data_5TC7 # _model_server_result.job_id Y4iQxZbgyUqIy57TOdvZkg _model_server_result.datetime_utc '2024-11-28 20:26:21' _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 5tc7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 5TC7 # _exptl.entry_id 5TC7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 296.345 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-METHYLSULFANYLMETHYL-TETRAHYDRO-FURAN-3,4-DIOL _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 5TC7 _cell.length_a 123.359 _cell.length_b 123.359 _cell.length_c 44.499 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TC7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_445 -y-1,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -61.6795 -106.832028 0 3 'crystal symmetry operation' 3_545 -x+y,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 61.6795 -106.832028 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 159 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 145 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 225 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 211 _struct_conn.ptnr2_symmetry 1_555 _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 B _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 2.07 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C12 H16 N4 O3 S' _chem_comp.formula_weight 296.345 _chem_comp.id MTH _chem_comp.mon_nstd_flag . _chem_comp.name 2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-METHYLSULFANYLMETHYL-TETRAHYDRO-FURAN-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "5'-DEOXY-5'-(METHYLTHIO)-TUBERCIDIN" # 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 CS S5' MTH sing 237 n n CS HCS1 MTH sing 238 n n CS HCS2 MTH sing 239 n n CS HCS3 MTH sing 240 n n S5' C5' MTH sing 241 n n C5' C4' MTH sing 242 n n C5' "H5'1" MTH sing 243 n n C5' "H5'2" MTH sing 244 n n C4' O4' MTH sing 245 n n C4' C3' MTH sing 246 n n C4' "H4'1" MTH sing 247 n n O4' C1' MTH sing 248 n n C2' O2' MTH sing 249 n n C2' C3' MTH sing 250 n n C2' C1' MTH sing 251 n n C2' "H2'1" MTH sing 252 n n O2' HO21 MTH sing 253 n n C3' O3' MTH sing 254 n n C3' "H3'1" MTH sing 255 n n O3' HO31 MTH sing 256 n n C1' N9 MTH sing 257 n n C1' "H1'1" MTH sing 258 n n N9 C8 MTH sing 259 n y N9 C4 MTH sing 260 n y C8 C7 MTH doub 261 n y C8 HC81 MTH sing 262 n n C7 C5 MTH sing 263 n y C7 HC71 MTH sing 264 n n C5 C6 MTH doub 265 n y C5 C4 MTH sing 266 n y C6 N6 MTH sing 267 n n C6 N1 MTH sing 268 n y N6 HN61 MTH sing 269 n n N6 HN62 MTH sing 270 n n N1 C2 MTH doub 271 n y C2 N3 MTH sing 272 n y C2 HC21 MTH sing 273 n n N3 C4 MTH doub 274 n y # _atom_sites.entry_id 5TC7 _atom_sites.fract_transf_matrix[1][1] 0.008106 _atom_sites.fract_transf_matrix[1][2] 0.00468 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00936 _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] 0.022472 _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 PO4 A 1 301 1 PO4 PO4 . C 2 PO4 A 1 302 2 PO4 PO4 . D 2 PO4 A 1 303 3 PO4 PO4 . E 3 MTH A 1 304 1 MTH MTH . F 4 CL A 1 305 1 CL CL . G 5 HOH A 1 401 32 HOH HOH . G 5 HOH A 2 402 170 HOH HOH . G 5 HOH A 3 403 149 HOH HOH . G 5 HOH A 4 404 172 HOH HOH . G 5 HOH A 5 405 38 HOH HOH . G 5 HOH A 6 406 94 HOH HOH . G 5 HOH A 7 407 42 HOH HOH . G 5 HOH A 8 408 103 HOH HOH . G 5 HOH A 9 409 148 HOH HOH . G 5 HOH A 10 410 77 HOH HOH . G 5 HOH A 11 411 162 HOH HOH . G 5 HOH A 12 412 150 HOH HOH . G 5 HOH A 13 413 3 HOH HOH . G 5 HOH A 14 414 168 HOH HOH . G 5 HOH A 15 415 4 HOH HOH . G 5 HOH A 16 416 126 HOH HOH . G 5 HOH A 17 417 9 HOH HOH . G 5 HOH A 18 418 120 HOH HOH . G 5 HOH A 19 419 45 HOH HOH . G 5 HOH A 20 420 144 HOH HOH . G 5 HOH A 21 421 10 HOH HOH . G 5 HOH A 22 422 139 HOH HOH . G 5 HOH A 23 423 179 HOH HOH . G 5 HOH A 24 424 23 HOH HOH . G 5 HOH A 25 425 82 HOH HOH . G 5 HOH A 26 426 57 HOH HOH . G 5 HOH A 27 427 155 HOH HOH . G 5 HOH A 28 428 80 HOH HOH . G 5 HOH A 29 429 33 HOH HOH . G 5 HOH A 30 430 11 HOH HOH . G 5 HOH A 31 431 138 HOH HOH . G 5 HOH A 32 432 101 HOH HOH . G 5 HOH A 33 433 29 HOH HOH . G 5 HOH A 34 434 19 HOH HOH . G 5 HOH A 35 435 22 HOH HOH . G 5 HOH A 36 436 93 HOH HOH . G 5 HOH A 37 437 89 HOH HOH . G 5 HOH A 38 438 12 HOH HOH . G 5 HOH A 39 439 74 HOH HOH . G 5 HOH A 40 440 92 HOH HOH . G 5 HOH A 41 441 102 HOH HOH . G 5 HOH A 42 442 114 HOH HOH . G 5 HOH A 43 443 88 HOH HOH . G 5 HOH A 44 444 5 HOH HOH . G 5 HOH A 45 445 153 HOH HOH . G 5 HOH A 46 446 131 HOH HOH . G 5 HOH A 47 447 20 HOH HOH . G 5 HOH A 48 448 154 HOH HOH . G 5 HOH A 49 449 186 HOH HOH . G 5 HOH A 50 450 53 HOH HOH . G 5 HOH A 51 451 127 HOH HOH . G 5 HOH A 52 452 66 HOH HOH . G 5 HOH A 53 453 146 HOH HOH . G 5 HOH A 54 454 75 HOH HOH . G 5 HOH A 55 455 83 HOH HOH . G 5 HOH A 56 456 159 HOH HOH . G 5 HOH A 57 457 16 HOH HOH . G 5 HOH A 58 458 26 HOH HOH . G 5 HOH A 59 459 7 HOH HOH . G 5 HOH A 60 460 25 HOH HOH . G 5 HOH A 61 461 111 HOH HOH . G 5 HOH A 62 462 122 HOH HOH . G 5 HOH A 63 463 125 HOH HOH . G 5 HOH A 64 464 35 HOH HOH . G 5 HOH A 65 465 70 HOH HOH . G 5 HOH A 66 466 1 HOH HOH . G 5 HOH A 67 467 132 HOH HOH . G 5 HOH A 68 468 96 HOH HOH . G 5 HOH A 69 469 13 HOH HOH . G 5 HOH A 70 470 46 HOH HOH . G 5 HOH A 71 471 178 HOH HOH . G 5 HOH A 72 472 40 HOH HOH . G 5 HOH A 73 473 2 HOH HOH . G 5 HOH A 74 474 56 HOH HOH . G 5 HOH A 75 475 65 HOH HOH . G 5 HOH A 76 476 64 HOH HOH . G 5 HOH A 77 477 67 HOH HOH . G 5 HOH A 78 478 121 HOH HOH . G 5 HOH A 79 479 81 HOH HOH . G 5 HOH A 80 480 95 HOH HOH . G 5 HOH A 81 481 27 HOH HOH . G 5 HOH A 82 482 6 HOH HOH . G 5 HOH A 83 483 166 HOH HOH . G 5 HOH A 84 484 18 HOH HOH . G 5 HOH A 85 485 128 HOH HOH . G 5 HOH A 86 486 107 HOH HOH . G 5 HOH A 87 487 17 HOH HOH . G 5 HOH A 88 488 14 HOH HOH . G 5 HOH A 89 489 50 HOH HOH . G 5 HOH A 90 490 36 HOH HOH . G 5 HOH A 91 491 133 HOH HOH . G 5 HOH A 92 492 152 HOH HOH . G 5 HOH A 93 493 141 HOH HOH . G 5 HOH A 94 494 118 HOH HOH . G 5 HOH A 95 495 61 HOH HOH . G 5 HOH A 96 496 39 HOH HOH . G 5 HOH A 97 497 112 HOH HOH . G 5 HOH A 98 498 63 HOH HOH . G 5 HOH A 99 499 51 HOH HOH . G 5 HOH A 100 500 60 HOH HOH . G 5 HOH A 101 501 59 HOH HOH . G 5 HOH A 102 502 30 HOH HOH . G 5 HOH A 103 503 140 HOH HOH . G 5 HOH A 104 504 76 HOH HOH . G 5 HOH A 105 505 98 HOH HOH . G 5 HOH A 106 506 49 HOH HOH . G 5 HOH A 107 507 73 HOH HOH . G 5 HOH A 108 508 24 HOH HOH . G 5 HOH A 109 509 151 HOH HOH . G 5 HOH A 110 510 104 HOH HOH . G 5 HOH A 111 511 100 HOH HOH . G 5 HOH A 112 512 54 HOH HOH . G 5 HOH A 113 513 147 HOH HOH . G 5 HOH A 114 514 174 HOH HOH . G 5 HOH A 115 515 108 HOH HOH . G 5 HOH A 116 516 119 HOH HOH . G 5 HOH A 117 517 43 HOH HOH . G 5 HOH A 118 518 41 HOH HOH . G 5 HOH A 119 519 135 HOH HOH . G 5 HOH A 120 520 85 HOH HOH . G 5 HOH A 121 521 8 HOH HOH . G 5 HOH A 122 522 31 HOH HOH . G 5 HOH A 123 523 84 HOH HOH . G 5 HOH A 124 524 117 HOH HOH . G 5 HOH A 125 525 72 HOH HOH . G 5 HOH A 126 526 145 HOH HOH . G 5 HOH A 127 527 48 HOH HOH . G 5 HOH A 128 528 124 HOH HOH . G 5 HOH A 129 529 142 HOH HOH . G 5 HOH A 130 530 189 HOH HOH . G 5 HOH A 131 531 143 HOH HOH . G 5 HOH A 132 532 68 HOH HOH . G 5 HOH A 133 533 62 HOH HOH . G 5 HOH A 134 534 28 HOH HOH . G 5 HOH A 135 535 69 HOH HOH . G 5 HOH A 136 536 15 HOH HOH . G 5 HOH A 137 537 86 HOH HOH . G 5 HOH A 138 538 91 HOH HOH . G 5 HOH A 139 539 106 HOH HOH . G 5 HOH A 140 540 171 HOH HOH . G 5 HOH A 141 541 105 HOH HOH . G 5 HOH A 142 542 184 HOH HOH . G 5 HOH A 143 543 109 HOH HOH . G 5 HOH A 144 544 129 HOH HOH . G 5 HOH A 145 545 58 HOH HOH . G 5 HOH A 146 546 34 HOH HOH . G 5 HOH A 147 547 47 HOH HOH . G 5 HOH A 148 548 87 HOH HOH . G 5 HOH A 149 549 187 HOH HOH . G 5 HOH A 150 550 21 HOH HOH . G 5 HOH A 151 551 176 HOH HOH . G 5 HOH A 152 552 52 HOH HOH . G 5 HOH A 153 553 37 HOH HOH . G 5 HOH A 154 554 115 HOH HOH . G 5 HOH A 155 555 173 HOH HOH . G 5 HOH A 156 556 79 HOH HOH . G 5 HOH A 157 557 169 HOH HOH . G 5 HOH A 158 558 130 HOH HOH . G 5 HOH A 159 559 134 HOH HOH . G 5 HOH A 160 560 137 HOH HOH . G 5 HOH A 161 561 110 HOH HOH . G 5 HOH A 162 562 177 HOH HOH . G 5 HOH A 163 563 188 HOH HOH . G 5 HOH A 164 564 99 HOH HOH . G 5 HOH A 165 565 97 HOH HOH . G 5 HOH A 166 566 123 HOH HOH . G 5 HOH A 167 567 183 HOH HOH . G 5 HOH A 168 568 55 HOH HOH . G 5 HOH A 169 569 165 HOH HOH . G 5 HOH A 170 570 164 HOH HOH . G 5 HOH A 171 571 156 HOH HOH . G 5 HOH A 172 572 158 HOH HOH . G 5 HOH A 173 573 185 HOH HOH . G 5 HOH A 174 574 90 HOH HOH . G 5 HOH A 175 575 71 HOH HOH . G 5 HOH A 176 576 113 HOH HOH . G 5 HOH A 177 577 182 HOH HOH . G 5 HOH A 178 578 44 HOH HOH . G 5 HOH A 179 579 167 HOH HOH . G 5 HOH A 180 580 175 HOH HOH . G 5 HOH A 181 581 157 HOH HOH . G 5 HOH A 182 582 116 HOH HOH . G 5 HOH A 183 583 163 HOH HOH . G 5 HOH A 184 584 136 HOH HOH . G 5 HOH A 185 585 78 HOH HOH . G 5 HOH A 186 586 161 HOH HOH . G 5 HOH A 187 587 181 HOH HOH . G 5 HOH A 188 588 160 HOH HOH . G 5 HOH A 189 589 180 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 CS MTH . . . E 3 -20.087 -62.535 -9.956 1 31.11 ? CS MTH 304 A 1 HETATM 2 S S5' MTH . . . E 3 -19.613 -63.244 -8.428 1 35.15 ? S5' MTH 304 A 1 HETATM 3 C C5' MTH . . . E 3 -17.873 -63.466 -8.799 1 31.06 ? C5' MTH 304 A 1 HETATM 4 C C4' MTH . . . E 3 -17.132 -62.152 -9.06 1 26.87 ? C4' MTH 304 A 1 HETATM 5 O O4' MTH . . . E 3 -17.191 -61.425 -7.844 1 28.45 ? O4' MTH 304 A 1 HETATM 6 C C2' MTH . . . E 3 -14.923 -61.996 -8.078 1 22.28 ? C2' MTH 304 A 1 HETATM 7 O O2' MTH . . . E 3 -13.841 -61.067 -8.198 1 19.72 ? O2' MTH 304 A 1 HETATM 8 C C3' MTH . . . E 3 -15.647 -62.298 -9.399 1 24.71 ? C3' MTH 304 A 1 HETATM 9 O O3' MTH . . . E 3 -15.234 -61.479 -10.516 1 23.8 ? O3' MTH 304 A 1 HETATM 10 C C1' MTH . . . E 3 -15.965 -61.42 -7.115 1 22.96 ? C1' MTH 304 A 1 HETATM 11 N N9 MTH . . . E 3 -16.269 -62.138 -5.848 1 21.14 ? N9 MTH 304 A 1 HETATM 12 C C8 MTH . . . E 3 -17.342 -61.798 -5.074 1 20.82 ? C8 MTH 304 A 1 HETATM 13 C C7 MTH . . . E 3 -17.413 -62.604 -3.98 1 20.01 ? C7 MTH 304 A 1 HETATM 14 C C5 MTH . . . E 3 -16.308 -63.505 -4.078 1 19.11 ? C5 MTH 304 A 1 HETATM 15 C C6 MTH . . . E 3 -15.785 -64.626 -3.27 1 19.23 ? C6 MTH 304 A 1 HETATM 16 N N6 MTH . . . E 3 -16.378 -65.033 -2.114 1 19.56 ? N6 MTH 304 A 1 HETATM 17 N N1 MTH . . . E 3 -14.67 -65.236 -3.721 1 18.2 ? N1 MTH 304 A 1 HETATM 18 C C2 MTH . . . E 3 -14.043 -64.86 -4.84 1 17.92 ? C2 MTH 304 A 1 HETATM 19 N N3 MTH . . . E 3 -14.496 -63.863 -5.625 1 19.15 ? N3 MTH 304 A 1 HETATM 20 C C4 MTH . . . E 3 -15.601 -63.174 -5.299 1 19.36 ? C4 MTH 304 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #