data_5RC5 # _model_server_result.job_id 9sGr1HoqfBFi4Z_IYdvwkg _model_server_result.datetime_utc '2024-11-24 08:19:04' _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 5rc5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5RC5 # _exptl.entry_id 5RC5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 184.279 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R)-N-tert-butylpiperidine-2-carboxamide _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 109.17 _cell.angle_gamma 90 _cell.entry_id 5RC5 _cell.length_a 45.234 _cell.length_b 73.008 _cell.length_c 52.296 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5RC5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _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,H,I,J,K,L,M,N _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 2 _struct_asym.id B _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 344 A CYS 255 1_555 A SG CYS 379 A CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc1 L O2 PG4 . A PG4 411 1_555 M NA NA . A NA 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.093 ? metalc ? metalc2 L O4 PG4 . A PG4 411 1_555 M NA NA . A NA 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.199 ? metalc ? metalc3 L O5 PG4 . A PG4 411 1_555 M NA NA . A NA 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.82 ? # _chem_comp.formula 'C10 H20 N2 O' _chem_comp.formula_weight 184.279 _chem_comp.id RBG _chem_comp.mon_nstd_flag . _chem_comp.name (2R)-N-tert-butylpiperidine-2-carboxamide _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 C C1 RBG sing 335 n n C3 C1 RBG sing 336 n n C2 C1 RBG sing 337 n n C1 N RBG sing 338 n n C6 C7 RBG sing 339 n n C6 C5 RBG sing 340 n n C7 C8 RBG sing 341 n n C8 C9 RBG sing 342 n n N C4 RBG sing 343 n n C4 C5 RBG sing 344 n n C4 O RBG doub 345 n n N1 C5 RBG sing 346 n n N1 C9 RBG sing 347 n n C5 H1 RBG sing 348 n n C6 H2 RBG sing 349 n n C6 H3 RBG sing 350 n n N1 H4 RBG sing 351 n n C7 H6 RBG sing 352 n n C7 H7 RBG sing 353 n n C8 H8 RBG sing 354 n n C8 H9 RBG sing 355 n n C9 H10 RBG sing 356 n n C9 H11 RBG sing 357 n n N H12 RBG sing 358 n n C3 H13 RBG sing 359 n n C3 H14 RBG sing 360 n n C3 H15 RBG sing 361 n n C2 H16 RBG sing 362 n n C2 H17 RBG sing 363 n n C2 H18 RBG sing 364 n n C H19 RBG sing 365 n n C H20 RBG sing 366 n n C H21 RBG sing 367 n n # _atom_sites.entry_id 5RC5 _atom_sites.fract_transf_matrix[1][1] 0.022107 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007685 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013697 _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] 0.020244 _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 RBG A 1 401 401 RBG XXX . C 3 DMS A 1 402 501 DMS DMS . D 3 DMS A 1 403 601 DMS DMS . E 4 GOL A 1 404 701 GOL GOL . F 3 DMS A 1 405 801 DMS DMS . G 4 GOL A 1 406 901 GOL GOL . H 4 GOL A 1 407 401 GOL GOL . I 4 GOL A 1 408 402 GOL GOL . J 4 GOL A 1 409 403 GOL GOL . K 5 ACT A 1 410 405 ACT ACT . L 6 PG4 A 1 411 407 PG4 PG4 . M 7 NA A 1 412 408 NA NA . N 8 HOH A 1 501 84 HOH HOH . N 8 HOH A 2 502 227 HOH HOH . N 8 HOH A 3 503 228 HOH HOH . N 8 HOH A 4 504 225 HOH HOH . N 8 HOH A 5 505 161 HOH HOH . N 8 HOH A 6 506 187 HOH HOH . N 8 HOH A 7 507 133 HOH HOH . N 8 HOH A 8 508 74 HOH HOH . N 8 HOH A 9 509 167 HOH HOH . N 8 HOH A 10 510 142 HOH HOH . N 8 HOH A 11 511 40 HOH HOH . N 8 HOH A 12 512 211 HOH HOH . N 8 HOH A 13 513 239 HOH HOH . N 8 HOH A 14 514 200 HOH HOH . N 8 HOH A 15 515 168 HOH HOH . N 8 HOH A 16 516 35 HOH HOH . N 8 HOH A 17 517 57 HOH HOH . N 8 HOH A 18 518 12 HOH HOH . N 8 HOH A 19 519 162 HOH HOH . N 8 HOH A 20 520 194 HOH HOH . N 8 HOH A 21 521 54 HOH HOH . N 8 HOH A 22 522 15 HOH HOH . N 8 HOH A 23 523 45 HOH HOH . N 8 HOH A 24 524 205 HOH HOH . N 8 HOH A 25 525 203 HOH HOH . N 8 HOH A 26 526 173 HOH HOH . N 8 HOH A 27 527 21 HOH HOH . N 8 HOH A 28 528 230 HOH HOH . N 8 HOH A 29 529 72 HOH HOH . N 8 HOH A 30 530 23 HOH HOH . N 8 HOH A 31 531 24 HOH HOH . N 8 HOH A 32 532 19 HOH HOH . N 8 HOH A 33 533 217 HOH HOH . N 8 HOH A 34 534 192 HOH HOH . N 8 HOH A 35 535 188 HOH HOH . N 8 HOH A 36 536 71 HOH HOH . N 8 HOH A 37 537 68 HOH HOH . N 8 HOH A 38 538 2 HOH HOH . N 8 HOH A 39 539 149 HOH HOH . N 8 HOH A 40 540 44 HOH HOH . N 8 HOH A 41 541 134 HOH HOH . N 8 HOH A 42 542 154 HOH HOH . N 8 HOH A 43 543 231 HOH HOH . N 8 HOH A 44 544 18 HOH HOH . N 8 HOH A 45 545 222 HOH HOH . N 8 HOH A 46 546 221 HOH HOH . N 8 HOH A 47 547 17 HOH HOH . N 8 HOH A 48 548 38 HOH HOH . N 8 HOH A 49 549 32 HOH HOH . N 8 HOH A 50 550 22 HOH HOH . N 8 HOH A 51 551 3 HOH HOH . N 8 HOH A 52 552 70 HOH HOH . N 8 HOH A 53 553 184 HOH HOH . N 8 HOH A 54 554 30 HOH HOH . N 8 HOH A 55 555 210 HOH HOH . N 8 HOH A 56 556 52 HOH HOH . N 8 HOH A 57 557 41 HOH HOH . N 8 HOH A 58 558 81 HOH HOH . N 8 HOH A 59 559 20 HOH HOH . N 8 HOH A 60 560 7 HOH HOH . N 8 HOH A 61 561 190 HOH HOH . N 8 HOH A 62 562 141 HOH HOH . N 8 HOH A 63 563 148 HOH HOH . N 8 HOH A 64 564 48 HOH HOH . N 8 HOH A 65 565 90 HOH HOH . N 8 HOH A 66 566 137 HOH HOH . N 8 HOH A 67 567 47 HOH HOH . N 8 HOH A 68 568 11 HOH HOH . N 8 HOH A 69 569 138 HOH HOH . N 8 HOH A 70 570 189 HOH HOH . N 8 HOH A 71 571 169 HOH HOH . N 8 HOH A 72 572 193 HOH HOH . N 8 HOH A 73 573 139 HOH HOH . N 8 HOH A 74 574 6 HOH HOH . N 8 HOH A 75 575 145 HOH HOH . N 8 HOH A 76 576 46 HOH HOH . N 8 HOH A 77 577 51 HOH HOH . N 8 HOH A 78 578 13 HOH HOH . N 8 HOH A 79 579 29 HOH HOH . N 8 HOH A 80 580 26 HOH HOH . N 8 HOH A 81 581 91 HOH HOH . N 8 HOH A 82 582 143 HOH HOH . N 8 HOH A 83 583 43 HOH HOH . N 8 HOH A 84 584 33 HOH HOH . N 8 HOH A 85 585 166 HOH HOH . N 8 HOH A 86 586 156 HOH HOH . N 8 HOH A 87 587 244 HOH HOH . N 8 HOH A 88 588 37 HOH HOH . N 8 HOH A 89 589 14 HOH HOH . N 8 HOH A 90 590 171 HOH HOH . N 8 HOH A 91 591 62 HOH HOH . N 8 HOH A 92 592 16 HOH HOH . N 8 HOH A 93 593 88 HOH HOH . N 8 HOH A 94 594 196 HOH HOH . N 8 HOH A 95 595 86 HOH HOH . N 8 HOH A 96 596 10 HOH HOH . N 8 HOH A 97 597 176 HOH HOH . N 8 HOH A 98 598 89 HOH HOH . N 8 HOH A 99 599 140 HOH HOH . N 8 HOH A 100 600 198 HOH HOH . N 8 HOH A 101 601 146 HOH HOH . N 8 HOH A 102 602 177 HOH HOH . N 8 HOH A 103 603 240 HOH HOH . N 8 HOH A 104 604 209 HOH HOH . N 8 HOH A 105 605 195 HOH HOH . N 8 HOH A 106 606 42 HOH HOH . N 8 HOH A 107 607 246 HOH HOH . N 8 HOH A 108 608 56 HOH HOH . N 8 HOH A 109 609 219 HOH HOH . N 8 HOH A 110 610 50 HOH HOH . N 8 HOH A 111 611 66 HOH HOH . N 8 HOH A 112 612 4 HOH HOH . N 8 HOH A 113 613 216 HOH HOH . N 8 HOH A 114 614 87 HOH HOH . N 8 HOH A 115 615 175 HOH HOH . N 8 HOH A 116 616 83 HOH HOH . N 8 HOH A 117 617 34 HOH HOH . N 8 HOH A 118 618 223 HOH HOH . N 8 HOH A 119 619 185 HOH HOH . N 8 HOH A 120 620 78 HOH HOH . N 8 HOH A 121 621 58 HOH HOH . N 8 HOH A 122 622 80 HOH HOH . N 8 HOH A 123 623 155 HOH HOH . N 8 HOH A 124 624 183 HOH HOH . N 8 HOH A 125 625 60 HOH HOH . N 8 HOH A 126 626 77 HOH HOH . N 8 HOH A 127 627 197 HOH HOH . N 8 HOH A 128 628 67 HOH HOH . N 8 HOH A 129 629 144 HOH HOH . N 8 HOH A 130 630 159 HOH HOH . N 8 HOH A 131 631 25 HOH HOH . N 8 HOH A 132 632 160 HOH HOH . N 8 HOH A 133 633 55 HOH HOH . N 8 HOH A 134 634 28 HOH HOH . N 8 HOH A 135 635 31 HOH HOH . N 8 HOH A 136 636 65 HOH HOH . N 8 HOH A 137 637 238 HOH HOH . N 8 HOH A 138 638 75 HOH HOH . N 8 HOH A 139 639 218 HOH HOH . N 8 HOH A 140 640 39 HOH HOH . N 8 HOH A 141 641 199 HOH HOH . N 8 HOH A 142 642 245 HOH HOH . N 8 HOH A 143 643 61 HOH HOH . N 8 HOH A 144 644 79 HOH HOH . N 8 HOH A 145 645 69 HOH HOH . N 8 HOH A 146 646 157 HOH HOH . N 8 HOH A 147 647 59 HOH HOH . N 8 HOH A 148 648 186 HOH HOH . N 8 HOH A 149 649 135 HOH HOH . N 8 HOH A 150 650 191 HOH HOH . N 8 HOH A 151 651 233 HOH HOH . N 8 HOH A 152 652 147 HOH HOH . N 8 HOH A 153 653 49 HOH HOH . N 8 HOH A 154 654 82 HOH HOH . N 8 HOH A 155 655 181 HOH HOH . N 8 HOH A 156 656 224 HOH HOH . N 8 HOH A 157 657 236 HOH HOH . N 8 HOH A 158 658 237 HOH HOH . N 8 HOH A 159 659 136 HOH HOH . N 8 HOH A 160 660 76 HOH HOH . N 8 HOH A 161 661 153 HOH HOH . N 8 HOH A 162 662 208 HOH HOH . N 8 HOH A 163 663 207 HOH HOH . N 8 HOH A 164 664 151 HOH HOH . N 8 HOH A 165 665 214 HOH HOH . N 8 HOH A 166 666 170 HOH HOH . N 8 HOH A 167 667 215 HOH HOH . N 8 HOH A 168 668 241 HOH HOH . N 8 HOH A 169 669 158 HOH HOH . N 8 HOH A 170 670 73 HOH HOH . N 8 HOH A 171 671 174 HOH HOH . N 8 HOH A 172 672 180 HOH HOH . N 8 HOH A 173 673 179 HOH HOH . N 8 HOH A 174 674 178 HOH HOH . N 8 HOH A 175 675 201 HOH HOH . N 8 HOH A 176 676 164 HOH HOH . N 8 HOH A 177 677 163 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 C4 RBG . C . B 2 22.406 -0.173 60.391 0.09 18.71 ? C4 RBG 401 A 1 HETATM 2 C C4 RBG . D . B 2 22.406 -0.173 60.391 0.09 18.71 ? C4 RBG 401 A 1 HETATM 3 C C5 RBG . C . B 2 23.857 0.281 60.511 0.09 18.79 ? C5 RBG 401 A 1 HETATM 4 C C5 RBG . D . B 2 23.857 0.281 60.511 0.09 18.79 ? C5 RBG 401 A 1 HETATM 5 C C6 RBG . C . B 2 24.743 -0.25 59.393 0.09 18.21 ? C6 RBG 401 A 1 HETATM 6 C C6 RBG . D . B 2 24.743 -0.25 59.393 0.09 18.21 ? C6 RBG 401 A 1 HETATM 7 N N1 RBG . C . B 2 23.882 1.774 60.47 0.09 19.86 1 N1 RBG 401 A 1 HETATM 8 N N1 RBG . D . B 2 23.882 1.774 60.47 0.09 19.85 1 N1 RBG 401 A 1 HETATM 9 C C7 RBG . C . B 2 26.163 0.296 59.522 0.09 17.79 ? C7 RBG 401 A 1 HETATM 10 C C7 RBG . D . B 2 26.163 0.296 59.521 0.09 17.79 ? C7 RBG 401 A 1 HETATM 11 C C8 RBG . C . B 2 26.18 1.815 59.564 0.09 18.67 ? C8 RBG 401 A 1 HETATM 12 C C8 RBG . D . B 2 26.18 1.815 59.564 0.09 18.67 ? C8 RBG 401 A 1 HETATM 13 C C9 RBG . C . B 2 25.255 2.344 60.634 0.09 19.15 ? C9 RBG 401 A 1 HETATM 14 C C9 RBG . D . B 2 25.255 2.344 60.634 0.09 19.15 ? C9 RBG 401 A 1 HETATM 15 O O RBG . C . B 2 21.507 0.419 60.988 0.09 19.74 ? O RBG 401 A 1 HETATM 16 O O RBG . D . B 2 21.507 0.419 60.988 0.09 19.74 ? O RBG 401 A 1 HETATM 17 N N RBG . C . B 2 22.205 -1.24 59.603 0.09 19.11 ? N RBG 401 A 1 HETATM 18 N N RBG . D . B 2 22.205 -1.24 59.603 0.09 19.11 ? N RBG 401 A 1 HETATM 19 C C1 RBG . C . B 2 22.002 -1.203 58.136 0.09 19.07 ? C1 RBG 401 A 1 HETATM 20 C C1 RBG . D . B 2 22.002 -1.203 58.136 0.09 19.08 ? C1 RBG 401 A 1 HETATM 21 C C3 RBG . C . B 2 21.769 0.248 57.741 0.09 19.68 ? C3 RBG 401 A 1 HETATM 22 C C3 RBG . D . B 2 21.769 0.248 57.742 0.09 19.68 ? C3 RBG 401 A 1 HETATM 23 C C2 RBG . C . B 2 20.795 -2.048 57.751 0.09 19.29 ? C2 RBG 401 A 1 HETATM 24 C C2 RBG . D . B 2 20.795 -2.048 57.751 0.09 19.29 ? C2 RBG 401 A 1 HETATM 25 C C RBG . C . B 2 23.246 -1.753 57.45 0.09 18.27 ? C RBG 401 A 1 HETATM 26 C C RBG . D . B 2 23.246 -1.753 57.451 0.09 18.27 ? C RBG 401 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 26 #