data_1BA8 # _model_server_result.job_id dOdq_bufFJZYHH4H9G7NNw _model_server_result.datetime_utc '2024-12-27 00:43:37' _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 1ba8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 1BA8 # _exptl.entry_id 1BA8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 467.562 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description amino({(4S)-4-[({(3S)-3-[(benzylsulfonyl)amino]-2-oxopiperidin-1-yl}acetyl)amino]-5-oxopentyl}amino)methaniminium _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 100.9 _cell.angle_gamma 90 _cell.entry_id 1BA8 _cell.length_a 71.26 _cell.length_b 72.29 _cell.length_c 72.99 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BA8 _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 ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 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 disulf ? disulf1 A SG CYS 9 A CYS 1 1_555 B SG CYS 119 B CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf2 B SG CYS 28 B CYS 42 1_555 B SG CYS 44 B CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf3 B SG CYS 173 B CYS 168 1_555 B SG CYS 187 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? disulf ? disulf4 B SG CYS 201 B CYS 191 1_555 B SG CYS 231 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? covale ? covale1 B ND2 ASN 53 B ASN 60 1_555 E C1 NAG . B NAG 400 1_555 G ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 C C GLU 11 C GLU 62 1_555 C N TYS 12 C TYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? # _chem_comp.formula 'C20 H31 N6 O5 S 1' _chem_comp.formula_weight 467.562 _chem_comp.id 0IT _chem_comp.mon_nstd_flag . _chem_comp.name amino({(4S)-4-[({(3S)-3-[(benzylsulfonyl)amino]-2-oxopiperidin-1-yl}acetyl)amino]-5-oxopentyl}amino)methaniminium _chem_comp.type peptide-like _chem_comp.pdbx_synonyms CVS1578 # 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 N CA 0IT sing 1 n n N H 0IT sing 2 n n CA CB 0IT sing 3 n n CA C 0IT sing 4 n n CA HA 0IT sing 5 n n CB CG 0IT sing 6 n n CB HB2 0IT sing 7 n n CB HB3 0IT sing 8 n n CG CD 0IT sing 9 n n CG HG2 0IT sing 10 n n CG HG3 0IT sing 11 n n CD HD1 0IT sing 12 n n CD HD2 0IT sing 13 n n C O 0IT doub 14 n n N1 CA1 0IT sing 15 n n CD N1 0IT sing 16 n n CA1 C1 0IT sing 17 n n CA1 HA2 0IT sing 18 n n CA1 HA3 0IT sing 19 n n C1 O1 0IT doub 20 n n N2 CA2 0IT sing 21 n n N2 H2 0IT sing 22 n n CA2 C2 0IT sing 23 n n CA2 CB1 0IT sing 24 n n CA2 HA1 0IT sing 25 n n C2 O2 0IT doub 26 n n C2 HXT 0IT sing 27 n n CB1 CG1 0IT sing 28 n n CB1 HB21 0IT sing 29 n n CB1 HB31 0IT sing 30 n n CG1 CD1 0IT sing 31 n n CG1 HG21 0IT sing 32 n n CG1 HG31 0IT sing 33 n n CD1 NE 0IT sing 34 n n CD1 HD21 0IT sing 35 n n CD1 HD31 0IT sing 36 n n NE CZ 0IT sing 37 n n NE HE 0IT sing 38 n n CZ NH1 0IT sing 39 n n CZ NH2 0IT doub 40 n n NH1 HH11 0IT sing 41 n n NH1 HH12 0IT sing 42 n n NH2 HH21 0IT sing 43 n n NH2 HH22 0IT sing 44 n n C3 C11 0IT sing 45 n n C3 S 0IT sing 46 n n C3 H11 0IT sing 47 n n C3 H2A 0IT sing 48 n n C11 C21 0IT doub 49 n y C11 C6 0IT sing 50 n y C21 C31 0IT sing 51 n y C21 H21 0IT sing 52 n n C31 C4 0IT doub 53 n y C31 H3 0IT sing 54 n n C4 C5 0IT sing 55 n y C4 H4 0IT sing 56 n n C5 C6 0IT doub 57 n y C5 H5 0IT sing 58 n n C6 H6 0IT sing 59 n n S O1S 0IT doub 60 n n S O2S 0IT doub 61 n n N S 0IT sing 62 n n C N1 0IT sing 63 n n C1 N2 0IT sing 64 n n # _atom_sites.entry_id 1BA8 _atom_sites.fract_transf_matrix[1][1] 0.014033 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002702 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013833 _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] 0.013952 _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 D 4 0IT B 1 1 1 0IT PMS . E 5 NAG B 1 400 400 NAG NAG . F 6 HOH A 1 432 432 HOH HOH . F 6 HOH A 2 452 452 HOH HOH . F 6 HOH A 3 462 462 HOH HOH . F 6 HOH A 4 463 463 HOH HOH . F 6 HOH A 5 465 465 HOH HOH . F 6 HOH A 6 468 468 HOH HOH . F 6 HOH A 7 474 474 HOH HOH . F 6 HOH A 8 482 482 HOH HOH . F 6 HOH A 9 486 486 HOH HOH . F 6 HOH A 10 493 493 HOH HOH . F 6 HOH A 11 494 494 HOH HOH . F 6 HOH A 12 496 496 HOH HOH . F 6 HOH A 13 501 501 HOH HOH . F 6 HOH A 14 508 508 HOH HOH . F 6 HOH A 15 515 515 HOH HOH . F 6 HOH A 16 516 516 HOH HOH . G 6 HOH B 1 401 401 HOH HOH . G 6 HOH B 2 402 402 HOH HOH . G 6 HOH B 3 403 403 HOH HOH . G 6 HOH B 4 404 404 HOH HOH . G 6 HOH B 5 405 405 HOH HOH . G 6 HOH B 6 406 406 HOH HOH . G 6 HOH B 7 407 407 HOH HOH . G 6 HOH B 8 408 408 HOH HOH . G 6 HOH B 9 409 409 HOH HOH . G 6 HOH B 10 410 410 HOH HOH . G 6 HOH B 11 411 411 HOH HOH . G 6 HOH B 12 412 412 HOH HOH . G 6 HOH B 13 413 413 HOH HOH . G 6 HOH B 14 414 414 HOH HOH . G 6 HOH B 15 415 415 HOH HOH . G 6 HOH B 16 416 416 HOH HOH . G 6 HOH B 17 417 417 HOH HOH . G 6 HOH B 18 418 418 HOH HOH . G 6 HOH B 19 419 419 HOH HOH . G 6 HOH B 20 420 420 HOH HOH . G 6 HOH B 21 421 421 HOH HOH . G 6 HOH B 22 422 422 HOH HOH . G 6 HOH B 23 423 423 HOH HOH . G 6 HOH B 24 424 424 HOH HOH . G 6 HOH B 25 425 425 HOH HOH . G 6 HOH B 26 426 426 HOH HOH . G 6 HOH B 27 427 427 HOH HOH . G 6 HOH B 28 428 428 HOH HOH . G 6 HOH B 29 429 429 HOH HOH . G 6 HOH B 30 430 430 HOH HOH . G 6 HOH B 31 431 431 HOH HOH . G 6 HOH B 32 433 433 HOH HOH . G 6 HOH B 33 434 434 HOH HOH . G 6 HOH B 34 435 435 HOH HOH . G 6 HOH B 35 436 436 HOH HOH . G 6 HOH B 36 437 437 HOH HOH . G 6 HOH B 37 438 438 HOH HOH . G 6 HOH B 38 439 439 HOH HOH . G 6 HOH B 39 440 440 HOH HOH . G 6 HOH B 40 441 441 HOH HOH . G 6 HOH B 41 442 442 HOH HOH . G 6 HOH B 42 443 443 HOH HOH . G 6 HOH B 43 444 444 HOH HOH . G 6 HOH B 44 445 445 HOH HOH . G 6 HOH B 45 446 446 HOH HOH . G 6 HOH B 46 447 447 HOH HOH . G 6 HOH B 47 448 448 HOH HOH . G 6 HOH B 48 449 449 HOH HOH . G 6 HOH B 49 450 450 HOH HOH . G 6 HOH B 50 451 451 HOH HOH . G 6 HOH B 51 453 453 HOH HOH . G 6 HOH B 52 454 454 HOH HOH . G 6 HOH B 53 455 455 HOH HOH . G 6 HOH B 54 456 456 HOH HOH . G 6 HOH B 55 457 457 HOH HOH . G 6 HOH B 56 458 458 HOH HOH . G 6 HOH B 57 459 459 HOH HOH . G 6 HOH B 58 460 460 HOH HOH . G 6 HOH B 59 461 461 HOH HOH . G 6 HOH B 60 464 464 HOH HOH . G 6 HOH B 61 466 466 HOH HOH . G 6 HOH B 62 467 467 HOH HOH . G 6 HOH B 63 469 469 HOH HOH . G 6 HOH B 64 470 470 HOH HOH . G 6 HOH B 65 471 471 HOH HOH . G 6 HOH B 66 472 472 HOH HOH . G 6 HOH B 67 473 473 HOH HOH . G 6 HOH B 68 475 475 HOH HOH . G 6 HOH B 69 476 476 HOH HOH . G 6 HOH B 70 477 477 HOH HOH . G 6 HOH B 71 478 478 HOH HOH . G 6 HOH B 72 479 479 HOH HOH . G 6 HOH B 73 480 480 HOH HOH . G 6 HOH B 74 481 481 HOH HOH . G 6 HOH B 75 483 483 HOH HOH . G 6 HOH B 76 484 484 HOH HOH . G 6 HOH B 77 485 485 HOH HOH . G 6 HOH B 78 487 487 HOH HOH . G 6 HOH B 79 488 488 HOH HOH . G 6 HOH B 80 489 489 HOH HOH . G 6 HOH B 81 490 490 HOH HOH . G 6 HOH B 82 491 491 HOH HOH . G 6 HOH B 83 492 492 HOH HOH . G 6 HOH B 84 495 495 HOH HOH . G 6 HOH B 85 497 497 HOH HOH . G 6 HOH B 86 498 498 HOH HOH . G 6 HOH B 87 499 499 HOH HOH . G 6 HOH B 88 500 500 HOH HOH . G 6 HOH B 89 502 502 HOH HOH . G 6 HOH B 90 503 503 HOH HOH . G 6 HOH B 91 504 504 HOH HOH . G 6 HOH B 92 505 505 HOH HOH . G 6 HOH B 93 506 506 HOH HOH . G 6 HOH B 94 507 507 HOH HOH . G 6 HOH B 95 509 509 HOH HOH . G 6 HOH B 96 510 510 HOH HOH . G 6 HOH B 97 511 511 HOH HOH . G 6 HOH B 98 512 512 HOH HOH . G 6 HOH B 99 513 513 HOH HOH . G 6 HOH B 100 514 514 HOH HOH . G 6 HOH B 101 517 517 HOH HOH . G 6 HOH B 102 518 518 HOH HOH . G 6 HOH B 103 519 519 HOH HOH . G 6 HOH B 104 520 520 HOH HOH . G 6 HOH B 105 521 521 HOH HOH . G 6 HOH B 106 522 522 HOH HOH . G 6 HOH B 107 523 523 HOH HOH . G 6 HOH B 108 524 524 HOH HOH . G 6 HOH B 109 525 525 HOH HOH . G 6 HOH B 110 526 526 HOH HOH . G 6 HOH B 111 527 527 HOH HOH . G 6 HOH B 112 528 528 HOH HOH . G 6 HOH B 113 529 529 HOH HOH . G 6 HOH B 114 530 530 HOH HOH . G 6 HOH B 115 531 531 HOH HOH . G 6 HOH B 116 532 532 HOH HOH . G 6 HOH B 117 533 533 HOH HOH . G 6 HOH B 118 534 534 HOH HOH . G 6 HOH B 119 535 535 HOH HOH . G 6 HOH B 120 536 536 HOH HOH . G 6 HOH B 121 537 537 HOH HOH . G 6 HOH B 122 538 538 HOH HOH . G 6 HOH B 123 539 539 HOH HOH . G 6 HOH B 124 540 540 HOH HOH . G 6 HOH B 125 541 541 HOH HOH . G 6 HOH B 126 542 542 HOH HOH . G 6 HOH B 127 543 543 HOH HOH . G 6 HOH B 128 545 545 HOH HOH . G 6 HOH B 129 546 546 HOH HOH . G 6 HOH B 130 547 547 HOH HOH . G 6 HOH B 131 548 548 HOH HOH . G 6 HOH B 132 549 549 HOH HOH . G 6 HOH B 133 551 551 HOH HOH . G 6 HOH B 134 552 552 HOH HOH . G 6 HOH B 135 553 553 HOH HOH . G 6 HOH B 136 554 554 HOH HOH . G 6 HOH B 137 555 555 HOH HOH . G 6 HOH B 138 556 556 HOH HOH . G 6 HOH B 139 557 557 HOH HOH . G 6 HOH B 140 558 558 HOH HOH . H 6 HOH C 1 544 544 HOH HOH . H 6 HOH C 2 550 550 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 C3 0IT . . . D 4 18.505 -17.008 26.127 1 26.02 ? C3 0IT 1 B 1 HETATM 2 S S 0IT . . . D 4 17.819 -17.673 24.628 1 26.7 ? S 0IT 1 B 1 HETATM 3 C C11 0IT . . . D 4 19.726 -16.189 25.921 1 27.02 ? C11 0IT 1 B 1 HETATM 4 C C6 0IT . . . D 4 20.95 -16.713 25.592 1 23.73 ? C6 0IT 1 B 1 HETATM 5 C C5 0IT . . . D 4 22.068 -15.884 25.395 1 26.85 ? C5 0IT 1 B 1 HETATM 6 C C4 0IT . . . D 4 21.946 -14.517 25.536 1 24.16 ? C4 0IT 1 B 1 HETATM 7 C C31 0IT . . . D 4 20.716 -14.007 25.869 1 24.8 ? C31 0IT 1 B 1 HETATM 8 C C21 0IT . . . D 4 19.588 -14.803 26.063 1 23.7 ? C21 0IT 1 B 1 HETATM 9 O O2S 0IT . . . D 4 18.864 -18.333 23.923 1 25.15 ? O2S 0IT 1 B 1 HETATM 10 O O1S 0IT . . . D 4 16.59 -18.241 24.998 1 27.03 ? O1S 0IT 1 B 1 HETATM 11 N N 0IT . . . D 4 17.436 -16.435 23.577 1 23.79 ? N 0IT 1 B 1 HETATM 12 C CA 0IT . . . D 4 18.442 -15.757 22.852 1 21.74 ? CA 0IT 1 B 1 HETATM 13 C CB 0IT . . . D 4 19.033 -16.469 21.697 1 20.57 ? CB 0IT 1 B 1 HETATM 14 C CG 0IT . . . D 4 19.995 -15.681 20.884 1 19.34 ? CG 0IT 1 B 1 HETATM 15 C CD 0IT . . . D 4 19.772 -14.161 20.801 1 19.98 ? CD 0IT 1 B 1 HETATM 16 C C 0IT . . . D 4 17.902 -14.337 22.445 1 19.5 ? C 0IT 1 B 1 HETATM 17 O O 0IT . . . D 4 16.883 -13.982 22.991 1 17.06 ? O 0IT 1 B 1 HETATM 18 N N1 0IT . . . D 4 18.57 -13.721 21.509 1 19.48 ? N1 0IT 1 B 1 HETATM 19 C CA1 0IT . . . D 4 18.061 -12.381 21.159 1 21.78 ? CA1 0IT 1 B 1 HETATM 20 C C1 0IT . . . D 4 16.765 -12.559 20.369 1 22.02 ? C1 0IT 1 B 1 HETATM 21 O O1 0IT . . . D 4 16.508 -13.641 19.849 1 21.19 ? O1 0IT 1 B 1 HETATM 22 N N2 0IT . . . D 4 15.948 -11.522 20.404 1 20.29 ? N2 0IT 1 B 1 HETATM 23 C CA2 0IT . . . D 4 14.643 -11.523 19.689 1 19.06 ? CA2 0IT 1 B 1 HETATM 24 C C2 0IT . . . D 4 14.765 -10.736 18.401 1 19.7 ? C2 0IT 1 B 1 HETATM 25 O O2 0IT . . . D 4 13.743 -10.293 17.847 1 21.55 ? O2 0IT 1 B 1 HETATM 26 C CB1 0IT . . . D 4 13.537 -10.975 20.549 1 16.61 ? CB1 0IT 1 B 1 HETATM 27 C CG1 0IT . . . D 4 13.119 -11.905 21.662 1 15.12 ? CG1 0IT 1 B 1 HETATM 28 C CD1 0IT . . . D 4 12.169 -11.262 22.584 1 14.3 ? CD1 0IT 1 B 1 HETATM 29 N NE 0IT . . . D 4 11.604 -12.263 23.445 1 14.3 ? NE 0IT 1 B 1 HETATM 30 C CZ 0IT . . . D 4 10.814 -12.052 24.46 1 15.93 ? CZ 0IT 1 B 1 HETATM 31 N NH1 0IT . . . D 4 10.511 -10.769 24.793 1 19.67 ? NH1 0IT 1 B 1 HETATM 32 N NH2 0IT . . . D 4 10.195 -13.059 25.104 1 15.47 ? NH2 0IT 1 B 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #