data_6YSX # _model_server_result.job_id G8cFJmQfgoVy2aM-OcWj5w _model_server_result.datetime_utc '2024-11-29 15:00:41' _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 6ysx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 6YSX # _exptl.entry_id 6YSX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.35 _cell.angle_gamma 90 _cell.entry_id 6YSX _cell.length_a 70.676 _cell.length_b 71.42 _cell.length_c 72.525 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YSX _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 PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N 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 L CYS 1 1_555 B SG CYS 119 H CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf2 B SG CYS 28 H CYS 42 1_555 B SG CYS 44 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 B SG CYS 173 H CYS 168 1_555 B SG CYS 187 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 B SG CYS 201 H CYS 191 1_555 B SG CYS 231 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 B ND2 ASN 53 H ASN 60 1_555 J C1 NAG . H NAG 307 1_555 G ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 C C GLU 9 I GLU 525 1_555 C N TYS 10 I TYS 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 C C TYS 10 I TYS 526 1_555 C N LEU 11 I LEU 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc1 B O LYS 174 H LYS 169 1_555 E NA NA . H NA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc2 B O THR 177 H THR 172 1_555 E NA NA . H NA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc3 B O PHE 215 H PHE 204 1_555 E NA NA . H NA 302 4_556 A ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc4 B O ARG 233 H ARG 221 1_555 D NA NA . H NA 301 1_555 A ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc5 B O LYS 236 H LYS 224 1_555 D NA NA . H NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc6 D NA NA . H NA 301 1_555 L O HOH . H HOH 464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc7 D NA NA . H NA 301 1_555 L O HOH . H HOH 485 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc8 D NA NA . H NA 301 1_555 L O HOH . H HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.705 ? metalc ? metalc9 D NA NA . H NA 301 1_555 L O HOH . H HOH 570 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc10 E NA NA . H NA 302 1_555 L O HOH . H HOH 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc11 E NA NA . H NA 302 1_555 L O HOH . H HOH 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc12 E NA NA . H NA 302 1_555 L O HOH . H HOH 580 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6YSX _atom_sites.fract_transf_matrix[1][1] 0.014149 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002583 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014002 _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] 0.014016 _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 NA H 1 301 1 NA NA . E 4 NA H 1 302 2 NA NA . F 5 DMS H 1 303 3 DMS DMS . G 5 DMS H 1 304 4 DMS DMS . H 6 PO4 H 1 305 5 PO4 PO4 . I 7 08D H 1 306 6 08D J80 . J 8 NAG H 1 307 7 NAG NAG . K 9 HOH L 1 101 96 HOH HOH . K 9 HOH L 2 102 87 HOH HOH . K 9 HOH L 3 103 312 HOH HOH . K 9 HOH L 4 104 75 HOH HOH . K 9 HOH L 5 105 42 HOH HOH . K 9 HOH L 6 106 156 HOH HOH . K 9 HOH L 7 107 46 HOH HOH . K 9 HOH L 8 108 45 HOH HOH . K 9 HOH L 9 109 2 HOH HOH . K 9 HOH L 10 110 50 HOH HOH . K 9 HOH L 11 111 24 HOH HOH . K 9 HOH L 12 112 318 HOH HOH . K 9 HOH L 13 113 47 HOH HOH . K 9 HOH L 14 114 147 HOH HOH . K 9 HOH L 15 115 181 HOH HOH . K 9 HOH L 16 116 41 HOH HOH . K 9 HOH L 17 117 86 HOH HOH . K 9 HOH L 18 118 300 HOH HOH . K 9 HOH L 19 119 165 HOH HOH . K 9 HOH L 20 120 66 HOH HOH . K 9 HOH L 21 121 32 HOH HOH . K 9 HOH L 22 122 218 HOH HOH . K 9 HOH L 23 123 77 HOH HOH . K 9 HOH L 24 124 152 HOH HOH . K 9 HOH L 25 125 330 HOH HOH . K 9 HOH L 26 126 144 HOH HOH . K 9 HOH L 27 127 337 HOH HOH . K 9 HOH L 28 128 154 HOH HOH . K 9 HOH L 29 129 284 HOH HOH . K 9 HOH L 30 130 319 HOH HOH . K 9 HOH L 31 131 129 HOH HOH . K 9 HOH L 32 132 97 HOH HOH . K 9 HOH L 33 133 335 HOH HOH . K 9 HOH L 34 134 207 HOH HOH . K 9 HOH L 35 135 107 HOH HOH . K 9 HOH L 36 136 256 HOH HOH . K 9 HOH L 37 137 124 HOH HOH . K 9 HOH L 38 138 132 HOH HOH . L 9 HOH H 1 401 307 HOH HOH . L 9 HOH H 2 402 310 HOH HOH . L 9 HOH H 3 403 151 HOH HOH . L 9 HOH H 4 404 299 HOH HOH . L 9 HOH H 5 405 265 HOH HOH . L 9 HOH H 6 406 63 HOH HOH . L 9 HOH H 7 407 134 HOH HOH . L 9 HOH H 8 408 268 HOH HOH . L 9 HOH H 9 409 127 HOH HOH . L 9 HOH H 10 410 202 HOH HOH . L 9 HOH H 11 411 240 HOH HOH . L 9 HOH H 12 412 54 HOH HOH . L 9 HOH H 13 413 189 HOH HOH . L 9 HOH H 14 414 98 HOH HOH . L 9 HOH H 15 415 51 HOH HOH . L 9 HOH H 16 416 119 HOH HOH . L 9 HOH H 17 417 180 HOH HOH . L 9 HOH H 18 418 80 HOH HOH . L 9 HOH H 19 419 155 HOH HOH . L 9 HOH H 20 420 274 HOH HOH . L 9 HOH H 21 421 302 HOH HOH . L 9 HOH H 22 422 193 HOH HOH . L 9 HOH H 23 423 320 HOH HOH . L 9 HOH H 24 424 35 HOH HOH . L 9 HOH H 25 425 331 HOH HOH . L 9 HOH H 26 426 83 HOH HOH . L 9 HOH H 27 427 192 HOH HOH . L 9 HOH H 28 428 64 HOH HOH . L 9 HOH H 29 429 19 HOH HOH . L 9 HOH H 30 430 81 HOH HOH . L 9 HOH H 31 431 1 HOH HOH . L 9 HOH H 32 432 79 HOH HOH . L 9 HOH H 33 433 27 HOH HOH . L 9 HOH H 34 434 40 HOH HOH . L 9 HOH H 35 435 238 HOH HOH . L 9 HOH H 36 436 175 HOH HOH . L 9 HOH H 37 437 85 HOH HOH . L 9 HOH H 38 438 149 HOH HOH . L 9 HOH H 39 439 113 HOH HOH . L 9 HOH H 40 440 271 HOH HOH . L 9 HOH H 41 441 246 HOH HOH . L 9 HOH H 42 442 267 HOH HOH . L 9 HOH H 43 443 14 