data_6Q6W # _model_server_result.job_id HwlKrtd7UKGnkCy6kU1z3Q _model_server_result.datetime_utc '2024-10-14 00:29:04' _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 6q6w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1}' # _entry.id 6Q6W # _exptl.entry_id 6Q6W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 206.193 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description '3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid' _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 6Q6W _cell.length_a 56.977 _cell.length_b 56.977 _cell.length_c 173.543 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Q6W _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # _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,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 4 _struct_asym.id E _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 covale ? covale1 E C7 ZDC . B ZDC 1 1_555 B N DTY 1 B DTY 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.278 ? covale ? covale2 B C DTY 1 B DTY 2 1_555 B N DLY 2 B DLY 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 B C DLY 2 B DLY 3 1_555 B N DLY 3 B DLY 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 B C DLY 3 B DLY 4 1_555 B N DAL 4 B DAL 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 B C DAL 4 B DAL 5 1_555 B N DLE 5 B DLE 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 B C DLE 5 B DLE 6 1_555 B N DLY 6 B DLY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 B C DLY 6 B DLY 7 1_555 B N DLY 7 B DLY 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale8 B C DLY 7 B DLY 8 1_555 B N DLE 8 B DLE 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 B C DLE 8 B DLE 9 1_555 B N DAL 9 B DAL 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale10 B C DAL 9 B DAL 10 1_555 B N DLY 10 B DLY 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale11 B C DLY 10 B DLY 11 1_555 B N DLE 11 B DLE 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale12 B C DLE 11 B DLE 12 1_555 B N DLE 12 B DLE 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 B C DLE 12 B DLE 13 1_555 F N NH2 . B NH2 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 A O ASN 21 A ASN 21 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc2 A OE1 GLU 95 A GLU 95 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc3 A OE2 GLU 95 A GLU 95 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc4 A OD1 ASP 99 A ASP 99 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc5 A OD1 ASP 101 A ASP 101 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc6 A OD1 ASP 101 A ASP 101 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.135 ? metalc ? metalc7 A OD2 ASP 101 A ASP 101 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc8 A OD1 ASN 103 A ASN 103 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc9 A OD1 ASP 104 A ASP 104 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? metalc ? metalc10 A OD2 ASP 104 A ASP 104 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc11 A OD1 ASP 104 A ASP 104 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc12 A O GLY 114 A GLY 114 1_555 D CA CA . A CA 302 10_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc13 C CA CA . A CA 301 1_555 E O3 ZDC . B ZDC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? metalc ? metalc14 C CA CA . A CA 301 1_555 E O4 ZDC . B ZDC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc15 D CA CA . A CA 302 1_555 E O2 ZDC . B ZDC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc16 D CA CA . A CA 302 1_555 E O3 ZDC . B ZDC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? # _chem_comp.formula 'C8 H14 O6' _chem_comp.formula_weight 206.193 _chem_comp.id ZDC _chem_comp.mon_nstd_flag . _chem_comp.name '3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid' _chem_comp.type d-saccharide _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 C1 C1M ZDC sing 405 n n C1M H1M1 ZDC sing 406 n n C1M H1M2 ZDC sing 407 n n C1M H1M3 ZDC sing 408 n n C1 H1 ZDC sing 409 n n C1 O5 ZDC sing 410 n n C1 C2 ZDC sing 411 n n C2 H2 ZDC sing 412 n n C2 O2 ZDC sing 413 n n O2 H2O ZDC sing 414 n n C2 C3 ZDC sing 415 n n C3 H3 ZDC sing 416 n n C3 O3 ZDC sing 417 n n O3 H3O ZDC sing 418 n n C3 C4 ZDC sing 419 n n C4 H4 ZDC sing 420 n n C4 O4 ZDC sing 421 n n O4 H4O ZDC sing 422 n n C4 C5 ZDC sing 423 n n C5 H5 ZDC sing 424 n n C5 O5 ZDC sing 425 n n C5 C6 ZDC sing 426 n n C6 H61 ZDC sing 427 n n C6 H62 ZDC sing 428 n n C6 C7 ZDC sing 429 n n C7 O7A ZDC doub 430 n n C7 O7B ZDC sing 431 n n O7B H7OB ZDC sing 432 n n # _atom_sites.entry_id 6Q6W _atom_sites.fract_transf_matrix[1][1] 0.017551 _atom_sites.fract_transf_matrix[1][2] 0.010133 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020266 _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] 0.005762 _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 C 3 CA A 1 301 301 CA CA . D 3 CA A 1 302 302 CA CA . E 4 ZDC B 1 1 201 ZDC FUD . F 5 NH2 B 1 202 13 NH2 NH2 . G 6 HOH A 1 401 67 HOH HOH . G 6 HOH A 2 402 126 HOH HOH . G 6 HOH A 3 403 46 HOH HOH . G 6 HOH A 4 404 75 HOH HOH . G 6 HOH A 5 405 77 HOH HOH . G 6 HOH A 6 406 94 HOH HOH . G 6 HOH A 7 407 6 HOH HOH . G 6 HOH A 8 408 116 HOH HOH . G 6 HOH A 9 409 7 HOH HOH . G 6 HOH A 10 410 71 HOH HOH . G 6 HOH A 11 411 25 HOH HOH . G 6 HOH A 12 412 62 HOH HOH . G 6 HOH A 13 413 27 HOH HOH . G 6 HOH A 14 414 32 HOH HOH . G 6 HOH A 15 415 4 HOH HOH . G 6 HOH A 16 416 120 HOH HOH . G 6 HOH A 17 417 11 HOH HOH . G 6 HOH A 18 418 61 HOH HOH . G 6 HOH A 19 419 68 HOH HOH . G 6 HOH A 20 420 12 HOH HOH . G 6 HOH A 21 421 41 HOH HOH . G 6 HOH A 22 422 9 HOH HOH . G 6 HOH A 23 423 58 HOH HOH . G 6 HOH A 24 424 10 HOH HOH . G 6 HOH A 25 425 60 HOH HOH . G 6 HOH A 26 426 37 HOH HOH . G 6 HOH A 27 427 1 HOH HOH . G 6 HOH A 28 428 105 HOH HOH . G 6 HOH A 29 429 13 HOH HOH . G 6 HOH A 30 430 18 HOH HOH . G 6 HOH A 31 431 44 HOH HOH . G 6 HOH A 32 432 86 HOH HOH . G 6 HOH A 33 433 3 HOH HOH . G 6 HOH A 34 434 31 HOH HOH . G 6 HOH A 35 435 5 HOH HOH . G 6 HOH A 36 436 96 HOH HOH . G 6 HOH A 37 437 72 HOH HOH . G 6 HOH A 38 438 33 HOH HOH . G 6 HOH A 39 439 115 HOH HOH . G 6 HOH A 40 440 81 HOH HOH . G 6 HOH A 41 441 64 HOH HOH . G 6 HOH A 42 442 84 HOH HOH . G 6 HOH A 43 443 22 HOH HOH . G 6 HOH A 44 444 74 HOH HOH . G 6 HOH A 45 445 2 HOH HOH . G 6 HOH A 46 446 17 HOH HOH . G 6 HOH A 47 447 108 HOH HOH . G 6 HOH A 48 448 40 HOH HOH . G 6 HOH A 49 449 8 HOH HOH . G 6 HOH A 50 450 56 HOH HOH . G 6 HOH A 51 451 24 HOH HOH . G 6 HOH A 52 452 35 HOH HOH . G 6 HOH A 53 453 16 HOH HOH . G 6 HOH A 54 454 38 HOH HOH . G 6 HOH A 55 455 29 HOH HOH . G 6 HOH A 56 456 100 HOH HOH . G 6 HOH A 57 457 73 HOH HOH . G 6 HOH A 58 458 117 HOH HOH . G 6 HOH A 59 459 128 HOH HOH . G 6 HOH A 60 460 30 HOH HOH . G 6 HOH A 61 461 54 HOH HOH . G 6 HOH A 62 462 50 HOH HOH . G 6 HOH A 63 463 14 HOH HOH . G 6 HOH A 64 464 85 HOH HOH . G 6 HOH A 65 465 91 HOH HOH . G 6 HOH A 66 466 19 HOH HOH . G 6 HOH A 67 467 70 HOH HOH . G 6 HOH A 68 468 23 HOH HOH . G 6 HOH A 69 469 42 HOH HOH . G 6 HOH A 70 470 111 HOH HOH . G 6 HOH A 71 471 26 HOH HOH . G 6 HOH A 72 472 45 HOH HOH . G 6 HOH A 73 473 20 HOH HOH . G 6 HOH A 74 474 122 HOH HOH . G 6 HOH A 75 475 39 HOH HOH . G 6 HOH A 76 476 21 HOH HOH . G 6 HOH A 77 477 49 HOH HOH . G 6 HOH A 78 478 76 HOH HOH . G 6 HOH A 79 479 125 HOH HOH . G 6 HOH A 80 480 43 HOH HOH . G 6 HOH A 81 481 48 HOH HOH . G 6 HOH A 82 482 28 HOH HOH . G 6 HOH A 83 483 123 HOH HOH . G 6 HOH A 84 484 82 HOH HOH . G 6 HOH A 85 485 51 HOH HOH . G 6 HOH A 86 486 63 HOH HOH . G 6 HOH A 87 487 79 HOH HOH . G 6 HOH A 88 488 127 HOH HOH . G 6 HOH A 89 489 93 HOH HOH . G 6 HOH A 90 490 65 HOH HOH . G 6 HOH A 91 491 92 HOH HOH . G 6 HOH A 92 492 103 HOH HOH . G 6 HOH A 93 493 66 HOH HOH . G 6 HOH A 94 494 80 HOH HOH . G 6 HOH A 95 495 95 HOH HOH . G 6 HOH A 96 496 124 HOH HOH . G 6 HOH A 97 497 87 HOH HOH . G 6 HOH A 98 498 110 HOH HOH . G 6 HOH A 99 499 113 HOH HOH . G 6 HOH A 100 500 107 HOH HOH . G 6 HOH A 101 501 118 HOH HOH . G 6 HOH A 102 502 106 HOH HOH . G 6 HOH A 103 503 57 HOH HOH . G 6 HOH A 104 504 90 HOH HOH . G 6 HOH A 105 505 101 HOH HOH . G 6 HOH A 106 506 121 HOH HOH . G 6 HOH A 107 507 78 HOH HOH . G 6 HOH A 108 508 59 HOH HOH . G 6 HOH A 109 509 109 HOH HOH . G 6 HOH A 110 510 98 HOH HOH . G 6 HOH A 111 511 47 HOH HOH . G 6 HOH A 112 512 83 HOH HOH . G 6 HOH A 113 513 55 HOH HOH . G 6 HOH A 114 514 119 HOH HOH . G 6 HOH A 115 515 88 HOH HOH . G 6 HOH A 116 516 89 HOH HOH . G 6 HOH A 117 517 112 HOH HOH . G 6 HOH A 118 518 102 HOH HOH . G 6 HOH A 119 519 104 HOH HOH . H 6 HOH B 1 301 114 HOH HOH . H 6 HOH B 2 302 52 HOH HOH . H 6 HOH B 3 303 34 HOH HOH . H 6 HOH B 4 304 36 HOH HOH . H 6 HOH B 5 305 97 HOH HOH . H 6 HOH B 6 306 69 HOH HOH . H 6 HOH B 7 307 15 HOH HOH . H 6 HOH B 8 308 53 HOH HOH . H 6 HOH B 9 309 129 HOH HOH . H 6 HOH B 10 310 99 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 C1 ZDC . . . E 4 -20.954 -2.761 -13.072 1 24.65 ? C1 ZDC 1 B 1 HETATM 2 C C1M ZDC . . . E 4 -22.288 -2.631 -13.803 1 24.94 ? C1M ZDC 1 B 1 HETATM 3 C C2 ZDC . . . E 4 -19.799 -3.132 -14.048 1 21.59 ? C2 ZDC 1 B 1 HETATM 4 C C3 ZDC . . . E 4 -18.528 -3.111 -13.215 1 22.65 ? C3 ZDC 1 B 1 HETATM 5 C C4 ZDC . . . E 4 -18.313 -1.798 -12.525 1 22.47 ? C4 ZDC 1 B 1 HETATM 6 C C5 ZDC . . . E 4 -19.479 -1.697 -11.551 1 22.08 ? C5 ZDC 1 B 1 HETATM 7 C C6 ZDC . . . E 4 -19.526 -2.364 -10.223 1 23.56 ? C6 ZDC 1 B 1 HETATM 8 C C7 ZDC . . . E 4 -20.765 -1.907 -9.457 1 22.74 ? C7 ZDC 1 B 1 HETATM 9 O O2 ZDC . . . E 4 -19.619 -2.107 -15.049 1 24.56 ? O2 ZDC 1 B 1 HETATM 10 O O3 ZDC . . . E 4 -17.426 -3.259 -14.129 1 25.03 ? O3 ZDC 1 B 1 HETATM 11 O O4 ZDC . . . E 4 -17.02 -1.84 -11.844 1 24.61 ? O4 ZDC 1 B 1 HETATM 12 O O5 ZDC . . . E 4 -20.668 -1.531 -12.348 1 23.8 ? O5 ZDC 1 B 1 HETATM 13 O O7A ZDC . . . E 4 -21.762 -2.589 -9.47 1 26.24 ? O7A ZDC 1 B 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 102 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 370 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 13 #