data_3MSL # _model_server_result.job_id O3b7O_qRrroHSc9rn1I53g _model_server_result.datetime_utc '2024-11-06 14:35:27' _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 3msl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":395}' # _entry.id 3MSL # _exptl.entry_id 3MSL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 362.897 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3S)-3-(2-amino-5-chloro-1H-benzimidazol-1-yl)-N-(cyclohexylmethyl)pentanamide _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 120 _cell.entry_id 3MSL _cell.length_a 100.19 _cell.length_b 100.19 _cell.length_c 172.84 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3MSL _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 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 _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 3 _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 171 A CYS 155 1_555 A SG CYS 375 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 233 A CYS 217 1_555 A SG CYS 398 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 285 A CYS 269 1_555 A SG CYS 335 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C19 H27 Cl N4 O' _chem_comp.formula_weight 362.897 _chem_comp.id EV5 _chem_comp.mon_nstd_flag . _chem_comp.name (3S)-3-(2-amino-5-chloro-1H-benzimidazol-1-yl)-N-(cyclohexylmethyl)pentanamide _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 C2 EV5 doub 83 n y C1 C6 EV5 sing 84 n y C1 N9 EV5 sing 85 n y C2 C3 EV5 sing 86 n y C3 C4 EV5 doub 87 n y C4 C5 EV5 sing 88 n y C4 CL11 EV5 sing 89 n n C5 C6 EV5 doub 90 n y C6 N7 EV5 sing 91 n y N7 C8 EV5 doub 92 n y C8 N9 EV5 sing 93 n y C8 N10 EV5 sing 94 n n N9 C12 EV5 sing 95 n n C12 C13 EV5 sing 96 n n C12 C15 EV5 sing 97 n n C13 C14 EV5 sing 98 n n C15 C16 EV5 sing 99 n n C16 N17 EV5 sing 100 n n C16 O18 EV5 doub 101 n n N17 C19 EV5 sing 102 n n C19 C20 EV5 sing 103 n n C20 C21 EV5 sing 104 n n C20 C25 EV5 sing 105 n n C21 C22 EV5 sing 106 n n C22 C23 EV5 sing 107 n n C23 C24 EV5 sing 108 n n C24 C25 EV5 sing 109 n n C2 H2 EV5 sing 110 n n C3 H3 EV5 sing 111 n n C5 H5 EV5 sing 112 n n N10 HN10 EV5 sing 113 n n N10 HN1A EV5 sing 114 n n C12 H12 EV5 sing 115 n n C13 H13 EV5 sing 116 n n C13 H13A EV5 sing 117 n n C14 H14 EV5 sing 118 n n C14 H14A EV5 sing 119 n n C14 H14B EV5 sing 120 n n C15 H15 EV5 sing 121 n n C15 H15A EV5 sing 122 n n N17 HN17 EV5 sing 123 n n C19 H19 EV5 sing 124 n n C19 H19A EV5 sing 125 n n C20 H20 EV5 sing 126 n n C21 H21 EV5 sing 127 n n C21 H21A EV5 sing 128 n n C22 H22 EV5 sing 129 n n C22 H22A EV5 sing 130 n n C23 H23 EV5 sing 131 n n C23 H23A EV5 sing 132 n n C24 H24 EV5 sing 133 n n C24 H24A EV5 sing 134 n n C25 H25 EV5 sing 135 n n C25 H25A EV5 sing 136 n n # _atom_sites.entry_id 3MSL _atom_sites.fract_transf_matrix[1][1] 0.009981 _atom_sites.fract_transf_matrix[1][2] 0.005763 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011525 _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] 0.005786 _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 IOD A 1 393 393 IOD IOD . C 2 IOD A 1 394 394 IOD IOD . D 3 EV5 A 1 395 395 EV5 EV5 . E 4 HOH A 1 396 396 HOH HOH . E 4 HOH A 2 397 397 HOH HOH . E 4 HOH A 3 398 398 HOH HOH . E 4 HOH A 4 399 399 HOH HOH . E 4 HOH A 5 400 400 HOH HOH . E 4 HOH A 6 401 401 HOH HOH . E 4 HOH A 7 402 402 HOH HOH . E 4 HOH A 8 403 403 HOH HOH . E 4 HOH A 9 404 404 HOH HOH . E 4 HOH A 10 405 405 HOH HOH . E 4 HOH A 11 406 406 HOH HOH . E 4 HOH A 12 407 407 HOH HOH . E 4 HOH A 13 408 408 HOH HOH . E 4 HOH A 14 409 409 HOH HOH . E 4 HOH A 15 410 410 HOH HOH . E 4 HOH A 16 411 411 HOH HOH . E 4 HOH A 17 412 412 HOH HOH . E 4 HOH A 18 413 413 HOH HOH . E 4 HOH A 19 414 414 HOH HOH . E 4 HOH A 20 415 415 HOH HOH . E 4 HOH A 21 416 416 HOH HOH . E 4 HOH A 22 417 417 HOH HOH . E 4 HOH A 23 418 418 HOH HOH . E 4 HOH A 24 419 419 HOH HOH . E 4 HOH A 25 420 420 HOH HOH . E 4 HOH A 26 421 421 HOH HOH . E 4 HOH A 27 422 422 HOH HOH . E 4 HOH A 28 423 423 HOH HOH . E 4 HOH A 29 424 424 HOH HOH . E 4 HOH A 30 425 425 HOH HOH . E 4 HOH A 31 426 426 HOH HOH . E 4 HOH A 32 427 427 HOH HOH . E 4 HOH A 33 428 428 HOH HOH . E 4 HOH A 34 429 429 HOH HOH . E 4 HOH A 35 430 430 HOH HOH . E 4 HOH A 36 431 431 HOH HOH . E 4 HOH A 37 432 432 HOH HOH . E 4 HOH A 38 433 433 HOH HOH . E 4 HOH A 39 434 434 HOH HOH . E 4 HOH A 40 435 435 HOH HOH . E 4 HOH A 41 436 436 HOH HOH . E 4 HOH A 42 437 437 HOH HOH . E 4 HOH A 43 438 438 HOH HOH . E 4 HOH A 44 439 439 HOH HOH . E 4 HOH A 45 440 440 HOH HOH . E 4 HOH A 46 441 441 HOH HOH . E 4 HOH A 47 442 442 HOH HOH . E 4 HOH A 48 443 443 HOH HOH . E 4 HOH A 49 444 444 HOH HOH . E 4 HOH A 50 445 445 HOH HOH . E 4 HOH A 51 446 446 HOH HOH . E 4 HOH A 52 447 447 HOH HOH . E 4 HOH A 53 448 448 HOH HOH . E 4 HOH A 54 449 449 HOH HOH . E 4 HOH A 55 450 450 HOH HOH . E 4 HOH A 56 451 451 HOH HOH . E 4 HOH A 57 452 452 HOH HOH . E 4 HOH A 58 453 453 HOH HOH . E 4 HOH A 59 454 454 HOH HOH . E 4 HOH A 60 455 455 HOH HOH . E 4 HOH A 61 456 456 HOH HOH . E 4 HOH A 62 457 457 HOH HOH . E 4 HOH A 63 458 458 HOH HOH . E 4 HOH A 64 459 459 HOH HOH . E 4 HOH A 65 460 460 HOH HOH . E 4 HOH A 66 461 461 HOH HOH . E 4 HOH A 67 462 462 HOH HOH . E 4 HOH A 68 463 463 HOH HOH . E 4 HOH A 69 464 464 HOH HOH . E 4 HOH A 70 465 465 HOH HOH . E 4 HOH A 71 466 466 HOH HOH . E 4 HOH A 72 467 467 HOH HOH . E 4 HOH A 73 468 468 HOH HOH . E 4 HOH A 74 469 469 HOH HOH . E 4 HOH A 75 470 470 HOH HOH . E 4 HOH A 76 471 471 HOH HOH . E 4 HOH A 77 472 472 HOH HOH . E 4 HOH A 78 473 473 HOH HOH . E 4 HOH A 79 474 474 HOH HOH . E 4 HOH A 80 475 475 HOH HOH . E 4 HOH A 81 476 476 HOH HOH . E 4 HOH A 82 477 477 HOH HOH . E 4 HOH A 83 478 478 HOH HOH . E 4 HOH A 84 479 479 HOH HOH . E 4 HOH A 85 480 480 HOH HOH . E 4 HOH A 86 481 481 HOH HOH . E 4 HOH A 87 482 482 HOH HOH . E 4 HOH A 88 483 483 HOH HOH . E 4 HOH A 89 484 484 HOH HOH . E 4 HOH A 90 485 485 HOH HOH . E 4 HOH A 91 486 486 HOH HOH . E 4 HOH A 92 487 487 HOH HOH . E 4 HOH A 93 488 488 HOH HOH . E 4 HOH A 94 489 489 HOH HOH . E 4 HOH A 95 490 490 HOH HOH . E 4 HOH A 96 491 491 HOH HOH . E 4 HOH A 97 492 492 HOH HOH . E 4 HOH A 98 493 493 HOH HOH . E 4 HOH A 99 494 494 HOH HOH . E 4 HOH A 100 495 495 HOH HOH . E 4 HOH A 101 496 496 HOH HOH . E 4 HOH A 102 497 497 HOH HOH . E 4 HOH A 103 498 498 HOH HOH . E 4 HOH A 104 499 499 HOH HOH . E 4 HOH A 105 500 500 HOH HOH . E 4 HOH A 106 501 501 HOH HOH . E 4 HOH A 107 502 502 HOH HOH . E 4 HOH A 108 503 503 HOH HOH . E 4 HOH A 109 504 504 HOH HOH . E 4 HOH A 110 505 505 HOH HOH . E 4 HOH A 111 506 506 HOH HOH . E 4 HOH A 112 507 507 HOH HOH . E 4 HOH A 113 508 508 HOH HOH . E 4 HOH A 114 509 509 HOH HOH . E 4 HOH A 115 510 510 HOH HOH . E 4 HOH A 116 511 511 HOH HOH . E 4 HOH A 117 512 512 HOH HOH . E 4 HOH A 118 513 513 HOH HOH . E 4 HOH A 119 514 514 HOH HOH . E 4 HOH A 120 515 515 HOH HOH . E 4 HOH A 121 516 516 HOH HOH . E 4 HOH A 122 517 517 HOH HOH . E 4 HOH A 123 518 518 HOH HOH . E 4 HOH A 124 519 519 HOH HOH . E 4 HOH A 125 520 520 HOH HOH . E 4 HOH A 126 521 521 HOH HOH . E 4 HOH A 127 522 522 HOH HOH . E 4 HOH A 128 523 523 HOH HOH . E 4 HOH A 129 524 524 HOH HOH . E 4 HOH A 130 525 525 HOH HOH . E 4 HOH A 131 526 526 HOH HOH . E 4 HOH A 132 527 527 HOH HOH . E 4 HOH A 133 528 528 HOH HOH . E 4 HOH A 134 529 529 HOH HOH . E 4 HOH A 135 530 530 HOH HOH . E 4 HOH A 136 531 531 HOH HOH . E 4 HOH A 137 532 532 HOH HOH . E 4 HOH A 138 533 533 HOH HOH . E 4 HOH A 139 534 534 HOH HOH . E 4 HOH A 140 535 535 HOH HOH . E 4 HOH A 141 536 536 HOH HOH . E 4 HOH A 142 537 537 HOH HOH . E 4 HOH A 143 538 538 HOH HOH . E 4 HOH A 144 539 539 HOH HOH . E 4 HOH A 145 540 540 HOH HOH . E 4 HOH A 146 541 541 HOH HOH . E 4 HOH A 147 542 542 HOH HOH . E 4 HOH A 148 543 543 HOH HOH . E 4 HOH A 149 544 544 HOH HOH . E 4 HOH A 150 545 545 HOH HOH . E 4 HOH A 151 546 546 HOH HOH . E 4 HOH A 152 547 547 HOH HOH . E 4 HOH A 153 548 548 HOH HOH . E 4 HOH A 154 549 549 HOH HOH . E 4 HOH A 155 550 550 HOH HOH . E 4 HOH A 156 551 551 HOH HOH . E 4 HOH A 157 552 552 HOH HOH . E 4 HOH A 158 553 553 HOH HOH . E 4 HOH A 159 554 554 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 EV5 . . . D 3 16.124 -39.801 9.486 1 27.98 ? C1 EV5 395 A 1 HETATM 2 C C2 EV5 . . . D 3 16.329 -40.178 10.812 1 28.47 ? C2 EV5 395 A 1 HETATM 3 C C3 EV5 . . . D 3 16.712 -39.216 11.748 1 28.86 ? C3 EV5 395 A 1 HETATM 4 C C4 EV5 . . . D 3 16.896 -37.879 11.385 1 28.72 ? C4 EV5 395 A 1 HETATM 5 C C5 EV5 . . . D 3 16.703 -37.452 10.071 1 28.2 ? C5 EV5 395 A 1 HETATM 6 C C6 EV5 . . . D 3 16.321 -38.373 9.102 1 27.79 ? C6 EV5 395 A 1 HETATM 7 N N7 EV5 . . . D 3 16.064 -38.278 7.784 1 27.39 ? N7 EV5 395 A 1 HETATM 8 C C8 EV5 . . . D 3 15.743 -39.53 7.413 1 27.36 ? C8 EV5 395 A 1 HETATM 9 N N9 EV5 . . . D 3 15.763 -40.465 8.379 1 27.69 ? N9 EV5 395 A 1 HETATM 10 N N10 EV5 . . . D 3 15.423 -39.79 6.121 1 27.01 ? N10 EV5 395 A 1 HETATM 11 CL CL11 EV5 . . . D 3 17.389 -36.683 12.628 1 29.41 ? CL11 EV5 395 A 1 HETATM 12 C C12 EV5 . . . D 3 15.464 -41.929 8.307 1 27.79 ? C12 EV5 395 A 1 HETATM 13 C C13 EV5 . . . D 3 14.07 -42.199 7.739 1 27.61 ? C13 EV5 395 A 1 HETATM 14 C C14 EV5 . . . D 3 12.979 -41.658 8.639 1 27.78 ? C14 EV5 395 A 1 HETATM 15 C C15 EV5 . . . D 3 16.527 -42.656 7.481 1 27.66 ? C15 EV5 395 A 1 HETATM 16 C C16 EV5 . . . D 3 17.915 -42.389 8.025 1 27.92 ? C16 EV5 395 A 1 HETATM 17 N N17 EV5 . . . D 3 18.741 -41.73 7.211 1 27.79 ? N17 EV5 395 A 1 HETATM 18 O O18 EV5 . . . D 3 18.232 -42.768 9.143 1 28.29 ? O18 EV5 395 A 1 HETATM 19 C C19 EV5 . . . D 3 20.127 -41.326 7.429 1 28.02 ? C19 EV5 395 A 1 HETATM 20 C C20 EV5 . . . D 3 20.09 -39.946 8.083 1 28.16 ? C20 EV5 395 A 1 HETATM 21 C C21 EV5 . . . D 3 19.546 -38.9 7.107 1 27.82 ? C21 EV5 395 A 1 HETATM 22 C C22 EV5 . . . D 3 19.548 -37.5 7.723 1 27.95 ? C22 EV5 395 A 1 HETATM 23 C C23 EV5 . . . D 3 20.936 -37.102 8.227 1 28.16 ? C23 EV5 395 A 1 HETATM 24 C C24 EV5 . . . D 3 21.537 -38.163 9.151 1 28.45 ? C24 EV5 395 A 1 HETATM 25 C C25 EV5 . . . D 3 21.504 -39.557 8.521 1 28.43 ? C25 EV5 395 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 25 #