HOH HOH . L 9 HOH H 44 444 65 HOH HOH . L 9 HOH H 45 445 138 HOH HOH . L 9 HOH H 46 446 190 HOH HOH . L 9 HOH H 47 447 23 HOH HOH . L 9 HOH H 48 448 26 HOH HOH . L 9 HOH H 49 449 7 HOH HOH . L 9 HOH H 50 450 236 HOH HOH . L 9 HOH H 51 451 169 HOH HOH . L 9 HOH H 52 452 184 HOH HOH . L 9 HOH H 53 453 58 HOH HOH . L 9 HOH H 54 454 74 HOH HOH . L 9 HOH H 55 455 91 HOH HOH . L 9 HOH H 56 456 25 HOH HOH . L 9 HOH H 57 457 242 HOH HOH . L 9 HOH H 58 458 339 HOH HOH . L 9 HOH H 59 459 73 HOH HOH . L 9 HOH H 60 460 172 HOH HOH . L 9 HOH H 61 461 168 HOH HOH . L 9 HOH H 62 462 43 HOH HOH . L 9 HOH H 63 463 247 HOH HOH . L 9 HOH H 64 464 39 HOH HOH . L 9 HOH H 65 465 332 HOH HOH . L 9 HOH H 66 466 60 HOH HOH . L 9 HOH H 67 467 30 HOH HOH . L 9 HOH H 68 468 72 HOH HOH . L 9 HOH H 69 469 3 HOH HOH . L 9 HOH H 70 470 191 HOH HOH . L 9 HOH H 71 471 22 HOH HOH . L 9 HOH H 72 472 208 HOH HOH . L 9 HOH H 73 473 243 HOH HOH . L 9 HOH H 74 474 13 HOH HOH . L 9 HOH H 75 475 18 HOH HOH . L 9 HOH H 76 476 84 HOH HOH . L 9 HOH H 77 477 140 HOH HOH . L 9 HOH H 78 478 252 HOH HOH . L 9 HOH H 79 479 20 HOH HOH . L 9 HOH H 80 480 224 HOH HOH . L 9 HOH H 81 481 5 HOH HOH . L 9 HOH H 82 482 89 HOH HOH . L 9 HOH H 83 483 159 HOH HOH . L 9 HOH H 84 484 276 HOH HOH . L 9 HOH H 85 485 6 HOH HOH . L 9 HOH H 86 486 11 HOH HOH . L 9 HOH H 87 487 125 HOH HOH . L 9 HOH H 88 488 131 HOH HOH . L 9 HOH H 89 489 212 HOH HOH . L 9 HOH H 90 490 28 HOH HOH . L 9 HOH H 91 491 8 HOH HOH . L 9 HOH H 92 492 52 HOH HOH . L 9 HOH H 93 493 158 HOH HOH . L 9 HOH H 94 494 9 HOH HOH . L 9 HOH H 95 495 44 HOH HOH . L 9 HOH H 96 496 103 HOH HOH . L 9 HOH H 97 497 53 HOH HOH . L 9 HOH H 98 498 56 HOH HOH . L 9 HOH H 99 499 17 HOH HOH . L 9 HOH H 100 500 69 HOH HOH . L 9 HOH H 101 501 150 HOH HOH . L 9 HOH H 102 502 108 HOH HOH . L 9 HOH H 103 503 99 HOH HOH . L 9 HOH H 104 504 48 HOH HOH . L 9 HOH H 105 505 12 HOH HOH . L 9 HOH H 106 506 329 HOH HOH . L 9 HOH H 107 507 145 HOH HOH . L 9 HOH H 108 508 37 HOH HOH . L 9 HOH H 109 509 314 HOH HOH . L 9 HOH H 110 510 4 HOH HOH . L 9 HOH H 111 511 237 HOH HOH . L 9 HOH H 112 512 49 HOH HOH . L 9 HOH H 113 513 33 HOH HOH . L 9 HOH H 114 514 71 HOH HOH . L 9 HOH H 115 515 29 HOH HOH . L 9 HOH H 116 516 78 HOH HOH . L 9 HOH H 117 517 142 HOH HOH . L 9 HOH H 118 518 57 HOH HOH . L 9 HOH H 119 519 104 HOH HOH . L 9 HOH H 120 520 34 HOH HOH . L 9 HOH H 121 521 21 HOH HOH . L 9 HOH H 122 522 153 HOH HOH . L 9 HOH H 123 523 122 HOH HOH . L 9 HOH H 124 524 204 HOH HOH . L 9 HOH H 125 525 115 HOH HOH . L 9 HOH H 126 526 196 HOH HOH . L 9 HOH H 127 527 106 HOH HOH . L 9 HOH H 128 528 340 HOH HOH . L 9 HOH H 129 529 61 HOH HOH . L 9 HOH H 130 530 93 HOH HOH . L 9 HOH H 131 531 200 HOH HOH . L 9 HOH H 132 532 101 HOH