data_5L9D # _model_server_result.job_id HMI-X7KWSWMJiyZyB5egLA _model_server_result.datetime_utc '2024-11-08 13:52:25' _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 5l9d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 5L9D # _exptl.entry_id 5L9D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.173 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'TRIETHYLENE GLYCOL' _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 5L9D _cell.length_a 67.782 _cell.length_b 69.249 _cell.length_c 87.803 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L9D _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 _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 5 _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 disulf ? disulf1 A SG CYS 22 H CYS 22 1_555 A SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf2 A SG CYS 145 H CYS 140 1_555 A SG CYS 200 H CYS 195 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 145 H CYS 140 1_555 A SG CYS 200 H CYS 195 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.008 ? disulf ? disulf4 B SG CYS 23 L CYS 23 1_555 B SG CYS 89 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? disulf ? disulf5 B SG CYS 135 L CYS 134 1_555 B SG CYS 195 L CYS 194 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 B SG CYS 135 L CYS 134 1_555 B SG CYS 195 L CYS 194 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.043 ? covale ? covale1 B ND2 ASN 26 L ASN 26 1_555 K C1 NAG . L NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? metalc ? metalc1 A OD1 ASP 56 H ASP 55 1_555 H K K . H K 306 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? metalc ? metalc2 A O SER 72 H SER 71 1_555 H K K . H K 306 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc3 A O ASP 212 H ASP 207 1_555 H K K . H K 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.849 ? metalc ? metalc4 A OD2 ASP 212 H ASP 207 1_555 H K K . H K 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? metalc ? metalc5 H K K . H K 306 1_555 L O HOH . H HOH 409 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.435 ? metalc ? metalc6 H K K . H K 306 1_555 L O HOH . H HOH 442 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.917 ? metalc ? metalc7 H K K . H K 306 1_555 L O HOH . H HOH 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.012 ? metalc ? metalc8 H K K . H K 306 1_555 L O HOH . H HOH 513 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.038 ? # _chem_comp.formula 'C6 H14 O4' _chem_comp.formula_weight 150.173 _chem_comp.id PGE _chem_comp.mon_nstd_flag . _chem_comp.name 'TRIETHYLENE GLYCOL' _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 O1 PGE sing 371 n n C1 C2 PGE sing 372 n n C1 H1 PGE sing 373 n n C1 H12 PGE sing 374 n n O1 HO1 PGE sing 375 n n C2 O2 PGE sing 376 n n C2 H2 PGE sing 377 n n C2 H22 PGE sing 378 n n O2 C3 PGE sing 379 n n C3 C4 PGE sing 380 n n C3 H3 PGE sing 381 n n C3 H32 PGE sing 382 n n C4 O3 PGE sing 383 n n C4 H4 PGE sing 384 n n C4 H42 PGE sing 385 n n O4 C6 PGE sing 386 n n O4 HO4 PGE sing 387 n n C6 C5 PGE sing 388 n n C6 H6 PGE sing 389 n n C6 H62 PGE sing 390 n n C5 O3 PGE sing 391 n n C5 H5 PGE sing 392 n n C5 H52 PGE sing 393 n n # _atom_sites.entry_id 5L9D _atom_sites.fract_transf_matrix[1][1] 0.014753 _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] 0.014441 _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] 0.011389 _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 C 3 PG4 H 1 301 301 PG4 PG4 . D 4 PE8 H 1 302 302 PE8 PE8 . E 5 PGE H 1 303 303 PGE PGE . F 6 PEG H 1 304 304 PEG PEG . G 3 PG4 H 1 305 305 PG4 PG4 . H 7 K H 1 306 307 K K . I 6 PEG H 1 307 308 PEG PEG . J 6 PEG L 1 301 306 PEG PEG . K 8 NAG L 1 302 301 NAG NAG . L 9 HOH H 1 401 403 HOH HOH . L 9 HOH H 2 402 401 HOH HOH . L 9 HOH H 3 403 402 HOH HOH . L 9 HOH H 4 404 404 HOH HOH . L 9 HOH H 5 405 407 HOH HOH . L 9 HOH H 6 406 405 HOH HOH . L 9 HOH H 7 407 406 HOH HOH . L 9 HOH H 8 408 408 HOH HOH . L 9 HOH H 9 409 410 HOH HOH . L 9 HOH H 10 410 411 HOH HOH . L 9 HOH H 11 411 414 HOH HOH . L 9 HOH H 12 412 413 HOH HOH . L 9 HOH H 13 413 409 HOH HOH . L 9 HOH H 14 414 418 HOH HOH . L 9 HOH H 15 415 417 HOH HOH . L 9 HOH H 16 416 412 HOH HOH . L 9 HOH H 17 417 420 HOH HOH . L 9 HOH H 18 418 421 HOH HOH . L 9 HOH H 19 419 416 HOH HOH . L 9 HOH H 20 420 430 HOH HOH . L 9 HOH H 21 421 425 HOH HOH . L 9 HOH H 22 422 423 HOH HOH . L 9 HOH H 23 423 428 HOH HOH . L 9 HOH H 24 424 424 HOH HOH . L 9 HOH H 25 425 427 HOH HOH . L 9 HOH H 26 426 422 HOH HOH . L 9 HOH H 27 427 431 HOH HOH . L 9 HOH H 28 428 426 HOH HOH . L 9 HOH H 29 429 434 HOH HOH . L 9 HOH H 30 430 435 HOH HOH . L 9 HOH H 31 431 429 HOH HOH . L 9 HOH H 32 432 432 HOH HOH . L 9 HOH H 33 433 439 HOH HOH . L 9 HOH H 34 434 436 HOH HOH . L 9 HOH H 35 435 444 HOH HOH . L 9 HOH H 36 436 438 HOH HOH . L 9 HOH H 37 437 433 HOH HOH . L 9 HOH H 38 438 448 HOH HOH . L 9 HOH H 39 439 442 HOH HOH . L 9 HOH H 40 440 440 HOH HOH . L 9 HOH H 41 441 415 HOH HOH . L 9 HOH H 42 442 437 HOH HOH . L 9 HOH H 43 443 458 HOH HOH . L 9 HOH H 44 444 445 HOH HOH . L 9 HOH H 45 445 441 HOH HOH . L 9 HOH H 46 446 451 HOH HOH . L 9 HOH H 47 447 452 HOH HOH . L 9 HOH H 48 448 443 HOH HOH . L 9 HOH H 49 449 449 HOH HOH . L 9 HOH H 50 450 465 HOH HOH . L 9 HOH H 51 451 456 HOH HOH . L 9 HOH H 52 452 450 HOH HOH . L 9 HOH H 53 453 460 HOH HOH . L 9 HOH H 54 454 455 HOH HOH . L 9 HOH H 55 455 459 HOH HOH . L 9 HOH H 56 456 461 HOH HOH . L 9 HOH H 57 457 457 HOH HOH . L 9 HOH H 58 458 463 HOH HOH . L 9 HOH H 59 459 475 HOH HOH . L 9 HOH H 60 460 419 HOH HOH . L 9 HOH H 61 461 454 HOH HOH . L 9 HOH H 62 462 466 HOH HOH . L 9 HOH H 63 463 446 HOH HOH . L 9 HOH H 64 464 476 HOH HOH . L 9 HOH H 65 465 447 HOH HOH . L 9 HOH H 66 466 467 HOH HOH . L 9 HOH H 67 467 468 HOH HOH . L 9 HOH H 68 468 453 HOH HOH . L 9 HOH H 69 469 462 HOH HOH . L 9 HOH H 70 470 471 HOH HOH . L 9 HOH H 71 471 464 HOH HOH . L 9 HOH H 72 472 474 HOH HOH . L 9 HOH H 73 473 478 HOH HOH . L 9 HOH H 74 474 472 HOH HOH . L 9 HOH H 75 475 473 HOH HOH . L 9 HOH H 76 476 470 HOH HOH . L 9 HOH H 77 477 1 HOH HOH . L 9 HOH H 78 478 480 HOH HOH . L 9 HOH H 79 479 481 HOH HOH . L 9 HOH H 80 480 482 HOH HOH . L 9 HOH H 81 481 484 HOH HOH . L 9 HOH H 82 482 479 HOH HOH . L 9 HOH H 83 483 483 HOH HOH . L 9 HOH H 84 484 477 HOH HOH . L 9 HOH H 85 485 487 HOH HOH . L 9 HOH H 86 486 489 HOH HOH . L 9 HOH H 87 487 486 HOH HOH . L 9 HOH H 88 488 488 HOH HOH . L 9 HOH H 89 489 491 HOH HOH . L 9 HOH H 90 490 490 HOH HOH . L 9 HOH H 91 491 493 HOH HOH . L 9 HOH H 92 492 492 HOH HOH . L 9 HOH H 93 493 495 HOH HOH . L 9 HOH H 94 494 496 HOH HOH . L 9 HOH H 95 495 498 HOH HOH . L 9 HOH H 96 496 500 HOH HOH . L 9 HOH H 97 497 497 HOH HOH . L 9 HOH H 98 498 494 HOH HOH . L 9 HOH H 99 499 499 HOH HOH . L 9 HOH H 100 500 501 HOH HOH . L 9 HOH H 101 501 503 HOH HOH . L 9 HOH H 102 502 504 HOH HOH . L 9 HOH H 103 503 502 HOH HOH . L 9 HOH H 104 504 505 HOH HOH . L 9 HOH H 105 505 508 HOH HOH . L 9 HOH H 106 506 509 HOH HOH . L 9 HOH H 107 507 510 HOH HOH . L 9 HOH H 108 508 512 HOH HOH . L 9 HOH H 109 509 507 HOH HOH . L 9 HOH H 110 510 511 HOH HOH . L 9 HOH H 111 511 506 HOH HOH . L 9 HOH H 112 512 513 HOH HOH . L 9 HOH H 113 513 514 HOH HOH . L 9 HOH H 114 514 485 HOH HOH . L 9 HOH H 115 515 515 HOH HOH . L 9 HOH H 116 516 516 HOH HOH . L 9 HOH H 117 517 517 HOH HOH . L 9 HOH H 118 518 519 HOH HOH . L 9 HOH H 119 519 518 HOH HOH . L 9 HOH H 120 520 523 HOH HOH . L 9 HOH H 121 521 522 HOH HOH . L 9 HOH H 122 522 521 HOH HOH . L 9 HOH H 123 523 520 HOH HOH . L 9 HOH H 124 524 524 HOH HOH . L 9 HOH H 125 525 526 HOH HOH . L 9 HOH H 126 526 525 HOH HOH . L 9 HOH H 127 527 527 HOH HOH . L 9 HOH H 128 528 528 HOH HOH . M 9 HOH L 1 401 401 HOH HOH . M 9 HOH L 2 402 402 HOH HOH . M 9 HOH L 3 403 403 HOH HOH . M 9 HOH L 4 404 405 HOH HOH . M 9 HOH L 5 405 404 HOH HOH . M 9 HOH L 6 406 408 HOH HOH . M 9 HOH L 7 407 406 HOH HOH . M 9 HOH L 8 408 407 HOH HOH . M 9 HOH L 9 409 409 HOH HOH . M 9 HOH L 10 410 411 HOH HOH . M 9 HOH L 11 411 415 HOH HOH . M 9 HOH L 12 412 412 HOH HOH . M 9 HOH L 13 413 417 HOH HOH . M 9 HOH L 14 414 421 HOH HOH . M 9 HOH L 15 415 416 HOH HOH . M 9 HOH L 16 416 414 HOH HOH . M 9 HOH L 17 417 410 HOH HOH . M 9 HOH L 18 418 419 HOH HOH . M 9 HOH L 19 419 425 HOH HOH . M 9 HOH L 20 420 418 HOH HOH . M 9 HOH L 21 421 422 HOH HOH . M 9 HOH L 22 422 429 HOH HOH . M 9 HOH L 23 423 423 HOH HOH . M 9 HOH L 24 424 432 HOH HOH . M 9 HOH L 25 425 428 HOH HOH . M 9 HOH L 26 426 426 HOH HOH . M 9 HOH L 27 427 439 HOH HOH . M 9 HOH L 28 428 430 HOH HOH . M 9 HOH L 29 429 434 HOH HOH . M 9 HOH L 30 430 427 HOH HOH . M 9 HOH L 31 431 431 HOH HOH . M 9 HOH L 32 432 433 HOH HOH . M 9 HOH L 33 433 437 HOH HOH . M 9 HOH L 34 434 435 HOH HOH . M 9 HOH L 35 435 438 HOH HOH . M 9 HOH L 36 436 441 HOH HOH . M 9 HOH L 37 437 440 HOH HOH . M 9 HOH L 38 438 442 HOH HOH . M 9 HOH L 39 439 424 HOH HOH . M 9 HOH L 40 440 443 HOH HOH . M 9 HOH L 41 441 436 HOH HOH . M 9 HOH L 42 442 444 HOH HOH . M 9 HOH L 43 443 447 HOH HOH . M 9 HOH L 44 444 450 HOH HOH . M 9 HOH L 45 445 420 HOH HOH . M 9 HOH L 46 446 448 HOH HOH . M 9 HOH L 47 447 446 HOH HOH . M 9 HOH L 48 448 452 HOH HOH . M 9 HOH L 49 449 454 HOH HOH . M 9 HOH L 50 450 453 HOH HOH . M 9 HOH L 51 451 451 HOH HOH . M 9 HOH L 52 452 485 HOH HOH . M 9 HOH L 53 453 457 HOH HOH . M 9 HOH L 54 454 445 HOH HOH . M 9 HOH L 55 455 455 HOH HOH . M 9 HOH L 56 456 449 HOH HOH . M 9 HOH L 57 457 462 HOH HOH . M 9 HOH L 58 458 465 HOH HOH . M 9 HOH L 59 459 467 HOH HOH . M 9 HOH L 60 460 468 HOH HOH . M 9 HOH L 61 461 459 HOH HOH . M 9 HOH L 62 462 463 HOH HOH . M 9 HOH L 63 463 461 HOH HOH . M 9 HOH L 64 464 456 HOH HOH . M 9 HOH L 65 465 466 HOH HOH . M 9 HOH L 66 466 464 HOH HOH . M 9 HOH L 67 467 458 HOH HOH . M 9 HOH L 68 468 460 HOH HOH . M 9 HOH L 69 469 413 HOH HOH . M 9 HOH L 70 470 469 HOH HOH . M 9 HOH L 71 471 473 HOH HOH . M 9 HOH L 72 472 474 HOH HOH . M 9 HOH L 73 473 472 HOH HOH . M 9 HOH L 74 474 470 HOH HOH . M 9 HOH L 75 475 477 HOH HOH . M 9 HOH L 76 476 475 HOH HOH . M 9 HOH L 77 477 471 HOH HOH . M 9 HOH L 78 478 479 HOH HOH . M 9 HOH L 79 479 478 HOH HOH . M 9 HOH L 80 480 476 HOH HOH . M 9 HOH L 81 481 480 HOH HOH . M 9 HOH L 82 482 482 HOH HOH . M 9 HOH L 83 483 481 HOH HOH . M 9 HOH L 84 484 483 HOH HOH . M 9 HOH L 85 485 484 HOH HOH . M 9 HOH L 86 486 486 HOH HOH . M 9 HOH L 87 487 488 HOH HOH . M 9 HOH L 88 488 489 HOH HOH . M 9 HOH L 89 489 487 HOH HOH . M 9 HOH L 90 490 490 HOH HOH . M 9 HOH L 91 491 491 HOH HOH . M 9 HOH L 92 492 492 HOH HOH . M 9 HOH L 93 493 493 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 C1 PGE . . . E 5 -5.762 2.11 -3.454 1 52.67 ? C1 PGE 303 H 1 HETATM 2 O O1 PGE . . . E 5 -5.726 0.843 -2.788 1 57.5 ? O1 PGE 303 H 1 HETATM 3 C C2 PGE . . . E 5 -4.381 2.464 -4.003 1 56.65 ? C2 PGE 303 H 1 HETATM 4 O O2 PGE . . . E 5 -4.278 2.156 -5.397 1 56.41 ? O2 PGE 303 H 1 HETATM 5 C C3 PGE . . . E 5 -4.813 3.149 -6.276 1 52.82 ? C3 PGE 303 H 1 HETATM 6 C C4 PGE . . . E 5 -5.201 2.535 -7.622 1 53.42 ? C4 PGE 303 H 1 HETATM 7 O O4 PGE . . . E 5 -4.396 -1.129 -10.639 1 58.14 ? O4 PGE 303 H 1 HETATM 8 C C6 PGE . . . E 5 -3.965 -0.471 -9.442 1 60.04 ? C6 PGE 303 H 1 HETATM 9 C C5 PGE . . . E 5 -4.872 0.713 -9.126 1 60.64 ? C5 PGE 303 H 1 HETATM 10 O O3 PGE . . . E 5 -4.559 1.276 -7.848 1 61.3 ? O3 PGE 303 H 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 344 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 10 #