data_6B6O # _model_server_result.job_id zbghYtKejLijApiL3qHa3w _model_server_result.datetime_utc '2024-11-28 18:05:39' _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 6b6o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 6B6O # _exptl.entry_id 6B6O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-xylopyranose _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 6B6O _cell.length_a 54.439 _cell.length_b 58.172 _cell.length_c 65.943 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6B6O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 5 _struct_asym.id F _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 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A OE1 GLU 52 A GLU 70 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc2 A O ASN 54 A ASN 72 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? metalc ? metalc3 A O VAL 57 A VAL 75 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc4 A OE2 GLU 62 A GLU 80 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc5 B CA CA . A CA 301 1_555 H O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc6 B CA CA . A CA 301 1_555 H O HOH . A HOH 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? # _chem_comp.formula 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id XYP _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-xylopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-D-xylose;D-xylose;xylose # 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 O1 C1 XYP sing 397 n n O1 HO1 XYP sing 398 n n C1 C2 XYP sing 399 n n C1 O5 XYP sing 400 n n C1 H1 XYP sing 401 n n C2 C3 XYP sing 402 n n C2 O2 XYP sing 403 n n C2 H2 XYP sing 404 n n C3 C4 XYP sing 405 n n C3 O3 XYP sing 406 n n C3 H3 XYP sing 407 n n C4 C5 XYP sing 408 n n C4 O4 XYP sing 409 n n C4 H4 XYP sing 410 n n C5 O5 XYP sing 411 n n C5 H51 XYP sing 412 n n C5 H52 XYP sing 413 n n O2 HO2 XYP sing 414 n n O3 HO3 XYP sing 415 n n O4 HO4 XYP sing 416 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version XYP DXylpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 XYP b-D-xylopyranose 'COMMON NAME' GMML 1 XYP b-D-Xylp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 XYP Xyl 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 6B6O _atom_sites.fract_transf_matrix[1][1] 0.018369 _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] 0.01719 _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] 0.015165 _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 CA A 1 301 301 CA CA . C 3 BEN A 1 302 302 BEN BEN . D 4 SO4 A 1 303 303 SO4 SO4 . E 4 SO4 A 1 304 304 SO4 SO4 . F 5 XYP A 1 305 311 XYP XYP . G 6 XYS A 1 306 312 XYS XYS . H 7 HOH A 1 401 1073 HOH HOH . H 7 HOH A 2 402 1079 HOH HOH . H 7 HOH A 3 403 1076 HOH HOH . H 7 HOH A 4 404 1129 HOH HOH . H 7 HOH A 5 405 1065 HOH HOH . H 7 HOH A 6 406 1392 HOH HOH . H 7 HOH A 7 407 1042 HOH HOH . H 7 HOH A 8 408 1014 HOH HOH . H 7 HOH A 9 409 1088 HOH HOH . H 7 HOH A 10 410 1124 HOH HOH . H 7 HOH A 11 411 1163 HOH HOH . H 7 HOH A 12 412 1404 HOH HOH . H 7 HOH A 13 413 1152 HOH HOH . H 7 HOH A 14 414 1008 HOH HOH . H 7 HOH A 15 415 1052 HOH HOH . H 7 HOH A 16 416 1002 HOH HOH . H 7 HOH A 17 417 1062 HOH HOH . H 7 HOH A 18 418 1034 HOH HOH . H 7 HOH A 19 419 1070 HOH HOH . H 7 HOH A 20 420 1231 HOH HOH . H 7 HOH A 21 421 1110 HOH HOH . H 7 HOH A 22 422 1161 HOH HOH . H 7 HOH A 23 423 1189 HOH HOH . H 7 HOH A 24 424 1303 HOH HOH . H 7 HOH A 25 425 1027 HOH HOH . H 7 HOH A 26 426 1234 HOH HOH . H 7 HOH A 27 427 1077 HOH HOH . H 7 HOH A 28 428 1044 HOH HOH . H 7 HOH A 29 429 1022 HOH HOH . H 7 HOH A 30 430 1004 HOH HOH . H 7 HOH A 31 431 1010 HOH HOH . H 7 HOH A 32 432 1016 HOH HOH . H 7 HOH A 33 433 1085 HOH HOH . H 7 HOH A 34 434 1075 HOH HOH . H 7 HOH A 35 435 1421 HOH HOH . H 7 HOH A 36 436 1035 HOH HOH . H 7 HOH A 37 437 1157 HOH HOH . H 7 HOH A 38 438 1057 HOH HOH . H 7 HOH A 39 439 1021 HOH HOH . H 7 HOH A 40 440 1037 HOH HOH . H 7 HOH A 41 441 1015 HOH HOH . H 7 HOH A 42 442 1013 HOH HOH . H 7 HOH A 43 443 1006 HOH HOH . H 7 HOH A 44 444 1019 HOH HOH . H 7 HOH A 45 445 1104 HOH HOH . H 7 HOH A 46 446 1032 HOH HOH . H 7 HOH A 47 447 1429 HOH HOH . H 7 HOH A 48 448 1366 HOH HOH . H 7 HOH A 49 449 1025 HOH HOH . H 7 HOH A 50 450 1007 HOH HOH . H 7 HOH A 51 451 1028 HOH HOH . H 7 HOH A 52 452 1054 HOH HOH . H 7 HOH A 53 453 1033 HOH HOH . H 7 HOH A 54 454 1005 HOH HOH . H 7 HOH A 55 455 1105 HOH HOH . H 7 HOH A 56 456 1061 HOH HOH . H 7 HOH A 57 457 1340 HOH HOH . H 7 HOH A 58 458 1445 HOH HOH . H 7 HOH A 59 459 1403 HOH HOH . H 7 HOH A 60 460 1432 HOH HOH . H 7 HOH A 61 461 1029 HOH HOH . H 7 HOH A 62 462 1426 HOH HOH . H 7 HOH A 63 463 1441 HOH HOH . H 7 HOH A 64 464 1063 HOH HOH . H 7 HOH A 65 465 1020 HOH HOH . H 7 HOH A 66 466 1050 HOH HOH . H 7 HOH A 67 467 1026 HOH HOH . H 7 HOH A 68 468 1425 HOH HOH . H 7 HOH A 69 469 1097 HOH HOH . H 7 HOH A 70 470 1018 HOH HOH . H 7 HOH A 71 471 1039 HOH HOH . H 7 HOH A 72 472 1182 HOH HOH . H 7 HOH A 73 473 1133 HOH HOH . H 7 HOH A 74 474 1143 HOH HOH . H 7 HOH A 75 475 1017 HOH HOH . H 7 HOH A 76 476 1009 HOH HOH . H 7 HOH A 77 477 1301 HOH HOH . H 7 HOH A 78 478 1440 HOH HOH . H 7 HOH A 79 479 1030 HOH HOH . H 7 HOH A 80 480 1418 HOH HOH . H 7 HOH A 81 481 1060 HOH HOH . H 7 HOH A 82 482 1003 HOH HOH . H 7 HOH A 83 483 1031 HOH HOH . H 7 HOH A 84 484 1384 HOH HOH . H 7 HOH A 85 485 1438 HOH HOH . H 7 HOH A 86 486 1428 HOH HOH . H 7 HOH A 87 487 1011 HOH HOH . H 7 HOH A 88 488 1058 HOH HOH . H 7 HOH A 89 489 1112 HOH HOH . H 7 HOH A 90 490 1444 HOH HOH . H 7 HOH A 91 491 1049 HOH HOH . H 7 HOH A 92 492 1149 HOH HOH . H 7 HOH A 93 493 1176 HOH HOH . H 7 HOH A 94 494 1345 HOH HOH . H 7 HOH A 95 495 1435 HOH HOH . H 7 HOH A 96 496 1220 HOH HOH . H 7 HOH A 97 497 1436 HOH HOH . H 7 HOH A 98 498 1411 HOH HOH . H 7 HOH A 99 499 1072 HOH HOH . H 7 HOH A 100 500 1135 HOH HOH . H 7 HOH A 101 501 1419 HOH HOH . H 7 HOH A 102 502 1023 HOH HOH . H 7 HOH A 103 503 1122 HOH HOH . H 7 HOH A 104 504 1012 HOH HOH . H 7 HOH A 105 505 1131 HOH HOH . H 7 HOH A 106 506 1171 HOH HOH . H 7 HOH A 107 507 1286 HOH HOH . H 7 HOH A 108 508 1427 HOH HOH . H 7 HOH A 109 509 1437 HOH HOH . H 7 HOH A 110 510 1175 HOH HOH . H 7 HOH A 111 511 1001 HOH HOH . H 7 HOH A 112 512 1047 HOH HOH . H 7 HOH A 113 513 1024 HOH HOH . H 7 HOH A 114 514 1233 HOH HOH . H 7 HOH A 115 515 1202 HOH HOH . H 7 HOH A 116 516 1185 HOH HOH . H 7 HOH A 117 517 1038 HOH HOH . H 7 HOH A 118 518 1434 HOH HOH . H 7 HOH A 119 519 1101 HOH HOH . H 7 HOH A 120 520 1053 HOH HOH . H 7 HOH A 121 521 1179 HOH HOH . H 7 HOH A 122 522 1040 HOH HOH . H 7 HOH A 123 523 1069 HOH HOH . H 7 HOH A 124 524 1145 HOH HOH . H 7 HOH A 125 525 1246 HOH HOH . H 7 HOH A 126 526 1147 HOH HOH . H 7 HOH A 127 527 1167 HOH HOH . H 7 HOH A 128 528 1414 HOH HOH . H 7 HOH A 129 529 1083 HOH HOH . H 7 HOH A 130 530 1036 HOH HOH . H 7 HOH A 131 531 1043 HOH HOH . H 7 HOH A 132 532 1369 HOH HOH . H 7 HOH A 133 533 1413 HOH HOH . H 7 HOH A 134 534 1046 HOH HOH . H 7 HOH A 135 535 1045 HOH HOH . H 7 HOH A 136 536 1415 HOH HOH . H 7 HOH A 137 537 1148 HOH HOH . H 7 HOH A 138 538 1401 HOH HOH . H 7 HOH A 139 539 1255 HOH HOH . H 7 HOH A 140 540 1106 HOH HOH . H 7 HOH A 141 541 1442 HOH HOH . H 7 HOH A 142 542 1123 HOH HOH . H 7 HOH A 143 543 1188 HOH HOH . H 7 HOH A 144 544 1059 HOH HOH . H 7 HOH A 145 545 1092 HOH HOH . H 7 HOH A 146 546 1080 HOH HOH . H 7 HOH A 147 547 1282 HOH HOH . H 7 HOH A 148 548 1430 HOH HOH . H 7 HOH A 149 549 1158 HOH HOH . H 7 HOH A 150 550 1055 HOH HOH . H 7 HOH A 151 551 1417 HOH HOH . H 7 HOH A 152 552 1365 HOH HOH . H 7 HOH A 153 553 1103 HOH HOH . H 7 HOH A 154 554 1407 HOH HOH . H 7 HOH A 155 555 1406 HOH HOH . H 7 HOH A 156 556 1150 HOH HOH . H 7 HOH A 157 557 1300 HOH HOH . H 7 HOH A 158 558 1096 HOH HOH . H 7 HOH A 159 559 1439 HOH HOH . H 7 HOH A 160 560 1423 HOH HOH . H 7 HOH A 161 561 1100 HOH HOH . H 7 HOH A 162 562 1386 HOH HOH . H 7 HOH A 163 563 1242 HOH HOH . H 7 HOH A 164 564 1041 HOH HOH . H 7 HOH A 165 565 1089 HOH HOH . H 7 HOH A 166 566 1107 HOH HOH . H 7 HOH A 167 567 1127 HOH HOH . H 7 HOH A 168 568 1090 HOH HOH . H 7 HOH A 169 569 1146 HOH HOH . H 7 HOH A 170 570 1296 HOH HOH . H 7 HOH A 171 571 1136 HOH HOH . H 7 HOH A 172 572 1408 HOH HOH . H 7 HOH A 173 573 1218 HOH HOH . H 7 HOH A 174 574 1081 HOH HOH . H 7 HOH A 175 575 1174 HOH HOH . H 7 HOH A 176 576 1114 HOH HOH . H 7 HOH A 177 577 1119 HOH HOH . H 7 HOH A 178 578 1284 HOH HOH . H 7 HOH A 179 579 1260 HOH HOH . H 7 HOH A 180 580 1299 HOH HOH . H 7 HOH A 181 581 1084 HOH HOH . H 7 HOH A 182 582 1424 HOH HOH . H 7 HOH A 183 583 1198 HOH HOH . H 7 HOH A 184 584 1422 HOH HOH . H 7 HOH A 185 585 1409 HOH HOH . H 7 HOH A 186 586 1248 HOH HOH . H 7 HOH A 187 587 1210 HOH HOH . H 7 HOH A 188 588 1087 HOH HOH . H 7 HOH A 189 589 1221 HOH HOH . H 7 HOH A 190 590 1243 HOH HOH . H 7 HOH A 191 591 1443 HOH HOH . H 7 HOH A 192 592 1433 HOH HOH . H 7 HOH A 193 593 1132 HOH HOH . H 7 HOH A 194 594 1138 HOH HOH . H 7 HOH A 195 595 1067 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 O O1 XYP . . . F 5 -7.884 -24.332 11.061 1 36.56 ? O1 XYP 305 A 1 HETATM 2 C C1 XYP . . . F 5 -6.511 -24.233 11.045 1 36.79 ? C1 XYP 305 A 1 HETATM 3 C C2 XYP . . . F 5 -5.943 -25.213 12.056 1 50.58 ? C2 XYP 305 A 1 HETATM 4 C C3 XYP . . . F 5 -4.471 -25.311 11.941 1 53.82 ? C3 XYP 305 A 1 HETATM 5 C C4 XYP . . . F 5 -4.162 -25.875 10.6 1 33.85 ? C4 XYP 305 A 1 HETATM 6 C C5 XYP . . . F 5 -4.597 -24.874 9.55 1 22.34 ? C5 XYP 305 A 1 HETATM 7 O O2 XYP . . . F 5 -6.291 -24.767 13.37 1 46.28 ? O2 XYP 305 A 1 HETATM 8 O O3 XYP . . . F 5 -3.924 -26.136 13.013 1 46.63 ? O3 XYP 305 A 1 HETATM 9 O O4 XYP . . . F 5 -2.769 -26.14 10.439 1 30.3 ? O4 XYP 305 A 1 HETATM 10 O O5 XYP . . . F 5 -6.022 -24.476 9.649 1 44.17 ? O5 XYP 305 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #