data_3V7C # _model_server_result.job_id gZPDM9UA45vOR93p1EumIg _model_server_result.datetime_utc '2025-01-11 11:46:57' _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 3v7c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 3V7C # _exptl.entry_id 3V7C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 570.667 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-deoxy-2',3'-O-(1-methylethylidene)-5'-(4-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentyl}-1H-1,2,3-triazol-1-yl)adenosine" _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 3V7C _cell.length_a 93.06 _cell.length_b 93.06 _cell.length_c 130.14 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V7C _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 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 _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' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 93.06 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C25 H34 N10 O4 S' _chem_comp.formula_weight 570.667 _chem_comp.id C77 _chem_comp.mon_nstd_flag . _chem_comp.name "5'-deoxy-2',3'-O-(1-methylethylidene)-5'-(4-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentyl}-1H-1,2,3-triazol-1-yl)adenosine" _chem_comp.type non-polymer _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 N1 C2 C77 doub 70 n y N1 C6 C77 sing 71 n y C2 N3 C77 sing 72 n y N3 C4 C77 doub 73 n y C4 C5 C77 sing 74 n y C4 N9 C77 sing 75 n y C5 C6 C77 doub 76 n y C5 N7 C77 sing 77 n y C6 N6 C77 sing 78 n n N7 C8 C77 doub 79 n y C8 N9 C77 sing 80 n y N9 CBI C77 sing 81 n n CAA CBL C77 sing 82 n n CAB CBL C77 sing 83 n n OAD CAZ C77 doub 84 n n CAG CBA C77 doub 85 n y CAG NBJ C77 sing 86 n y CAH CAI C77 sing 87 n n CAH CAJ C77 sing 88 n n CAI CAK C77 sing 89 n n CAJ CAL C77 sing 90 n n CAK CBA C77 sing 91 n n CAL CBF C77 sing 92 n n CAM SAY C77 sing 93 n n CAM CBM C77 sing 94 n n CAN CBE C77 sing 95 n n CAN NBJ C77 sing 96 n n NAR NAS C77 doub 97 n y NAR CBA C77 sing 98 n y NAS NBJ C77 sing 99 n y NAT CAZ C77 sing 100 n n NAT CBM C77 sing 101 n n NAU CAZ C77 sing 102 n n NAU CBN C77 sing 103 n n OAV CBE C77 sing 104 n n OAV CBI C77 sing 105 n n OAW CBG C77 sing 106 n n OAW CBL C77 sing 107 n n OAX CBH C77 sing 108 n n OAX CBL C77 sing 109 n n SAY CBF C77 sing 110 n n CBE CBG C77 sing 111 n n CBF CBN C77 sing 112 n n CBG CBH C77 sing 113 n n CBH CBI C77 sing 114 n n CBM CBN C77 sing 115 n n C2 H2 C77 sing 116 n n N6 HN6 C77 sing 117 n n N6 HN6A C77 sing 118 n n C8 H8 C77 sing 119 n n CAA HAA C77 sing 120 n n CAA HAAA C77 sing 121 n n CAA HAAB C77 sing 122 n n CAB HAB C77 sing 123 n n CAB HABA C77 sing 124 n n CAB HABB C77 sing 125 n n CAG HAG C77 sing 126 n n CAH HAH C77 sing 127 n n CAH HAHA C77 sing 128 n n CAI HAI C77 sing 129 n n CAI HAIA C77 sing 130 n n CAJ HAJ C77 sing 131 n n CAJ HAJA C77 sing 132 n n CAK HAK C77 sing 133 n n CAK HAKA C77 sing 134 n n CAL HAL C77 sing 135 n n CAL HALA C77 sing 136 n n CAM HAM C77 sing 137 n n CAM HAMA C77 sing 138 n n CAN HAN C77 sing 139 n n CAN HANA C77 sing 140 n n NAT HNAT C77 sing 141 n n NAU HNAU C77 sing 142 n n CBE HBE C77 sing 143 n n CBF HBF C77 sing 144 n n CBG HBG C77 sing 145 n n CBH HBH C77 sing 146 n n CBI HBI C77 sing 147 n n CBM HBM C77 sing 148 n n CBN HBN C77 sing 149 n n # _atom_sites.entry_id 3V7C _atom_sites.fract_transf_matrix[1][1] 0.010746 _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] 0.010746 _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] 0.007684 _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 C77 A 1 401 1 C77 C17 . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 3 HOH HOH . C 3 HOH A 4 504 4 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 7 HOH HOH . C 3 HOH A 8 508 8 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 10 HOH HOH . C 3 HOH A 11 511 11 HOH HOH . C 3 HOH A 12 512 12 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 16 HOH HOH . C 3 HOH A 17 517 17 HOH HOH . C 3 HOH A 18 518 18 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 21 HOH HOH . C 3 HOH A 22 522 22 HOH HOH . C 3 HOH A 23 523 23 HOH HOH . C 3 HOH A 24 524 24 HOH HOH . C 3 HOH A 25 525 25 HOH HOH . C 3 HOH A 26 526 26 HOH HOH . C 3 HOH A 27 527 27 HOH HOH . C 3 HOH A 28 528 28 HOH HOH . C 3 HOH A 29 529 29 HOH HOH . C 3 HOH A 30 530 30 HOH HOH . C 3 HOH A 31 531 31 HOH HOH . C 3 HOH A 32 532 32 HOH HOH . C 3 HOH A 33 533 33 HOH HOH . C 3 HOH A 34 534 34 HOH HOH . C 3 HOH A 35 535 35 HOH HOH . C 3 HOH A 36 536 36 HOH HOH . C 3 HOH A 37 537 37 HOH HOH . C 3 HOH A 38 538 38 HOH HOH . C 3 HOH A 39 539 39 HOH HOH . C 3 HOH A 40 540 40 HOH HOH . C 3 HOH A 41 541 41 HOH HOH . C 3 HOH A 42 542 42 HOH HOH . C 3 HOH A 43 543 43 HOH HOH . C 3 HOH A 44 544 44 HOH HOH . C 3 HOH A 45 545 45 HOH HOH . C 3 HOH A 46 546 46 HOH HOH . C 3 HOH A 47 547 47 HOH HOH . C 3 HOH A 48 548 48 HOH HOH . C 3 HOH A 49 549 49 HOH HOH . C 3 HOH A 50 550 50 HOH HOH . C 3 HOH A 51 551 51 HOH HOH . C 3 HOH A 52 552 52 HOH HOH . C 3 HOH A 53 553 53 HOH HOH . C 3 HOH A 54 554 54 HOH HOH . C 3 HOH A 55 555 55 HOH HOH . C 3 HOH A 56 556 56 HOH HOH . C 3 HOH A 57 557 57 HOH HOH . C 3 HOH A 58 558 58 HOH HOH . C 3 HOH A 59 559 59 HOH HOH . C 3 HOH A 60 560 60 HOH HOH . C 3 HOH A 61 561 61 HOH HOH . C 3 HOH A 62 562 62 HOH HOH . C 3 HOH A 63 563 63 HOH HOH . C 3 HOH A 64 564 64 HOH HOH . C 3 HOH A 65 565 65 HOH HOH . C 3 HOH A 66 566 66 HOH HOH . C 3 HOH A 67 567 67 HOH HOH . C 3 HOH A 68 568 68 HOH HOH . C 3 HOH A 69 569 69 HOH HOH . C 3 HOH A 70 570 70 HOH HOH . C 3 HOH A 71 571 71 HOH HOH . C 3 HOH A 72 572 72 HOH HOH . C 3 HOH A 73 573 73 HOH HOH . C 3 HOH A 74 574 74 HOH HOH . C 3 HOH A 75 575 75 HOH HOH . C 3 HOH A 76 576 76 HOH HOH . C 3 HOH A 77 577 77 HOH HOH . C 3 HOH A 78 578 78 HOH HOH . C 3 HOH A 79 579 79 HOH HOH . C 3 HOH A 80 580 80 HOH HOH . C 3 HOH A 81 581 81 HOH HOH . C 3 HOH A 82 582 82 HOH HOH . C 3 HOH A 83 583 83 HOH HOH . C 3 HOH A 84 584 84 HOH HOH . C 3 HOH A 85 585 85 HOH HOH . C 3 HOH A 86 586 86 HOH HOH . C 3 HOH A 87 587 87 HOH HOH . C 3 HOH A 88 588 88 HOH HOH . C 3 HOH A 89 589 89 HOH HOH . C 3 HOH A 90 590 90 HOH HOH . C 3 HOH A 91 591 91 HOH HOH . C 3 HOH A 92 592 92 HOH HOH . C 3 HOH A 93 593 93 HOH HOH . C 3 HOH A 94 594 94 HOH HOH . C 3 HOH A 95 595 95 HOH HOH . C 3 HOH A 96 596 96 HOH HOH . C 3 HOH A 97 597 97 HOH HOH . C 3 HOH A 98 598 98 HOH HOH . C 3 HOH A 99 599 99 HOH HOH . C 3 HOH A 100 600 100 HOH HOH . C 3 HOH A 101 601 101 HOH HOH . C 3 HOH A 102 602 102 HOH HOH . C 3 HOH A 103 603 103 HOH HOH . C 3 HOH A 104 604 104 HOH HOH . C 3 HOH A 105 605 105 HOH HOH . C 3 HOH A 106 606 106 HOH HOH . C 3 HOH A 107 607 107 HOH HOH . C 3 HOH A 108 608 108 HOH HOH . C 3 HOH A 109 609 109 HOH HOH . C 3 HOH A 110 610 110 HOH HOH . C 3 HOH A 111 611 111 HOH HOH . C 3 HOH A 112 612 112 HOH HOH . C 3 HOH A 113 613 113 HOH HOH . C 3 HOH A 114 614 114 HOH HOH . C 3 HOH A 115 615 115 HOH HOH . C 3 HOH A 116 616 116 HOH HOH . C 3 HOH A 117 617 117 HOH HOH . C 3 HOH A 118 618 118 HOH HOH . C 3 HOH A 119 619 119 HOH HOH . C 3 HOH A 120 620 120 HOH HOH . C 3 HOH A 121 621 121 HOH HOH . C 3 HOH A 122 622 122 HOH HOH . C 3 HOH A 123 623 123 HOH HOH . C 3 HOH A 124 624 124 HOH HOH . C 3 HOH A 125 625 125 HOH HOH . C 3 HOH A 126 626 126 HOH HOH . C 3 HOH A 127 627 127 HOH HOH . C 3 HOH A 128 628 128 HOH HOH . C 3 HOH A 129 629 129 HOH HOH . C 3 HOH A 130 630 130 HOH HOH . C 3 HOH A 131 631 131 HOH HOH . C 3 HOH A 132 632 132 HOH HOH . C 3 HOH A 133 633 133 HOH HOH . C 3 HOH A 134 634 134 HOH HOH . C 3 HOH A 135 635 135 HOH HOH . C 3 HOH A 136 636 136 HOH HOH . C 3 HOH A 137 637 137 HOH HOH . C 3 HOH A 138 638 138 HOH HOH . C 3 HOH A 139 639 139 HOH HOH . C 3 HOH A 140 640 140 HOH HOH . C 3 HOH A 141 641 141 HOH HOH . C 3 HOH A 142 642 142 HOH HOH . C 3 HOH A 143 643 143 HOH HOH . C 3 HOH A 144 644 144 HOH HOH . C 3 HOH A 145 645 145 HOH HOH . C 3 HOH A 146 646 146 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 N1 C77 . . . B 2 49.947 25.22 21.518 1 30.5 ? N1 C77 401 A 1 HETATM 2 C C2 C77 . . . B 2 50.412 25.35 20.275 1 33.35 ? C2 C77 401 A 1 HETATM 3 N N3 C77 . . . B 2 51.473 24.682 19.838 1 33.21 ? N3 C77 401 A 1 HETATM 4 C C4 C77 . . . B 2 52.091 23.821 20.663 1 31.97 ? C4 C77 401 A 1 HETATM 5 C C5 C77 . . . B 2 51.621 23.658 21.97 1 31.39 ? C5 C77 401 A 1 HETATM 6 C C6 C77 . . . B 2 50.515 24.391 22.388 1 30.17 ? C6 C77 401 A 1 HETATM 7 N N6 C77 . . . B 2 50.027 24.292 23.619 1 28.92 ? N6 C77 401 A 1 HETATM 8 N N7 C77 . . . B 2 52.385 22.751 22.565 1 30.16 ? N7 C77 401 A 1 HETATM 9 C C8 C77 . . . B 2 53.291 22.356 21.666 1 31.72 ? C8 C77 401 A 1 HETATM 10 N N9 C77 . . . B 2 53.115 22.994 20.498 1 32.11 ? N9 C77 401 A 1 HETATM 11 C CAA C77 . . . B 2 58.042 23.723 17.675 1 40.73 ? CAA C77 401 A 1 HETATM 12 C CAB C77 . . . B 2 55.847 23.971 16.433 1 39.57 ? CAB C77 401 A 1 HETATM 13 O OAD C77 . . . B 2 49.252 13.936 25.427 1 23.19 ? OAD C77 401 A 1 HETATM 14 C CAG C77 . . . B 2 52.975 17.116 17.925 1 31.68 ? CAG C77 401 A 1 HETATM 15 C CAH C77 . . . B 2 49.246 16.773 19.754 1 30.58 ? CAH C77 401 A 1 HETATM 16 C CAI C77 . . . B 2 49.124 16.959 18.211 1 32.81 ? CAI C77 401 A 1 HETATM 17 C CAJ C77 . . . B 2 47.901 16.596 20.527 1 28.13 ? CAJ C77 401 A 1 HETATM 18 C CAK C77 . . . B 2 50.399 16.483 17.389 1 36.88 ? CAK C77 401 A 1 HETATM 19 C CAL C77 . . . B 2 48.029 16.891 22.043 1 22.93 ? CAL C77 401 A 1 HETATM 20 C CAM C77 . . . B 2 45.364 15.901 24.905 1 22.79 ? CAM C77 401 A 1 HETATM 21 C CAN C77 . . . B 2 54.6 19.108 18.568 1 35.1 ? CAN C77 401 A 1 HETATM 22 N NAR C77 . . . B 2 51.387 18.54 17.872 1 37.41 ? NAR C77 401 A 1 HETATM 23 N NAS C77 . . . B 2 52.411 19.133 18.151 1 38.35 ? NAS C77 401 A 1 HETATM 24 N NAT C77 . . . B 2 47.006 14.198 25.413 1 22.75 ? NAT C77 401 A 1 HETATM 25 N NAU C77 . . . B 2 48.194 14.6 23.565 1 24.14 ? NAU C77 401 A 1 HETATM 26 O OAV C77 . . . B 2 53.461 21.469 18.789 1 35.97 ? OAV C77 401 A 1 HETATM 27 O OAW C77 . . . B 2 56.452 21.829 17.559 1 42.96 ? OAW C77 401 A 1 HETATM 28 O OAX C77 . . . B 2 56.012 23.758 18.847 1 40.86 ? OAX C77 401 A 1 HETATM 29 S SAY C77 . . . B 2 46.589 17.146 24.438 1 22.29 ? SAY C77 401 A 1 HETATM 30 C CAZ C77 . . . B 2 48.205 14.222 24.842 1 24.06 ? CAZ C77 401 A 1 HETATM 31 C CBA C77 . . . B 2 51.654 17.292 17.716 1 34.35 ? CBA C77 401 A 1 HETATM 32 C CBE C77 . . . B 2 54.555 20.68 18.264 1 36.12 ? CBE C77 401 A 1 HETATM 33 C CBF C77 . . . B 2 46.769 16.423 22.782 1 24.16 ? CBF C77 401 A 1 HETATM 34 C CBG C77 . . . B 2 55.811 21.354 18.761 1 38.72 ? CBG C77 401 A 1 HETATM 35 C CBH C77 . . . B 2 55.373 22.626 19.491 1 38.35 ? CBH C77 401 A 1 HETATM 36 C CBI C77 . . . B 2 53.909 22.784 19.248 1 34.7 ? CBI C77 401 A 1 HETATM 37 N NBJ C77 . . . B 2 53.358 18.389 18.199 1 34.83 ? NBJ C77 401 A 1 HETATM 38 C CBL C77 . . . B 2 56.574 23.312 17.61 1 41.86 ? CBL C77 401 A 1 HETATM 39 C CBM C77 . . . B 2 46.018 14.616 24.424 1 21.88 ? CBM C77 401 A 1 HETATM 40 C CBN C77 . . . B 2 46.841 14.914 23.149 1 23.13 ? CBN C77 401 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 40 #