data_5KMF # _model_server_result.job_id fAD24OlSnN4c-xash8nNTQ _model_server_result.datetime_utc '2024-11-16 09:58:27' _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 5kmf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1302}' # _entry.id 5KMF # _exptl.entry_id 5KMF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 677.933 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE _entity.pdbx_number_of_molecules 14 _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 5KMF _cell.length_a 125.28 _cell.length_b 125.365 _cell.length_c 191.625 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KMF _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,M,N,O,P,Q,R,S,T,U,V,W,X,Y _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 K N N ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 T N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_atom_id OD1 _struct_conn.ptnr1_label_comp_id ASP _struct_conn.ptnr1_label_seq_id 196 _struct_conn.ptnr1_auth_asym_id C _struct_conn.ptnr1_auth_comp_id ASP _struct_conn.ptnr1_auth_seq_id 1178 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id L _struct_conn.ptnr2_label_atom_id CA _struct_conn.ptnr2_label_comp_id CA _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id C _struct_conn.ptnr2_auth_comp_id CA _struct_conn.ptnr2_auth_seq_id 1301 _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 3.182 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C36 H72 N O8 P' _chem_comp.formula_weight 677.933 _chem_comp.id MC3 _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE _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 C1 C2 MC3 sing 262 n n C1 O3P MC3 sing 263 n n C1 H11 MC3 sing 264 n n C1 H12 MC3 sing 265 n n C2 C3 MC3 sing 266 n n C2 O2 MC3 sing 267 n n C2 H2 MC3 sing 268 n n C3 O3 MC3 sing 269 n n C3 H31 MC3 sing 270 n n C3 H32 MC3 sing 271 n n C4 C5 MC3 sing 272 n n C4 O4P MC3 sing 273 n n C4 H41 MC3 sing 274 n n C4 H42 MC3 sing 275 n n C5 N MC3 sing 276 n n C5 H51 MC3 sing 277 n n C5 H52 MC3 sing 278 n n C6 N MC3 sing 279 n n C6 H61 MC3 sing 280 n n C6 H62 MC3 sing 281 n n C6 H63 MC3 sing 282 n n C7 N MC3 sing 283 n n C7 H71 MC3 sing 284 n n C7 H72 MC3 sing 285 n n C7 H73 MC3 sing 286 n n C8 N MC3 sing 287 n n C8 H81 MC3 sing 288 n n C8 H82 MC3 sing 289 n n C8 H83 MC3 sing 290 n n C11 C12 MC3 sing 291 n n C11 O3 MC3 sing 292 n n C11 O11 MC3 doub 293 n n C12 C13 MC3 sing 294 n n C12 H121 MC3 sing 295 n n C12 H122 MC3 sing 296 n n C13 C14 MC3 sing 297 n n C13 H131 MC3 sing 298 n n C13 H132 MC3 sing 299 n n C14 C15 MC3 sing 300 n n C14 H141 MC3 sing 301 n n C14 H142 MC3 sing 302 n n C15 C16 MC3 sing 303 n n C15 H151 MC3 sing 304 n n C15 H152 MC3 sing 305 n n C16 C17 MC3 sing 306 n n C16 H161 MC3 sing 307 n n C16 H162 MC3 sing 308 n n C17 C18 MC3 sing 309 n n C17 H171 MC3 sing 310 n n C17 H172 MC3 sing 311 n n C18 C19 MC3 sing 312 n n C18 H181 MC3 sing 313 n n C18 H182 MC3 sing 314 n n C19 C20 MC3 sing 315 n n C19 H191 MC3 sing 316 n n C19 H192 MC3 sing 317 n n C20 C21 MC3 sing 318 n n C20 H201 MC3 sing 319 n n C20 H202 MC3 sing 320 n n C21 C22 MC3 sing 321 n n C21 H211 MC3 sing 322 n n C21 H212 MC3 sing 323 n n C22 C23 MC3 sing 324 n n C22 H221 MC3 sing 325 n n C22 H222 MC3 sing 326 n n C23 C24 MC3 sing 327 n n C23 H231 MC3 sing 328 n n C23 H232 MC3 sing 329 n n C24 H241 MC3 sing 330 n n C24 H242 MC3 sing 331 n n C24 H243 MC3 sing 332 n n C31 C32 MC3 sing 333 n n C31 O2 MC3 sing 334 n n C31 O31 MC3 doub 335 n n C32 C33 MC3 sing 336 n n C32 H321 MC3 sing 337 n n C32 H322 MC3 sing 338 n n C33 C34 MC3 sing 339 n n C33 H331 MC3 sing 340 n n C33 H332 MC3 sing 341 n n C34 C35 MC3 sing 342 n n C34 H341 MC3 sing 343 n n C34 H342 MC3 sing 344 n n C35 C36 MC3 sing 345 n n C35 H351 MC3 sing 346 n n C35 H352 MC3 sing 347 n n C36 C37 MC3 sing 348 n n C36 H361 MC3 sing 349 n n C36 H362 MC3 sing 350 n n C37 C38 MC3 sing 351 n n C37 H371 MC3 sing 352 n n C37 H372 MC3 sing 353 n n C38 C39 MC3 sing 354 n n C38 H381 MC3 sing 355 n n C38 H382 MC3 sing 356 n n C39 C40 MC3 sing 357 n n C39 H391 MC3 sing 358 n n C39 H392 MC3 sing 359 n n C40 C41 MC3 sing 360 n n C40 H401 MC3 sing 361 n n C40 H402 MC3 sing 362 n n C41 C42 MC3 sing 363 n n C41 H411 MC3 sing 364 n n C41 H412 MC3 sing 365 n n C42 C43 MC3 sing 366 n n C42 H421 MC3 sing 367 n n C42 H422 MC3 sing 368 n n C43 C44 MC3 sing 369 n n C43 H431 MC3 sing 370 n n C43 H432 MC3 sing 371 n n C44 H441 MC3 sing 372 n n C44 H442 MC3 sing 373 n n C44 H443 MC3 sing 374 n n O1P P MC3 doub 375 n n O2P P MC3 sing 376 n n O3P P MC3 sing 377 n n O4P P MC3 sing 378 n n # _atom_sites.entry_id 5KMF _atom_sites.fract_transf_matrix[1][1] 0.007982 _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] 0.007977 _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] 0.005219 _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 2 6U9 A 1 1301 3 6U9 NIM . F 3 MC3 A 1 1302 1307 MC3 PX4 . G 3 MC3 A 1 1303 1305 MC3 PX6 . H 3 MC3 A 1 1304 1307 MC3 PX7 . I 3 MC3 B 1 1301 1305 MC3 PX4 . J 3 MC3 B 1 1302 1310 MC3 PX5 . K 3 MC3 B 1 1303 1304 MC3 PX6 . L 4 CA C 1 1301 1 CA CA . M 3 MC3 C 1 1302 1304 MC3 PX4 . N 3 MC3 C 1 1303 1302 MC3 PX6 . O 3 MC3 C 1 1304 1303 MC3 PX6 . P 3 MC3 C 1 1305 1306 MC3 PX7 . Q 3 MC3 D 1 1301 1306 MC3 PX4 . R 3 MC3 D 1 1302 1308 MC3 PX5 . S 3 MC3 D 1 1303 1309 MC3 PX5 . T 3 MC3 D 1 1304 1305 MC3 PX7 . U 4 CA D 1 1305 2 CA CA . V 5 HOH A 1 1401 6 HOH HOH . W 5 HOH B 1 1401 4 HOH HOH . W 5 HOH B 2 1402 5 HOH HOH . X 5 HOH C 1 1401 15 HOH HOH . X 5 HOH C 2 1402 25 HOH HOH . X 5 HOH C 3 1403 9 HOH HOH . X 5 HOH C 4 1404 19 HOH HOH . X 5 HOH C 5 1405 14 HOH HOH . Y 5 HOH D 1 1401 23 HOH HOH . Y 5 HOH D 2 1402 8 HOH HOH . Y 5 HOH D 3 1403 24 HOH HOH . Y 5 HOH D 4 1404 28 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 C C31 MC3 . . . F 3 -9.449 158.372 26.074 1 68.83 ? C31 MC3 1302 A 1 HETATM 2 C C32 MC3 . . . F 3 -8.387 157.951 25.08 1 67.28 ? C32 MC3 1302 A 1 HETATM 3 C C33 MC3 . . . F 3 -7.122 158.796 25.284 1 61.71 ? C33 MC3 1302 A 1 HETATM 4 C C34 MC3 . . . F 3 -5.972 158.594 24.276 1 56.28 ? C34 MC3 1302 A 1 HETATM 5 C C35 MC3 . . . F 3 -4.668 159.13 24.843 1 51.42 ? C35 MC3 1302 A 1 HETATM 6 C C36 MC3 . . . F 3 -3.58 159.308 23.78 1 63.06 ? C36 MC3 1302 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 6 #