HOH . L 9 HOH H 133 533 10 HOH HOH . L 9 HOH H 134 534 249 HOH HOH . L 9 HOH H 135 535 143 HOH HOH . L 9 HOH H 136 536 170 HOH HOH . L 9 HOH H 137 537 116 HOH HOH . L 9 HOH H 138 538 62 HOH HOH . L 9 HOH H 139 539 323 HOH HOH . L 9 HOH H 140 540 76 HOH HOH . L 9 HOH H 141 541 292 HOH HOH . L 9 HOH H 142 542 232 HOH HOH . L 9 HOH H 143 543 161 HOH HOH . L 9 HOH H 144 544 67 HOH HOH . L 9 HOH H 145 545 121 HOH HOH . L 9 HOH H 146 546 219 HOH HOH . L 9 HOH H 147 547 126 HOH HOH . L 9 HOH H 148 548 118 HOH HOH . L 9 HOH H 149 549 100 HOH HOH . L 9 HOH H 150 550 82 HOH HOH . L 9 HOH H 151 551 90 HOH HOH . L 9 HOH H 152 552 273 HOH HOH . L 9 HOH H 153 553 260 HOH HOH . L 9 HOH H 154 554 94 HOH HOH . L 9 HOH H 155 555 334 HOH HOH . L 9 HOH H 156 556 88 HOH HOH . L 9 HOH H 157 557 141 HOH HOH . L 9 HOH H 158 558 148 HOH HOH . L 9 HOH H 159 559 321 HOH HOH . L 9 HOH H 160 560 110 HOH HOH . L 9 HOH H 161 561 59 HOH HOH . L 9 HOH H 162 562 287 HOH HOH . L 9 HOH H 163 563 146 HOH HOH . L 9 HOH H 164 564 188 HOH HOH . L 9 HOH H 165 565 194 HOH HOH . L 9 HOH H 166 566 333 HOH HOH . L 9 HOH H 167 567 38 HOH HOH . L 9 HOH H 168 568 298 HOH HOH . L 9 HOH H 169 569 164 HOH HOH . L 9 HOH H 170 570 137 HOH HOH . L 9 HOH H 171 571 16 HOH HOH . L 9 HOH H 172 572 214 HOH HOH . L 9 HOH H 173 573 177 HOH HOH . L 9 HOH H 174 574 253 HOH HOH . L 9 HOH H 175 575 341 HOH HOH . L 9 HOH H 176 576 293 HOH HOH . L 9 HOH H 177 577 316 HOH HOH . L 9 HOH H 178 578 324 HOH HOH . L 9 HOH H 179 579 187 HOH HOH . L 9 HOH H 180 580 136 HOH HOH . L 9 HOH H 181 581 203 HOH HOH . L 9 HOH H 182 582 277 HOH HOH . L 9 HOH H 183 583 95 HOH HOH . L 9 HOH H 184 584 210 HOH HOH . L 9 HOH H 185 585 197 HOH HOH . L 9 HOH H 186 586 297 HOH HOH . L 9 HOH H 187 587 338 HOH HOH . L 9 HOH H 188 588 239 HOH HOH . L 9 HOH H 189 589 294 HOH HOH . L 9 HOH H 190 590 199 HOH HOH . L 9 HOH H 191 591 92 HOH HOH . L 9 HOH H 192 592 130 HOH HOH . L 9 HOH H 193 593 112 HOH HOH . L 9 HOH H 194 594 315 HOH HOH . L 9 HOH H 195 595 195 HOH HOH . L 9 HOH H 196 596 257 HOH HOH . L 9 HOH H 197 597 205 HOH HOH . L 9 HOH H 198 598 55 HOH HOH . L 9 HOH H 199 599 285 HOH HOH . L 9 HOH H 200 600 336 HOH HOH . L 9 HOH H 201 601 313 HOH HOH . L 9 HOH H 202 602 326 HOH HOH . L 9 HOH H 203 603 133 HOH HOH . L 9 HOH H 204 604 111 HOH HOH . M 9 HOH I 1 601 264 HOH HOH . M 9 HOH I 2 602 114 HOH HOH . M 9 HOH I 3 603 216 HOH HOH . M 9 HOH I 4 604 176 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 4 _atom_site.Cartn_x 5.874 _atom_site.Cartn_y -13.344 _atom_site.Cartn_z 30.315 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 20.58 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 301 _atom_site.auth_asym_id H _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #