data_6V9E # _model_server_result.job_id AHBy6FGSW-cw6VPVktYumg _model_server_result.datetime_utc '2024-11-16 06:41:39' _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 6v9e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 6V9E # _exptl.entry_id 6V9E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 557.725 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "1,1',1'',1''',1''''-[(3R,5S,7S,9R)-decane-1,3,5,7,9-pentayl]penta(pyrrolidin-2-one)" _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 90 _cell.entry_id 6V9E _cell.length_a 91.052 _cell.length_b 91.052 _cell.length_c 134.042 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6V9E _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # _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 # _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 NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc7 B MN MN . A MN 201 1_555 D O04 QQP . A QQP 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc8 C MN MN . A MN 202 1_555 D O20 QQP . A QQP 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.79 ? metalc ? metalc9 C MN MN . A MN 202 1_555 G O HOH . A HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc10 C MN MN . A MN 202 1_555 G O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? # _chem_comp.formula 'C30 H47 N5 O5' _chem_comp.formula_weight 557.725 _chem_comp.id Y24 _chem_comp.mon_nstd_flag . _chem_comp.name "1,1',1'',1''',1''''-[(3R,5S,7S,9R)-decane-1,3,5,7,9-pentayl]penta(pyrrolidin-2-one)" _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 C38 C41 Y24 sing 431 n n C38 N07 Y24 sing 432 n n C32 C33 Y24 sing 433 n n C32 C31 Y24 sing 434 n n C33 N05 Y24 sing 435 n n C41 C40 Y24 sing 436 n n C31 C30 Y24 sing 437 n n N07 C09 Y24 sing 438 n n N07 C39 Y24 sing 439 n n C09 C08 Y24 sing 440 n n C40 C39 Y24 sing 441 n n O03 C29 Y24 doub 442 n n C08 C07 Y24 sing 443 n n N05 C30 Y24 sing 444 n n N05 C05 Y24 sing 445 n n C30 O04 Y24 doub 446 n n C39 O07 Y24 doub 447 n n C29 C28 Y24 sing 448 n n C29 N04 Y24 sing 449 n n C28 C27 Y24 sing 450 n n O06 C37 Y24 doub 451 n n C05 C04 Y24 sing 452 n n C05 C06 Y24 sing 453 n n C27 C26 Y24 sing 454 n n C07 C06 Y24 sing 455 n n C07 N06 Y24 sing 456 n n C37 N06 Y24 sing 457 n n C37 C36 Y24 sing 458 n n N04 C03 Y24 sing 459 n n N04 C26 Y24 sing 460 n n C04 C03 Y24 sing 461 n n N06 C34 Y24 sing 462 n n C03 C02 Y24 sing 463 n n C11 C01 Y24 sing 464 n n C36 C35 Y24 sing 465 n n C35 C34 Y24 sing 466 n n C22 C25 Y24 sing 467 n n C22 N03 Y24 sing 468 n n C02 C01 Y24 sing 469 n n C01 N03 Y24 sing 470 n n C25 C24 Y24 sing 471 n n N03 C23 Y24 sing 472 n n C24 C23 Y24 sing 473 n n C23 O02 Y24 doub 474 n n C11 H1 Y24 sing 475 n n C11 H2 Y24 sing 476 n n C11 H3 Y24 sing 477 n n C01 H4 Y24 sing 478 n n C02 H5 Y24 sing 479 n n C02 H6 Y24 sing 480 n n C03 H7 Y24 sing 481 n n C04 H8 Y24 sing 482 n n C04 H9 Y24 sing 483 n n C05 H10 Y24 sing 484 n n C06 H11 Y24 sing 485 n n C06 H12 Y24 sing 486 n n C07 H13 Y24 sing 487 n n C08 H14 Y24 sing 488 n n C08 H15 Y24 sing 489 n n C09 H16 Y24 sing 490 n n C09 H17 Y24 sing 491 n n C22 H18 Y24 sing 492 n n C22 H19 Y24 sing 493 n n C24 H20 Y24 sing 494 n n C24 H21 Y24 sing 495 n n C25 H22 Y24 sing 496 n n C25 H23 Y24 sing 497 n n C26 H24 Y24 sing 498 n n C26 H25 Y24 sing 499 n n C27 H26 Y24 sing 500 n n C27 H27 Y24 sing 501 n n C28 H28 Y24 sing 502 n n C28 H29 Y24 sing 503 n n C31 H30 Y24 sing 504 n n C31 H31 Y24 sing 505 n n C32 H32 Y24 sing 506 n n C32 H33 Y24 sing 507 n n C33 H34 Y24 sing 508 n n C33 H35 Y24 sing 509 n n C34 H36 Y24 sing 510 n n C34 H37 Y24 sing 511 n n C35 H38 Y24 sing 512 n n C35 H39 Y24 sing 513 n n C36 H40 Y24 sing 514 n n C36 H41 Y24 sing 515 n n C38 H42 Y24 sing 516 n n C38 H43 Y24 sing 517 n n C40 H44 Y24 sing 518 n n C40 H45 Y24 sing 519 n n C41 H46 Y24 sing 520 n n C41 H47 Y24 sing 521 n n # _atom_sites.entry_id 6V9E _atom_sites.fract_transf_matrix[1][1] 0.010983 _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] 0.010983 _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] 0.00746 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 QQP A 1 203 301 QQP 632 . E 4 Y24 A 1 204 401 Y24 PVP . F 5 SO4 A 1 205 1 SO4 SO4 . G 6 HOH A 1 301 43 HOH HOH . G 6 HOH A 2 302 52 HOH HOH . G 6 HOH A 3 303 24 HOH HOH . G 6 HOH A 4 304 54 HOH HOH . G 6 HOH A 5 305 26 HOH HOH . G 6 HOH A 6 306 25 HOH HOH . G 6 HOH A 7 307 13 HOH HOH . G 6 HOH A 8 308 27 HOH HOH . G 6 HOH A 9 309 51 HOH HOH . G 6 HOH A 10 310 40 HOH HOH . G 6 HOH A 11 311 6 HOH HOH . G 6 HOH A 12 312 7 HOH HOH . G 6 HOH A 13 313 38 HOH HOH . G 6 HOH A 14 314 1 HOH HOH . G 6 HOH A 15 315 17 HOH HOH . G 6 HOH A 16 316 39 HOH HOH . G 6 HOH A 17 317 2 HOH HOH . G 6 HOH A 18 318 23 HOH HOH . G 6 HOH A 19 319 14 HOH HOH . G 6 HOH A 20 320 15 HOH HOH . G 6 HOH A 21 321 46 HOH HOH . G 6 HOH A 22 322 19 HOH HOH . G 6 HOH A 23 323 5 HOH HOH . G 6 HOH A 24 324 47 HOH HOH . G 6 HOH A 25 325 37 HOH HOH . G 6 HOH A 26 326 29 HOH HOH . G 6 HOH A 27 327 53 HOH HOH . G 6 HOH A 28 328 18 HOH HOH . G 6 HOH A 29 329 50 HOH HOH . G 6 HOH A 30 330 42 HOH HOH . G 6 HOH A 31 331 33 HOH HOH . G 6 HOH A 32 332 48 HOH HOH . G 6 HOH A 33 333 41 HOH HOH . G 6 HOH A 34 334 8 HOH HOH . G 6 HOH A 35 335 10 HOH HOH . G 6 HOH A 36 336 31 HOH HOH . G 6 HOH A 37 337 36 HOH HOH . G 6 HOH A 38 338 30 HOH HOH . G 6 HOH A 39 339 28 HOH HOH . G 6 HOH A 40 340 22 HOH HOH . G 6 HOH A 41 341 34 HOH HOH . G 6 HOH A 42 342 35 HOH HOH . G 6 HOH A 43 343 32 HOH HOH . G 6 HOH A 44 344 45 HOH HOH . G 6 HOH A 45 345 44 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 C11 Y24 . . . E 4 31.665 48.617 -11.386 1 127.33 ? C11 Y24 204 A 1 HETATM 2 C C01 Y24 . . . E 4 31.079 48.2 -10.033 1 122.28 ? C01 Y24 204 A 1 HETATM 3 C C02 Y24 . . . E 4 30.551 46.752 -10.063 1 120.39 ? C02 Y24 204 A 1 HETATM 4 C C03 Y24 . . . E 4 30.19 46.275 -11.477 1 116.3 ? C03 Y24 204 A 1 HETATM 5 C C04 Y24 . . . E 4 30.221 44.734 -11.545 1 108.54 ? C04 Y24 204 A 1 HETATM 6 C C05 Y24 . . . E 4 31.34 44.068 -12.399 1 115.65 ? C05 Y24 204 A 1 HETATM 7 C C06 Y24 . . . E 4 32.399 43.348 -11.534 1 116.44 ? C06 Y24 204 A 1 HETATM 8 C C07 Y24 . . . E 4 32.555 41.847 -11.875 1 110.98 ? C07 Y24 204 A 1 HETATM 9 C C08 Y24 . . . E 4 32.196 41.6 -13.352 1 102.36 ? C08 Y24 204 A 1 HETATM 10 C C09 Y24 . . . E 4 33.092 40.566 -14.035 1 107.1 ? C09 Y24 204 A 1 HETATM 11 C C22 Y24 . . . E 4 29.329 50.059 -10.541 1 117.98 ? C22 Y24 204 A 1 HETATM 12 C C23 Y24 . . . E 4 29.554 49.351 -8.286 1 128.6 ? C23 Y24 204 A 1 HETATM 13 C C24 Y24 . . . E 4 28.482 50.433 -8.314 1 120.38 ? C24 Y24 204 A 1 HETATM 14 C C25 Y24 . . . E 4 28.674 51.113 -9.653 1 123.59 ? C25 Y24 204 A 1 HETATM 15 C C26 Y24 . . . E 4 27.599 46.501 -11.046 1 104.35 ? C26 Y24 204 A 1 HETATM 16 C C27 Y24 . . . E 4 26.482 46.924 -12.012 1 86.54 ? C27 Y24 204 A 1 HETATM 17 C C28 Y24 . . . E 4 27.057 48.049 -12.797 1 82.35 ? C28 Y24 204 A 1 HETATM 18 C C29 Y24 . . . E 4 28.53 47.755 -12.844 1 105.99 ? C29 Y24 204 A 1 HETATM 19 C C30 Y24 . . . E 4 33.141 45.877 -13.086 1 127.42 ? C30 Y24 204 A 1 HETATM 20 C C31 Y24 . . . E 4 33.485 46.585 -14.385 1 128.29 ? C31 Y24 204 A 1 HETATM 21 C C32 Y24 . . . E 4 32.254 46.417 -15.233 1 120.28 ? C32 Y24 204 A 1 HETATM 22 C C33 Y24 . . . E 4 31.665 45.084 -14.77 1 117.46 ? C33 Y24 204 A 1 HETATM 23 C C34 Y24 . . . E 4 34.046 40.134 -10.616 1 112.13 ? C34 Y24 204 A 1 HETATM 24 C C35 Y24 . . . E 4 35.472 39.627 -10.856 1 107.14 ? C35 Y24 204 A 1 HETATM 25 C C36 Y24 . . . E 4 36.237 40.898 -11.204 1 103.66 ? C36 Y24 204 A 1 HETATM 26 C C37 Y24 . . . E 4 35.185 41.792 -11.845 1 116.01 ? C37 Y24 204 A 1 HETATM 27 C C38 Y24 . . . E 4 32.654 38.343 -15.256 1 94.51 ? C38 Y24 204 A 1 HETATM 28 C C39 Y24 . . . E 4 31.758 38.499 -13.055 1 109.31 ? C39 Y24 204 A 1 HETATM 29 C C40 Y24 . . . E 4 31.415 37.12 -13.625 1 105.42 ? C40 Y24 204 A 1 HETATM 30 C C41 Y24 . . . E 4 32.445 36.931 -14.725 1 92.85 ? C41 Y24 204 A 1 HETATM 31 N N03 Y24 . . . E 4 30.044 49.147 -9.645 1 119.6 ? N03 Y24 204 A 1 HETATM 32 N N04 Y24 . . . E 4 28.863 46.804 -11.776 1 112.44 ? N04 Y24 204 A 1 HETATM 33 N N05 Y24 . . . E 4 32.007 44.969 -13.344 1 118.62 ? N05 Y24 204 A 1 HETATM 34 N N06 Y24 . . . E 4 33.865 41.298 -11.484 1 121.87 ? N06 Y24 204 A 1 HETATM 35 N N07 Y24 . . . E 4 32.522 39.221 -14.092 1 110.32 ? N07 Y24 204 A 1 HETATM 36 O O02 Y24 . . . E 4 29.926 48.773 -7.324 1 140.5 ? O02 Y24 204 A 1 HETATM 37 O O03 Y24 . . . E 4 29.303 48.221 -13.617 1 114.49 ? O03 Y24 204 A 1 HETATM 38 O O04 Y24 . . . E 4 33.694 46.056 -12.05 1 127.06 ? O04 Y24 204 A 1 HETATM 39 O O06 Y24 . . . E 4 35.413 42.723 -12.545 1 118.23 ? O06 Y24 204 A 1 HETATM 40 O O07 Y24 . . . E 4 31.445 38.872 -11.971 1 96.52 ? O07 Y24 204 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 40 #