data_3A9I # _model_server_result.job_id '_rMtE2gtktYJbyfQUZ-oDA' _model_server_result.datetime_utc '2025-02-28 08:19:49' _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 3a9i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":378}' # _entry.id 3A9I # _exptl.entry_id 3A9I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 147.195 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description LYSINE _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 3A9I _cell.length_a 80.281 _cell.length_b 96.025 _cell.length_c 77.082 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3A9I _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 OE1 GLU 13 A GLU 13 1_555 B CO CO . A CO 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc2 A NE2 HIS 195 A HIS 195 1_555 B CO CO . A CO 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc3 A NE2 HIS 197 A HIS 197 1_555 B CO CO . A CO 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc4 B CO CO . A CO 377 1_555 C N LYS . A LYS 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc5 B CO CO . A CO 377 1_555 C O LYS . A LYS 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc6 B CO CO . A CO 377 1_555 D O HOH . A HOH 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? # _chem_comp.formula 'C6 H15 N2 O2 1' _chem_comp.formula_weight 147.195 _chem_comp.id LYS _chem_comp.mon_nstd_flag y _chem_comp.name LYSINE _chem_comp.type 'l-peptide linking' _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 N CA LYS sing 194 n n N H LYS sing 195 n n N H2 LYS sing 196 n n CA C LYS sing 197 n n CA CB LYS sing 198 n n CA HA LYS sing 199 n n C O LYS doub 200 n n C OXT LYS sing 201 n n CB CG LYS sing 202 n n CB HB2 LYS sing 203 n n CB HB3 LYS sing 204 n n CG CD LYS sing 205 n n CG HG2 LYS sing 206 n n CG HG3 LYS sing 207 n n CD CE LYS sing 208 n n CD HD2 LYS sing 209 n n CD HD3 LYS sing 210 n n CE NZ LYS sing 211 n n CE HE2 LYS sing 212 n n CE HE3 LYS sing 213 n n NZ HZ1 LYS sing 214 n n NZ HZ2 LYS sing 215 n n NZ HZ3 LYS sing 216 n n OXT HXT LYS sing 217 n n # _atom_sites.entry_id 3A9I _atom_sites.fract_transf_matrix[1][1] 0.012456 _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] 0.010414 _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] 0.012973 _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 CO A 1 377 1 CO CO . C 3 LYS A 1 378 1 LYS LYS . D 4 HOH A 1 379 1 HOH HOH . D 4 HOH A 2 380 2 HOH HOH . D 4 HOH A 3 381 3 HOH HOH . D 4 HOH A 4 382 4 HOH HOH . D 4 HOH A 5 383 5 HOH HOH . D 4 HOH A 6 384 6 HOH HOH . D 4 HOH A 7 385 7 HOH HOH . D 4 HOH A 8 386 8 HOH HOH . D 4 HOH A 9 387 9 HOH HOH . D 4 HOH A 10 388 10 HOH HOH . D 4 HOH A 11 389 11 HOH HOH . D 4 HOH A 12 390 12 HOH HOH . D 4 HOH A 13 391 13 HOH HOH . D 4 HOH A 14 392 14 HOH HOH . D 4 HOH A 15 393 15 HOH HOH . D 4 HOH A 16 394 16 HOH HOH . D 4 HOH A 17 395 17 HOH HOH . D 4 HOH A 18 396 18 HOH HOH . D 4 HOH A 19 397 19 HOH HOH . D 4 HOH A 20 398 20 HOH HOH . D 4 HOH A 21 399 21 HOH HOH . D 4 HOH A 22 400 22 HOH HOH . D 4 HOH A 23 401 23 HOH HOH . D 4 HOH A 24 402 24 HOH HOH . D 4 HOH A 25 403 25 HOH HOH . D 4 HOH A 26 404 26 HOH HOH . D 4 HOH A 27 405 27 HOH HOH . D 4 HOH A 28 406 28 HOH HOH . D 4 HOH A 29 407 29 HOH HOH . D 4 HOH A 30 408 30 HOH HOH . D 4 HOH A 31 409 31 HOH HOH . D 4 HOH A 32 410 32 HOH HOH . D 4 HOH A 33 411 33 HOH HOH . D 4 HOH A 34 412 34 HOH HOH . D 4 HOH A 35 413 35 HOH HOH . D 4 HOH A 36 414 36 HOH HOH . D 4 HOH A 37 415 37 HOH HOH . D 4 HOH A 38 416 38 HOH HOH . D 4 HOH A 39 417 39 HOH HOH . D 4 HOH A 40 418 40 HOH HOH . D 4 HOH A 41 419 41 HOH HOH . D 4 HOH A 42 420 42 HOH HOH . D 4 HOH A 43 421 43 HOH HOH . D 4 HOH A 44 422 44 HOH HOH . D 4 HOH A 45 423 45 HOH HOH . D 4 HOH A 46 424 46 HOH HOH . D 4 HOH A 47 425 47 HOH HOH . D 4 HOH A 48 426 48 HOH HOH . D 4 HOH A 49 427 49 HOH HOH . D 4 HOH A 50 428 50 HOH HOH . D 4 HOH A 51 429 51 HOH HOH . D 4 HOH A 52 430 52 HOH HOH . D 4 HOH A 53 431 53 HOH HOH . D 4 HOH A 54 432 54 HOH HOH . D 4 HOH A 55 433 55 HOH HOH . D 4 HOH A 56 434 56 HOH HOH . D 4 HOH A 57 435 57 HOH HOH . D 4 HOH A 58 436 58 HOH HOH . D 4 HOH A 59 437 59 HOH HOH . D 4 HOH A 60 438 60 HOH HOH . D 4 HOH A 61 439 61 HOH HOH . D 4 HOH A 62 440 62 HOH HOH . D 4 HOH A 63 441 63 HOH HOH . D 4 HOH A 64 442 64 HOH HOH . D 4 HOH A 65 443 65 HOH HOH . D 4 HOH A 66 444 66 HOH HOH . D 4 HOH A 67 445 67 HOH HOH . D 4 HOH A 68 446 68 HOH HOH . D 4 HOH A 69 447 69 HOH HOH . D 4 HOH A 70 448 70 HOH HOH . D 4 HOH A 71 449 71 HOH HOH . D 4 HOH A 72 450 72 HOH HOH . D 4 HOH A 73 451 73 HOH HOH . D 4 HOH A 74 452 74 HOH HOH . D 4 HOH A 75 453 75 HOH HOH . D 4 HOH A 76 454 76 HOH HOH . D 4 HOH A 77 455 77 HOH HOH . D 4 HOH A 78 456 78 HOH HOH . D 4 HOH A 79 457 79 HOH HOH . D 4 HOH A 80 458 80 HOH HOH . D 4 HOH A 81 459 81 HOH HOH . D 4 HOH A 82 460 82 HOH HOH . D 4 HOH A 83 461 83 HOH HOH . D 4 HOH A 84 462 84 HOH HOH . D 4 HOH A 85 463 85 HOH HOH . D 4 HOH A 86 464 86 HOH HOH . D 4 HOH A 87 465 87 HOH HOH . D 4 HOH A 88 466 88 HOH HOH . D 4 HOH A 89 467 89 HOH HOH . D 4 HOH A 90 468 90 HOH HOH . D 4 HOH A 91 469 91 HOH HOH . D 4 HOH A 92 470 92 HOH HOH . D 4 HOH A 93 471 93 HOH HOH . D 4 HOH A 94 472 94 HOH HOH . D 4 HOH A 95 473 95 HOH HOH . D 4 HOH A 96 474 96 HOH HOH . D 4 HOH A 97 475 97 HOH HOH . D 4 HOH A 98 476 98 HOH HOH . D 4 HOH A 99 477 99 HOH HOH . D 4 HOH A 100 478 100 HOH HOH . D 4 HOH A 101 479 101 HOH HOH . D 4 HOH A 102 480 102 HOH HOH . D 4 HOH A 103 481 103 HOH HOH . D 4 HOH A 104 482 104 HOH HOH . D 4 HOH A 105 483 105 HOH HOH . D 4 HOH A 106 484 106 HOH HOH . D 4 HOH A 107 485 107 HOH HOH . D 4 HOH A 108 486 108 HOH HOH . D 4 HOH A 109 487 109 HOH HOH . D 4 HOH A 110 488 110 HOH HOH . D 4 HOH A 111 489 111 HOH HOH . D 4 HOH A 112 490 112 HOH HOH . D 4 HOH A 113 491 113 HOH HOH . D 4 HOH A 114 492 114 HOH HOH . D 4 HOH A 115 493 115 HOH HOH . D 4 HOH A 116 494 116 HOH HOH . D 4 HOH A 117 495 117 HOH HOH . D 4 HOH A 118 496 118 HOH HOH . D 4 HOH A 119 497 119 HOH HOH . D 4 HOH A 120 498 120 HOH HOH . D 4 HOH A 121 499 121 HOH HOH . D 4 HOH A 122 500 122 HOH HOH . D 4 HOH A 123 501 123 HOH HOH . D 4 HOH A 124 502 124 HOH HOH . D 4 HOH A 125 503 125 HOH HOH . D 4 HOH A 126 504 126 HOH HOH . D 4 HOH A 127 505 127 HOH HOH . D 4 HOH A 128 506 128 HOH HOH . D 4 HOH A 129 507 129 HOH HOH . D 4 HOH A 130 508 130 HOH HOH . D 4 HOH A 131 509 131 HOH HOH . D 4 HOH A 132 510 132 HOH HOH . D 4 HOH A 133 511 133 HOH HOH . D 4 HOH A 134 512 134 HOH HOH . D 4 HOH A 135 513 135 HOH HOH . D 4 HOH A 136 514 136 HOH HOH . D 4 HOH A 137 515 137 HOH HOH . D 4 HOH A 138 516 138 HOH HOH . D 4 HOH A 139 517 139 HOH HOH . D 4 HOH A 140 518 140 HOH HOH . D 4 HOH A 141 519 141 HOH HOH . D 4 HOH A 142 520 142 HOH HOH . D 4 HOH A 143 521 143 HOH HOH . D 4 HOH A 144 522 144 HOH HOH . D 4 HOH A 145 523 145 HOH HOH . D 4 HOH A 146 524 146 HOH HOH . D 4 HOH A 147 525 147 HOH HOH . D 4 HOH A 148 526 148 HOH HOH . D 4 HOH A 149 527 149 HOH HOH . D 4 HOH A 150 528 150 HOH HOH . D 4 HOH A 151 529 151 HOH HOH . D 4 HOH A 152 530 152 HOH HOH . D 4 HOH A 153 531 153 HOH HOH . D 4 HOH A 154 532 154 HOH HOH . D 4 HOH A 155 533 155 HOH HOH . D 4 HOH A 156 534 156 HOH HOH . D 4 HOH A 157 535 157 HOH HOH . D 4 HOH A 158 536 158 HOH HOH . D 4 HOH A 159 537 159 HOH HOH . D 4 HOH A 160 538 160 HOH HOH . D 4 HOH A 161 539 161 HOH HOH . D 4 HOH A 162 540 162 HOH HOH . D 4 HOH A 163 541 163 HOH HOH . D 4 HOH A 164 542 164 HOH HOH . D 4 HOH A 165 543 165 HOH HOH . D 4 HOH A 166 544 166 HOH HOH . D 4 HOH A 167 545 167 HOH HOH . D 4 HOH A 168 546 168 HOH HOH . D 4 HOH A 169 547 169 HOH HOH . D 4 HOH A 170 548 170 HOH HOH . D 4 HOH A 171 549 171 HOH HOH . D 4 HOH A 172 550 172 HOH HOH . D 4 HOH A 173 551 173 HOH HOH . D 4 HOH A 174 552 174 HOH HOH . D 4 HOH A 175 553 175 HOH HOH . D 4 HOH A 176 554 176 HOH HOH . D 4 HOH A 177 555 177 HOH HOH . D 4 HOH A 178 556 178 HOH HOH . D 4 HOH A 179 557 179 HOH HOH . D 4 HOH A 180 558 180 HOH HOH . D 4 HOH A 181 559 181 HOH HOH . D 4 HOH A 182 560 182 HOH HOH . D 4 HOH A 183 561 183 HOH HOH . D 4 HOH A 184 562 184 HOH HOH . D 4 HOH A 185 563 185 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 N N LYS . . . C 3 24.472 17.87 1.686 1 20.32 ? N LYS 378 A 1 HETATM 2 C CA LYS . . . C 3 25.843 18.494 1.589 1 19.25 ? CA LYS 378 A 1 HETATM 3 C C LYS . . . C 3 26.572 17.845 0.415 1 18.75 ? C LYS 378 A 1 HETATM 4 O O LYS . . . C 3 26.197 16.764 -0.049 1 17.04 ? O LYS 378 A 1 HETATM 5 C CB LYS . . . C 3 26.605 18.23 2.879 1 19.37 ? CB LYS 378 A 1 HETATM 6 C CG LYS . . . C 3 27.956 18.919 3.011 1 19.96 ? CG LYS 378 A 1 HETATM 7 C CD LYS . . . C 3 28.608 18.433 4.31 1 22.1 ? CD LYS 378 A 1 HETATM 8 C CE LYS . . . C 3 29.812 19.276 4.662 1 23.41 ? CE LYS 378 A 1 HETATM 9 N NZ LYS . . . C 3 30.273 18.951 6.065 1 24.09 ? NZ LYS 378 A 1 HETATM 10 O OXT LYS . . . C 3 27.551 18.408 -0.092 1 19.49 ? OXT LYS 378 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #