data_3I4V # _model_server_result.job_id SVDyRk7jkUGqp1GGy4lbIA _model_server_result.datetime_utc '2024-11-01 17:23:02' _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 3i4v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":283}' # _entry.id 3I4V # _exptl.entry_id 3I4V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 763.1 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4S,7R)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSAN-1-AMINIUM 4-OXIDE' _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 95.31 _cell.angle_gamma 90 _cell.entry_id 3I4V _cell.length_a 90.655 _cell.length_b 37.886 _cell.length_c 75.26 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3I4V _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -6.964889 0 74.937026 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 OH TYR 162 A TYR 162 1_555 B FE FE . A FE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc2 A NE2 HIS 220 A HIS 220 1_555 B FE FE . A FE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc3 A NE2 HIS 222 A HIS 222 1_555 B FE FE . A FE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc4 B FE FE . A FE 281 1_555 C O1 3CE . A 3CE 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc5 B FE FE . A FE 281 1_555 C O2 3CE . A 3CE 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? # _chem_comp.formula 'C42 H85 N O8 P 1' _chem_comp.formula_weight 763.1 _chem_comp.id 6PL _chem_comp.mon_nstd_flag . _chem_comp.name '(4S,7R)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSAN-1-AMINIUM 4-OXIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-PALMITOYL-2-STEAROYL-SN-GLYCERO-3-PHOSPHOCHOLINE # 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 C26 C25 6PL sing 15 n n C26 H261 6PL sing 16 n n C26 H262 6PL sing 17 n n C26 H263 6PL sing 18 n n C25 C24 6PL sing 19 n n C25 H251 6PL sing 20 n n C25 H252 6PL sing 21 n n C24 C23 6PL sing 22 n n C24 H241 6PL sing 23 n n C24 H242 6PL sing 24 n n C23 C22 6PL sing 25 n n C23 H231 6PL sing 26 n n C23 H232 6PL sing 27 n n C22 C21 6PL sing 28 n n C22 H221 6PL sing 29 n n C22 H222 6PL sing 30 n n C21 C20 6PL sing 31 n n C21 H211 6PL sing 32 n n C21 H212 6PL sing 33 n n C20 C19 6PL sing 34 n n C20 H201 6PL sing 35 n n C20 H202 6PL sing 36 n n C19 C18 6PL sing 37 n n C19 H191 6PL sing 38 n n C19 H192 6PL sing 39 n n C18 C17 6PL sing 40 n n C18 H181 6PL sing 41 n n C18 H182 6PL sing 42 n n C17 C16 6PL sing 43 n n C17 H171 6PL sing 44 n n C17 H172 6PL sing 45 n n C16 C15 6PL sing 46 n n C16 H161 6PL sing 47 n n C16 H162 6PL sing 48 n n C15 C14 6PL sing 49 n n C15 H151 6PL sing 50 n n C15 H152 6PL sing 51 n n C14 C13 6PL sing 52 n n C14 H141 6PL sing 53 n n C14 H142 6PL sing 54 n n C13 C12 6PL sing 55 n n C13 H131 6PL sing 56 n n C13 H132 6PL sing 57 n n C12 C11 6PL sing 58 n n C12 H121 6PL sing 59 n n C12 H122 6PL sing 60 n n C11 O11 6PL doub 61 n n C11 O3 6PL sing 62 n n O3 C3 6PL sing 63 n n C3 C2 6PL sing 64 n n C3 H31 6PL sing 65 n n C3 H32 6PL sing 66 n n C2 C1 6PL sing 67 n n C2 O2 6PL sing 68 n n C2 H2 6PL sing 69 n n C1 O3P 6PL sing 70 n n C1 H11 6PL sing 71 n n C1 H12 6PL sing 72 n n O3P P 6PL sing 73 n n P O1P 6PL doub 74 n n P O2P 6PL sing 75 n n P O4P 6PL sing 76 n n O2P H2P 6PL sing 77 n n O4P C4 6PL sing 78 n n C4 C5 6PL sing 79 n n C4 H41 6PL sing 80 n n C4 H42 6PL sing 81 n n C5 N 6PL sing 82 n n C5 H51 6PL sing 83 n n C5 H52 6PL sing 84 n n N C7 6PL sing 85 n n N C8 6PL sing 86 n n N C6 6PL sing 87 n n C7 H71 6PL sing 88 n n C7 H72 6PL sing 89 n n C7 H73 6PL sing 90 n n C8 H81 6PL sing 91 n n C8 H82 6PL sing 92 n n C8 H83 6PL sing 93 n n C6 H61 6PL sing 94 n n C6 H62 6PL sing 95 n n C6 H63 6PL sing 96 n n O2 C31 6PL sing 97 n n C31 O31 6PL doub 98 n n C31 C32 6PL sing 99 n n C32 C33 6PL sing 100 n n C32 H321 6PL sing 101 n n C32 H322 6PL sing 102 n n C33 C34 6PL sing 103 n n C33 H331 6PL sing 104 n n C33 H332 6PL sing 105 n n C34 C35 6PL sing 106 n n C34 H341 6PL sing 107 n n C34 H342 6PL sing 108 n n C35 C36 6PL sing 109 n n C35 H351 6PL sing 110 n n C35 H352 6PL sing 111 n n C36 C37 6PL sing 112 n n C36 H361 6PL sing 113 n n C36 H362 6PL sing 114 n n C37 C38 6PL sing 115 n n C37 H371 6PL sing 116 n n C37 H372 6PL sing 117 n n C38 C39 6PL sing 118 n n C38 H381 6PL sing 119 n n C38 H382 6PL sing 120 n n C39 C40 6PL sing 121 n n C39 H391 6PL sing 122 n n C39 H392 6PL sing 123 n n C40 C41 6PL sing 124 n n C40 H401 6PL sing 125 n n C40 H402 6PL sing 126 n n C41 C42 6PL sing 127 n n C41 H411 6PL sing 128 n n C41 H412 6PL sing 129 n n C42 C43 6PL sing 130 n n C42 H421 6PL sing 131 n n C42 H422 6PL sing 132 n n C43 C44 6PL sing 133 n n C43 H431 6PL sing 134 n n C43 H432 6PL sing 135 n n C44 C45 6PL sing 136 n n C44 H441 6PL sing 137 n n C44 H442 6PL sing 138 n n C45 C46 6PL sing 139 n n C45 H451 6PL sing 140 n n C45 H452 6PL sing 141 n n C46 C47 6PL sing 142 n n C46 H461 6PL sing 143 n n C46 H462 6PL sing 144 n n C47 C48 6PL sing 145 n n C47 H471 6PL sing 146 n n C47 H472 6PL sing 147 n n C48 H481 6PL sing 148 n n C48 H482 6PL sing 149 n n C48 H483 6PL sing 150 n n # _atom_sites.entry_id 3I4V _atom_sites.fract_transf_matrix[1][1] 0.011031 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001025 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.026395 _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] 0.013344 _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 FE A 1 281 281 FE FE . C 3 3CE A 1 282 1 3CE 3CE . D 4 6PL A 1 283 1 6PL 6PL . E 5 HOH A 1 284 1 HOH HOH . E 5 HOH A 2 285 2 HOH HOH . E 5 HOH A 3 286 3 HOH HOH . E 5 HOH A 4 287 4 HOH HOH . E 5 HOH A 5 288 5 HOH HOH . E 5 HOH A 6 289 6 HOH HOH . E 5 HOH A 7 290 7 HOH HOH . E 5 HOH A 8 291 8 HOH HOH . E 5 HOH A 9 292 9 HOH HOH . E 5 HOH A 10 293 10 HOH HOH . E 5 HOH A 11 294 11 HOH HOH . E 5 HOH A 12 295 12 HOH HOH . E 5 HOH A 13 296 13 HOH HOH . E 5 HOH A 14 297 14 HOH HOH . E 5 HOH A 15 298 15 HOH HOH . E 5 HOH A 16 299 16 HOH HOH . E 5 HOH A 17 300 17 HOH HOH . E 5 HOH A 18 301 18 HOH HOH . E 5 HOH A 19 302 19 HOH HOH . E 5 HOH A 20 303 20 HOH HOH . E 5 HOH A 21 304 21 HOH HOH . E 5 HOH A 22 305 22 HOH HOH . E 5 HOH A 23 306 23 HOH HOH . E 5 HOH A 24 307 24 HOH HOH . E 5 HOH A 25 308 25 HOH HOH . E 5 HOH A 26 309 26 HOH HOH . E 5 HOH A 27 310 27 HOH HOH . E 5 HOH A 28 311 28 HOH HOH . E 5 HOH A 29 312 29 HOH HOH . E 5 HOH A 30 313 30 HOH HOH . E 5 HOH A 31 314 31 HOH HOH . E 5 HOH A 32 315 32 HOH HOH . E 5 HOH A 33 316 33 HOH HOH . E 5 HOH A 34 317 34 HOH HOH . E 5 HOH A 35 318 35 HOH HOH . E 5 HOH A 36 319 36 HOH HOH . E 5 HOH A 37 320 37 HOH HOH . E 5 HOH A 38 321 38 HOH HOH . E 5 HOH A 39 322 39 HOH HOH . E 5 HOH A 40 323 40 HOH HOH . E 5 HOH A 41 324 41 HOH HOH . E 5 HOH A 42 325 42 HOH HOH . E 5 HOH A 43 326 43 HOH HOH . E 5 HOH A 44 327 44 HOH HOH . E 5 HOH A 45 328 45 HOH HOH . E 5 HOH A 46 329 46 HOH HOH . E 5 HOH A 47 330 47 HOH HOH . E 5 HOH A 48 331 48 HOH HOH . E 5 HOH A 49 332 49 HOH HOH . E 5 HOH A 50 333 50 HOH HOH . E 5 HOH A 51 334 51 HOH HOH . E 5 HOH A 52 335 52 HOH HOH . E 5 HOH A 53 336 53 HOH HOH . E 5 HOH A 54 337 54 HOH HOH . E 5 HOH A 55 338 55 HOH HOH . E 5 HOH A 56 339 56 HOH HOH . E 5 HOH A 57 340 57 HOH HOH . E 5 HOH A 58 341 58 HOH HOH . E 5 HOH A 59 342 59 HOH HOH . E 5 HOH A 60 343 60 HOH HOH . E 5 HOH A 61 344 61 HOH HOH . E 5 HOH A 62 345 62 HOH HOH . E 5 HOH A 63 346 63 HOH HOH . E 5 HOH A 64 347 64 HOH HOH . E 5 HOH A 65 348 65 HOH HOH . E 5 HOH A 66 349 66 HOH HOH . E 5 HOH A 67 350 67 HOH HOH . E 5 HOH A 68 351 68 HOH HOH . E 5 HOH A 69 352 69 HOH HOH . E 5 HOH A 70 353 70 HOH HOH . E 5 HOH A 71 354 71 HOH HOH . E 5 HOH A 72 355 72 HOH HOH . E 5 HOH A 73 356 73 HOH HOH . E 5 HOH A 74 357 74 HOH HOH . E 5 HOH A 75 358 75 HOH HOH . E 5 HOH A 76 359 76 HOH HOH . E 5 HOH A 77 360 77 HOH HOH . E 5 HOH A 78 361 78 HOH HOH . E 5 HOH A 79 362 79 HOH HOH . E 5 HOH A 80 363 80 HOH HOH . E 5 HOH A 81 364 81 HOH HOH . E 5 HOH A 82 365 82 HOH HOH . E 5 HOH A 83 366 83 HOH HOH . E 5 HOH A 84 367 84 HOH HOH . E 5 HOH A 85 368 85 HOH HOH . E 5 HOH A 86 369 86 HOH HOH . E 5 HOH A 87 370 87 HOH HOH . E 5 HOH A 88 371 88 HOH HOH . E 5 HOH A 89 372 89 HOH HOH . E 5 HOH A 90 373 90 HOH HOH . E 5 HOH A 91 374 91 HOH HOH . E 5 HOH A 92 375 92 HOH HOH . E 5 HOH A 93 376 93 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 C24 6PL . . . D 4 3.568 8.77 37.296 1 32.72 ? C24 6PL 283 A 1 HETATM 2 C C23 6PL . . . D 4 3.132 7.318 37.385 1 35.22 ? C23 6PL 283 A 1 HETATM 3 C C22 6PL . . . D 4 4.336 6.413 37.147 1 36.16 ? C22 6PL 283 A 1 HETATM 4 C C21 6PL . . . D 4 5.101 6.21 38.449 1 37.12 ? C21 6PL 283 A 1 HETATM 5 C C20 6PL . . . D 4 6.11 5.072 38.334 1 37.61 ? C20 6PL 283 A 1 HETATM 6 C C19 6PL . . . D 4 7.045 5.119 39.534 1 39.65 ? C19 6PL 283 A 1 HETATM 7 C C18 6PL . . . D 4 7.89 3.86 39.633 1 39.73 ? C18 6PL 283 A 1 HETATM 8 C C17 6PL . . . D 4 9.237 4.198 40.244 1 41.89 ? C17 6PL 283 A 1 HETATM 9 C C16 6PL . . . D 4 9.36 3.654 41.646 1 44.82 ? C16 6PL 283 A 1 HETATM 10 C C15 6PL . . . D 4 10.2 2.389 41.66 1 44.88 ? C15 6PL 283 A 1 HETATM 11 C C14 6PL . . . D 4 11.252 2.479 42.738 1 47.82 ? C14 6PL 283 A 1 HETATM 12 C C13 6PL . . . D 4 10.898 1.63 43.949 1 48.03 ? C13 6PL 283 A 1 HETATM 13 C C12 6PL . . . D 4 12.153 1.131 44.657 1 49.2 ? C12 6PL 283 A 1 HETATM 14 C C11 6PL . . . D 4 12.73 -0.046 43.905 1 51.39 ? C11 6PL 283 A 1 HETATM 15 O O11 6PL . . . D 4 13.026 0.045 42.722 1 55.06 ? O11 6PL 283 A 1 HETATM 16 O O3 6PL . . . D 4 12.942 -1.311 44.566 1 52.01 ? O3 6PL 283 A 1 HETATM 17 C C3 6PL . . . D 4 13.008 -2.337 43.586 1 53.03 ? C3 6PL 283 A 1 HETATM 18 C C2 6PL . . . D 4 11.937 -3.392 43.814 1 54.48 ? C2 6PL 283 A 1 HETATM 19 C C1 6PL . . . D 4 12.277 -4.596 42.96 1 57.84 ? C1 6PL 283 A 1 HETATM 20 O O3P 6PL . . . D 4 13.367 -5.273 43.572 1 62.46 ? O3P 6PL 283 A 1 HETATM 21 P P 6PL . . . D 4 12.797 -6.297 44.682 1 65.42 ? P 6PL 283 A 1 HETATM 22 O O2 6PL . . . D 4 10.645 -2.908 43.433 1 52.89 ? O2 6PL 283 A 1 HETATM 23 C C31 6PL . . . D 4 9.797 -2.501 44.561 1 48.93 ? C31 6PL 283 A 1 HETATM 24 O O31 6PL . . . D 4 9.672 -3.211 45.524 1 45.5 ? O31 6PL 283 A 1 HETATM 25 C C32 6PL . . . D 4 9.064 -1.201 44.518 1 47.04 ? C32 6PL 283 A 1 HETATM 26 C C33 6PL . . . D 4 7.611 -1.463 44.163 1 46.32 ? C33 6PL 283 A 1 HETATM 27 C C34 6PL . . . D 4 6.835 -0.159 44.176 1 44.79 ? C34 6PL 283 A 1 HETATM 28 C C35 6PL . . . D 4 7.295 0.738 43.037 1 45.53 ? C35 6PL 283 A 1 HETATM 29 C C36 6PL . . . D 4 6.194 0.94 42.005 1 47.39 ? C36 6PL 283 A 1 HETATM 30 C C37 6PL . . . D 4 4.941 1.554 42.618 1 45.97 ? C37 6PL 283 A 1 HETATM 31 C C38 6PL . . . D 4 4.589 2.838 41.887 1 45.06 ? C38 6PL 283 A 1 HETATM 32 C C39 6PL . . . D 4 3.166 3.28 42.216 1 44.46 ? C39 6PL 283 A 1 HETATM 33 C C40 6PL . . . D 4 2.989 4.767 41.902 1 46.41 ? C40 6PL 283 A 1 HETATM 34 C C41 6PL . . . D 4 1.65 5.051 41.224 1 44.69 ? C41 6PL 283 A 1 HETATM 35 C C42 6PL . . . D 4 0.468 4.446 41.981 1 45.98 ? C42 6PL 283 A 1 HETATM 36 C C43 6PL . . . D 4 -0.82 4.629 41.185 1 49.6 ? C43 6PL 283 A 1 HETATM 37 C C44 6PL . . . D 4 -0.955 3.596 40.056 1 50.82 ? C44 6PL 283 A 1 HETATM 38 C C45 6PL . . . D 4 -2.402 3.501 39.566 1 51.81 ? C45 6PL 283 A 1 HETATM 39 C C46 6PL . . . D 4 -3.115 2.251 40.101 1 51.56 ? C46 6PL 283 A 1 HETATM 40 C C47 6PL . . . D 4 -4.543 2.148 39.59 1 48.29 ? C47 6PL 283 A 1 HETATM 41 C C48 6PL . . . D 4 -5.689 2.957 40.166 1 46.24 ? C48 6PL 283 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 41 #