data_1DSY # _model_server_result.job_id w-tKRHYZ5tQCzodnn2TFjA _model_server_result.datetime_utc '2025-02-18 17:07:24' _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 1dsy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 1DSY # _exptl.entry_id 1DSY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 455.437 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE _entity.pdbx_number_of_molecules 1 _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 1DSY _cell.length_a 58.8 _cell.length_b 58.8 _cell.length_c 91.7 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DSY _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 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 _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 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 A O MET 32 A MET 186 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc2 A OD1 ASP 33 A ASP 187 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc3 A OD2 ASP 33 A ASP 187 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? metalc ? metalc4 A OD1 ASP 33 A ASP 187 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc5 A OD2 ASP 39 A ASP 193 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc6 A OD2 ASP 92 A ASP 246 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc7 A OD1 ASP 92 A ASP 246 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? metalc ? metalc8 A OD2 ASP 92 A ASP 246 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.229 ? metalc ? metalc9 A O TRP 93 A TRP 247 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc10 A OD1 ASP 94 A ASP 248 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc11 A OD2 ASP 94 A ASP 248 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc12 A OD1 ASP 94 A ASP 248 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? metalc ? metalc13 A OD2 ASP 100 A ASP 254 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc14 F O HOH . A HOH 304 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.154 ? metalc ? metalc15 E O4 PSF . A PSF 401 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc16 E O3 PSF . A PSF 401 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? # _chem_comp.formula 'C18 H34 N O10 P' _chem_comp.formula_weight 455.437 _chem_comp.id PSF _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PHOSPHATIDYLSERINE # 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 O2 P PSF sing 268 n n O2 C2 PSF sing 269 n n O1 P PSF sing 270 n n O1 CB PSF sing 271 n n P O4 PSF doub 272 n n P O3 PSF sing 273 n n O3 HO3 PSF sing 274 n n C2 C3 PSF sing 275 n n C2 H21 PSF sing 276 n n C2 H22 PSF sing 277 n n C3 O11 PSF sing 278 n n C3 C4 PSF sing 279 n n C3 H31 PSF sing 280 n n O11 C1 PSF sing 281 n n O12 C1 PSF doub 282 n n C1 C13 PSF sing 283 n n C4 O52 PSF sing 284 n n C4 H41 PSF sing 285 n n C4 H42 PSF sing 286 n n C5 O51 PSF doub 287 n n C5 O52 PSF sing 288 n n C5 C6 PSF sing 289 n n C6 C7 PSF sing 290 n n C6 H61 PSF sing 291 n n C6 H62 PSF sing 292 n n C7 C8 PSF sing 293 n n C7 H71 PSF sing 294 n n C7 H72 PSF sing 295 n n C13 C14 PSF sing 296 n n C13 H131 PSF sing 297 n n C13 H132 PSF sing 298 n n C14 C15 PSF sing 299 n n C14 H141 PSF sing 300 n n C14 H142 PSF sing 301 n n C15 C16 PSF sing 302 n n C15 H151 PSF sing 303 n n C15 H152 PSF sing 304 n n N CA PSF sing 305 n n N H1 PSF sing 306 n n N H2 PSF sing 307 n n CA CB PSF sing 308 n n CA C PSF sing 309 n n CA HA PSF sing 310 n n CB HB1 PSF sing 311 n n CB HB2 PSF sing 312 n n C OT1 PSF doub 313 n n C OT2 PSF sing 314 n n OT2 HXT PSF sing 315 n n C8 C9 PSF sing 316 n n C8 H81 PSF sing 317 n n C8 H82 PSF sing 318 n n C9 C10 PSF sing 319 n n C9 H91 PSF sing 320 n n C9 H92 PSF sing 321 n n C10 H101 PSF sing 322 n n C10 H102 PSF sing 323 n n C10 H103 PSF sing 324 n n C16 C17 PSF sing 325 n n C16 H161 PSF sing 326 n n C16 H162 PSF sing 327 n n C17 H171 PSF sing 328 n n C17 H172 PSF sing 329 n n C17 H173 PSF sing 330 n n # _atom_sites.entry_id 1DSY _atom_sites.fract_transf_matrix[1][1] 0.017007 _atom_sites.fract_transf_matrix[1][2] 0.009819 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019638 _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] 0.010905 _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 CA A 1 501 501 CA CA . C 2 CA A 1 502 502 CA CA . D 3 PO4 A 1 601 601 PO4 PO4 . E 4 PSF A 1 401 401 PSF PSE . F 5 HOH A 1 301 301 HOH HOH . F 5 HOH A 2 302 302 HOH HOH . F 5 HOH A 3 303 303 HOH HOH . F 5 HOH A 4 304 304 HOH HOH . F 5 HOH A 5 305 305 HOH HOH . F 5 HOH A 6 306 306 HOH HOH . F 5 HOH A 7 307 307 HOH HOH . F 5 HOH A 8 308 308 HOH HOH . F 5 HOH A 9 309 309 HOH HOH . F 5 HOH A 10 310 310 HOH HOH . F 5 HOH A 11 311 311 HOH HOH . F 5 HOH A 12 312 312 HOH HOH . F 5 HOH A 13 313 313 HOH HOH . F 5 HOH A 14 314 314 HOH HOH . F 5 HOH A 15 315 315 HOH HOH . F 5 HOH A 16 316 316 HOH HOH . F 5 HOH A 17 317 317 HOH HOH . F 5 HOH A 18 318 318 HOH HOH . F 5 HOH A 19 319 319 HOH HOH . F 5 HOH A 20 320 320 HOH HOH . F 5 HOH A 21 321 321 HOH HOH . F 5 HOH A 22 322 322 HOH HOH . F 5 HOH A 23 323 323 HOH HOH . F 5 HOH A 24 324 324 HOH HOH . F 5 HOH A 25 325 325 HOH HOH . F 5 HOH A 26 326 326 HOH HOH . F 5 HOH A 27 327 327 HOH HOH . F 5 HOH A 28 328 328 HOH HOH . F 5 HOH A 29 329 329 HOH HOH . F 5 HOH A 30 330 330 HOH HOH . F 5 HOH A 31 331 331 HOH HOH . F 5 HOH A 32 332 332 HOH HOH . F 5 HOH A 33 333 333 HOH HOH . F 5 HOH A 34 334 334 HOH HOH . F 5 HOH A 35 335 335 HOH HOH . F 5 HOH A 36 336 336 HOH HOH . F 5 HOH A 37 337 337 HOH HOH . F 5 HOH A 38 338 338 HOH HOH . F 5 HOH A 39 339 339 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 O2 PSF . . . E 4 16.368 27.065 9.672 0.5 46.49 ? O2 PSF 401 A 1 HETATM 2 O O1 PSF . . . E 4 17.213 28.475 7.934 0.5 46.79 ? O1 PSF 401 A 1 HETATM 3 P P PSF . . . E 4 16.159 28.288 8.919 0.5 47.84 ? P PSF 401 A 1 HETATM 4 O O4 PSF . . . E 4 14.879 28.218 8.222 0.5 48.18 ? O4 PSF 401 A 1 HETATM 5 O O3 PSF . . . E 4 16.131 29.428 9.887 0.5 47.69 ? O3 PSF 401 A 1 HETATM 6 C C2 PSF . . . E 4 15.253 26.397 10.307 0.5 43.74 ? C2 PSF 401 A 1 HETATM 7 C C3 PSF . . . E 4 16.128 25.369 10.915 0.5 41.88 ? C3 PSF 401 A 1 HETATM 8 O O11 PSF . . . E 4 16.44 26.182 12.219 0.5 41.04 ? O11 PSF 401 A 1 HETATM 9 O O12 PSF . . . E 4 17.464 28.154 12.902 0.5 39.59 ? O12 PSF 401 A 1 HETATM 10 C C1 PSF . . . E 4 17.492 26.922 12.386 0.5 39.76 ? C1 PSF 401 A 1 HETATM 11 C C4 PSF . . . E 4 16.807 24.035 10.268 0.5 41.82 ? C4 PSF 401 A 1 HETATM 12 C C5 PSF . . . E 4 16.802 22.098 8.494 0.5 40.1 ? C5 PSF 401 A 1 HETATM 13 O O51 PSF . . . E 4 16.418 22.016 7.262 0.5 42.08 ? O51 PSF 401 A 1 HETATM 14 O O52 PSF . . . E 4 16.626 23.461 8.803 0.5 40.97 ? O52 PSF 401 A 1 HETATM 15 C C6 PSF . . . E 4 17.675 21.131 9.443 0.5 39.28 ? C6 PSF 401 A 1 HETATM 16 C C7 PSF . . . E 4 17.65 19.504 9.497 0.5 38.18 ? C7 PSF 401 A 1 HETATM 17 C C13 PSF . . . E 4 18.694 26.315 12.046 0.5 39.3 ? C13 PSF 401 A 1 HETATM 18 C C14 PSF . . . E 4 18.759 26.417 10.61 0.5 38.97 ? C14 PSF 401 A 1 HETATM 19 C C15 PSF . . . E 4 19.903 25.813 10.044 0.5 39.62 ? C15 PSF 401 A 1 HETATM 20 N N PSF . . . E 4 20.035 28.623 9.257 0.5 45.1 ? N PSF 401 A 1 HETATM 21 C CA PSF . . . E 4 19.489 28.569 7.874 0.5 45.44 ? CA PSF 401 A 1 HETATM 22 C CB PSF . . . E 4 18.367 27.581 7.701 0.5 45.46 ? CB PSF 401 A 1 HETATM 23 C C PSF . . . E 4 19.464 29.689 6.875 0.5 45.64 ? C PSF 401 A 1 HETATM 24 O OT1 PSF . . . E 4 18.794 29.504 5.845 0.5 45.67 ? OT1 PSF 401 A 1 HETATM 25 O OT2 PSF . . . E 4 20.102 30.717 7.123 0.5 45.51 ? OT2 PSF 401 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #