data_5YCK # _model_server_result.job_id 52CORGu-Oa-g-M0o7LO06g _model_server_result.datetime_utc '2024-11-26 03:25:33' _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 5yck # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 5YCK # _exptl.entry_id 5YCK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 356.54 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _entity.pdbx_number_of_molecules 3 _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 5YCK _cell.length_a 60.65 _cell.length_b 69.24 _cell.length_c 116.95 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YCK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 D N N ? 3 E N N ? 3 F 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 metalc ? metalc1 B RB RB . A RB 501 1_555 G O HOH . A HOH 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.092 ? metalc ? metalc2 B RB RB . A RB 501 1_555 G O HOH . A HOH 676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.888 ? # _chem_comp.formula 'C21 H40 O4' _chem_comp.formula_weight 356.54 _chem_comp.id OLC _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-Oleoyl-R-glycerol # 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 C18 C17 OLC sing 237 n n C10 C9 OLC doub 238 n n C10 C11 OLC sing 239 n n C9 C8 OLC sing 240 n n C17 C16 OLC sing 241 z n C11 C12 OLC sing 242 n n C8 C7 OLC sing 243 n n C24 C22 OLC sing 244 n n C24 O25 OLC sing 245 n n C16 C15 OLC sing 246 n n C12 C13 OLC sing 247 n n C7 C6 OLC sing 248 n n C15 C14 OLC sing 249 n n C13 C14 OLC sing 250 n n C6 C5 OLC sing 251 n n C5 C4 OLC sing 252 n n C4 C3 OLC sing 253 n n C3 C2 OLC sing 254 n n C2 C1 OLC sing 255 n n C21 C22 OLC sing 256 n n C21 O20 OLC sing 257 n n C1 O19 OLC doub 258 n n C1 O20 OLC sing 259 n n C22 O23 OLC sing 260 n n C18 H18 OLC sing 261 n n C18 H18A OLC sing 262 n n C18 H18B OLC sing 263 n n C10 H10 OLC sing 264 n n C9 H9 OLC sing 265 n n C17 H17 OLC sing 266 n n C17 H17A OLC sing 267 n n C11 H11 OLC sing 268 n n C11 H11A OLC sing 269 n n C8 H8 OLC sing 270 n n C8 H8A OLC sing 271 n n C24 H24 OLC sing 272 n n C24 H24A OLC sing 273 n n C16 H16 OLC sing 274 n n C16 H16A OLC sing 275 n n C12 H12 OLC sing 276 n n C12 H12A OLC sing 277 n n C7 H7 OLC sing 278 n n C7 H7A OLC sing 279 n n C15 H15 OLC sing 280 n n C15 H15A OLC sing 281 n n C13 H13 OLC sing 282 n n C13 H13A OLC sing 283 n n C6 H6 OLC sing 284 n n C6 H6A OLC sing 285 n n C14 H14 OLC sing 286 n n C14 H14A OLC sing 287 n n C5 H5 OLC sing 288 n n C5 H5A OLC sing 289 n n C4 H4 OLC sing 290 n n C4 H4A OLC sing 291 n n C3 H3 OLC sing 292 n n C3 H3A OLC sing 293 n n C2 H2 OLC sing 294 n n C2 H2A OLC sing 295 n n C21 H21 OLC sing 296 n n C21 H21A OLC sing 297 n n C22 H22 OLC sing 298 n n O25 HO25 OLC sing 299 n n O23 HO23 OLC sing 300 n n # _atom_sites.entry_id 5YCK _atom_sites.fract_transf_matrix[1][1] 0.016488 _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] 0.014443 _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] 0.008551 _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 RB A 1 501 1 RB RB . C 2 RB A 1 502 2 RB RB . D 3 OLC A 1 503 1 OLC OLC . E 3 OLC A 1 504 6 OLC OLC . F 3 OLC A 1 505 7 OLC OLC . G 4 HOH A 1 601 1 HOH HOH . G 4 HOH A 2 602 29 HOH HOH . G 4 HOH A 3 603 73 HOH HOH . G 4 HOH A 4 604 31 HOH HOH . G 4 HOH A 5 605 80 HOH HOH . G 4 HOH A 6 606 37 HOH HOH . G 4 HOH A 7 607 22 HOH HOH . G 4 HOH A 8 608 53 HOH HOH . G 4 HOH A 9 609 16 HOH HOH . G 4 HOH A 10 610 46 HOH HOH . G 4 HOH A 11 611 49 HOH HOH . G 4 HOH A 12 612 3 HOH HOH . G 4 HOH A 13 613 32 HOH HOH . G 4 HOH A 14 614 72 HOH HOH . G 4 HOH A 15 615 44 HOH HOH . G 4 HOH A 16 616 5 HOH HOH . G 4 HOH A 17 617 40 HOH HOH . G 4 HOH A 18 618 25 HOH HOH . G 4 HOH A 19 619 9 HOH HOH . G 4 HOH A 20 620 24 HOH HOH . G 4 HOH A 21 621 23 HOH HOH . G 4 HOH A 22 622 4 HOH HOH . G 4 HOH A 23 623 27 HOH HOH . G 4 HOH A 24 624 17 HOH HOH . G 4 HOH A 25 625 67 HOH HOH . G 4 HOH A 26 626 11 HOH HOH . G 4 HOH A 27 627 39 HOH HOH . G 4 HOH A 28 628 51 HOH HOH . G 4 HOH A 29 629 18 HOH HOH . G 4 HOH A 30 630 15 HOH HOH . G 4 HOH A 31 631 34 HOH HOH . G 4 HOH A 32 632 50 HOH HOH . G 4 HOH A 33 633 42 HOH HOH . G 4 HOH A 34 634 36 HOH HOH . G 4 HOH A 35 635 7 HOH HOH . G 4 HOH A 36 636 41 HOH HOH . G 4 HOH A 37 637 19 HOH HOH . G 4 HOH A 38 638 43 HOH HOH . G 4 HOH A 39 639 13 HOH HOH . G 4 HOH A 40 640 52 HOH HOH . G 4 HOH A 41 641 6 HOH HOH . G 4 HOH A 42 642 26 HOH HOH . G 4 HOH A 43 643 28 HOH HOH . G 4 HOH A 44 644 75 HOH HOH . G 4 HOH A 45 645 20 HOH HOH . G 4 HOH A 46 646 56 HOH HOH . G 4 HOH A 47 647 69 HOH HOH . G 4 HOH A 48 648 33 HOH HOH . G 4 HOH A 49 649 8 HOH HOH . G 4 HOH A 50 650 2 HOH HOH . G 4 HOH A 51 651 54 HOH HOH . G 4 HOH A 52 652 48 HOH HOH . G 4 HOH A 53 653 30 HOH HOH . G 4 HOH A 54 654 10 HOH HOH . G 4 HOH A 55 655 66 HOH HOH . G 4 HOH A 56 656 57 HOH HOH . G 4 HOH A 57 657 77 HOH HOH . G 4 HOH A 58 658 61 HOH HOH . G 4 HOH A 59 659 45 HOH HOH . G 4 HOH A 60 660 71 HOH HOH . G 4 HOH A 61 661 64 HOH HOH . G 4 HOH A 62 662 12 HOH HOH . G 4 HOH A 63 663 81 HOH HOH . G 4 HOH A 64 664 60 HOH HOH . G 4 HOH A 65 665 59 HOH HOH . G 4 HOH A 66 666 83 HOH HOH . G 4 HOH A 67 667 82 HOH HOH . G 4 HOH A 68 668 76 HOH HOH . G 4 HOH A 69 669 47 HOH HOH . G 4 HOH A 70 670 70 HOH HOH . G 4 HOH A 71 671 62 HOH HOH . G 4 HOH A 72 672 58 HOH HOH . G 4 HOH A 73 673 65 HOH HOH . G 4 HOH A 74 674 79 HOH HOH . G 4 HOH A 75 675 21 HOH HOH . G 4 HOH A 76 676 14 HOH HOH . G 4 HOH A 77 677 35 HOH HOH . G 4 HOH A 78 678 84 HOH HOH . G 4 HOH A 79 679 74 HOH HOH . G 4 HOH A 80 680 63 HOH HOH . G 4 HOH A 81 681 38 HOH HOH . G 4 HOH A 82 682 55 HOH HOH . G 4 HOH A 83 683 78 HOH HOH . G 4 HOH A 84 684 68 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 C18 OLC . . . D 3 46.312 16.762 116.896 1 59.17 ? C18 OLC 503 A 1 HETATM 2 C C10 OLC . . . D 3 53.453 14.716 112.606 1 42.19 ? C10 OLC 503 A 1 HETATM 3 C C9 OLC . . . D 3 54.274 15.101 111.636 1 42.13 ? C9 OLC 503 A 1 HETATM 4 C C17 OLC . . . D 3 47.543 16.994 116.046 1 42.63 ? C17 OLC 503 A 1 HETATM 5 C C11 OLC . . . D 3 53.699 15.16 114.027 1 33.92 ? C11 OLC 503 A 1 HETATM 6 C C8 OLC . . . D 3 53.999 14.645 110.226 1 45.48 ? C8 OLC 503 A 1 HETATM 7 C C24 OLC . . . D 3 57.779 12.595 100.055 1 54.18 ? C24 OLC 503 A 1 HETATM 8 C C16 OLC . . . D 3 47.552 16.057 114.845 1 43.63 ? C16 OLC 503 A 1 HETATM 9 C C12 OLC . . . D 3 52.558 16.063 114.481 1 30.86 ? C12 OLC 503 A 1 HETATM 10 C C7 OLC . . . D 3 53.427 15.814 109.435 1 39.71 ? C7 OLC 503 A 1 HETATM 11 C C15 OLC . . . D 3 48.801 16.249 113.992 1 39.04 ? C15 OLC 503 A 1 HETATM 12 C C13 OLC . . . D 3 51.204 15.516 114.042 1 31.76 ? C13 OLC 503 A 1 HETATM 13 C C6 OLC . . . D 3 52.542 15.303 108.306 1 37.36 ? C6 OLC 503 A 1 HETATM 14 C C14 OLC . . . D 3 50.069 16.156 114.833 1 35.5 ? C14 OLC 503 A 1 HETATM 15 C C5 OLC . . . D 3 53.01 15.844 106.963 1 31.67 ? C5 OLC 503 A 1 HETATM 16 C C4 OLC . . . D 3 52.407 15.04 105.819 1 31.96 ? C4 OLC 503 A 1 HETATM 17 C C3 OLC . . . D 3 53.048 15.439 104.499 1 29.73 ? C3 OLC 503 A 1 HETATM 18 C C2 OLC . . . D 3 52.964 14.306 103.486 1 35.35 ? C2 OLC 503 A 1 HETATM 19 C C21 OLC . . . D 3 55.551 13.438 100.767 1 55.54 ? C21 OLC 503 A 1 HETATM 20 C C1 OLC . . . D 3 54.244 14.293 102.689 1 40.85 ? C1 OLC 503 A 1 HETATM 21 C C22 OLC . . . D 3 56.58 12.334 100.956 1 52.35 ? C22 OLC 503 A 1 HETATM 22 O O19 OLC . . . D 3 55.087 15.159 102.859 1 39.7 ? O19 OLC 503 A 1 HETATM 23 O O25 OLC . . . D 3 58.463 13.77 100.504 1 49.66 ? O25 OLC 503 A 1 HETATM 24 O O23 OLC . . . D 3 57.004 12.351 102.321 1 57.18 ? O23 OLC 503 A 1 HETATM 25 O O20 OLC . . . D 3 54.503 13.248 101.714 1 51.7 ? O20 OLC 503 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 25 #