O O29 JL3 . . . K 7 138.44 131.541 140.864 1 64.79 ? O29 JL3 2410 A 1 HETATM 26 C C30 JL3 . . . K 7 139.096 130.864 141.782 1 61.64 ? C30 JL3 2410 A 1 HETATM 27 O O31 JL3 . . . K 7 138.584 129.998 142.459 1 58.05 ? O31 JL3 2410 A 1 HETATM 28 C C32 JL3 . . . K 7 140.536 131.288 141.875 1 52.37 ? C32 JL3 2410 A 1 HETATM 29 C C33 JL3 . . . K 7 140.899 132.51 141.049 1 46.53 ? C33 JL3 2410 A 1 HETATM 30 C C34 JL3 . . . K 7 140.376 133.792 141.683 1 51.62 ? C34 JL3 2410 A 1 HETATM 31 C C35 JL3 . . . K 7 140.532 135.015 140.788 1 54.69 ? C35 JL3 2410 A 1 HETATM 32 C C36 JL3 . . . K 7 141.958 135.546 140.745 1 52.98 ? C36 JL3 2410 A 1 HETATM 33 C C37 JL3 . . . K 7 142.211 136.531 139.611 1 56.63 ? C37 JL3 2410 A 1 HETATM 34 C C38 JL3 . . . K 7 143.667 136.972 139.527 1 58.27 ? C38 JL3 2410 A 1 HETATM 35 C C39 JL3 . . . K 7 144.049 137.582 138.184 1 53.61 ? C39 JL3 2410 A 1 HETATM 36 C C40 JL3 . . . K 7 145.526 137.948 138.094 1 47.6 ? C40 JL3 2410 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #