data_7W5O # _model_server_result.job_id uajpTBnYYDmNq6GQZU6qFg _model_server_result.datetime_utc '2024-12-11 07:51:36' _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 7w5o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7W5O # _exptl.entry_id 7W5O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 392.15 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-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 90 _cell.entry_id 7W5O _cell.length_a 82.812 _cell.length_b 82.812 _cell.length_c 274.44 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7W5O _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,Q 1 1 B,K,L,M,N,O,P,R 2 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 2 _struct_asym.id C _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 A C ASP 132 A ASP 124 1_555 A N NEP 133 A NEP 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale2 A C NEP 133 A NEP 125 1_555 A N ILE 134 A ILE 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale3 B C ASP 132 B ASP 124 1_555 B N NEP 133 B NEP 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale4 B C NEP 133 B NEP 125 1_555 B N ILE 134 B ILE 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? # _chem_comp.formula 'C11 H13 I N4 O4' _chem_comp.formula_weight 392.15 _chem_comp.id 5ID _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 5-IODOTUBERCIDIN # 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 O5' C5' 5ID sing 1 n n O5' H5' 5ID sing 2 n n C5' C4' 5ID sing 3 n n C5' "H5'1" 5ID sing 4 n n C5' "H5'2" 5ID sing 5 n n C4' O4' 5ID sing 6 n n C4' C3' 5ID sing 7 n n C4' H4' 5ID sing 8 n n O4' C1' 5ID sing 9 n n C1' N9 5ID sing 10 n n C1' C2' 5ID sing 11 n n C1' H1' 5ID sing 12 n n N9 C8 5ID sing 13 n y N9 C4 5ID sing 14 n y C8 C7 5ID doub 15 n y C8 H8 5ID sing 16 n n C7 C5 5ID sing 17 n y C7 IAE 5ID sing 18 n n C5 C6 5ID doub 19 n y C5 C4 5ID sing 20 n y C6 N1 5ID sing 21 n y C6 N6 5ID sing 22 n n N1 C2 5ID doub 23 n y C2 N3 5ID sing 24 n y C2 H2 5ID sing 25 n n N3 C4 5ID doub 26 n y N6 H6N1 5ID sing 27 n n N6 H6N2 5ID sing 28 n n C2' O2' 5ID sing 29 n n C2' C3' 5ID sing 30 n n C2' H2' 5ID sing 31 n n O2' HA 5ID sing 32 n n C3' O3' 5ID sing 33 n n C3' H3' 5ID sing 34 n n O3' HB 5ID sing 35 n n # _atom_sites.entry_id 7W5O _atom_sites.fract_transf_matrix[1][1] 0.012076 _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] 0.012076 _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] 0.003644 _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 2 5ID A 1 401 401 5ID 5ID . D 3 MLA A 1 402 501 MLA MLA . E 4 SIN A 1 403 701 SIN SIN . F 5 NA A 1 404 901 NA NA . G 4 SIN A 1 405 1001 SIN SIN . H 3 MLA A 1 406 1101 MLA MLA . I 3 MLA A 1 407 1201 MLA MLA . J 6 EPE A 1 408 1301 EPE EPE . K 3 MLA B 1 601 601 MLA MLA . L 7 TAR B 1 602 801 TAR TAR . M 3 MLA B 1 603 1001 MLA MLA . N 3 MLA B 1 604 1101 MLA MLA . O 6 EPE B 1 605 1201 EPE EPE . P 8 6GI B 1 606 1301 6GI HT3 . Q 9 HOH A 1 501 71 HOH HOH . Q 9 HOH A 2 502 98 HOH HOH . Q 9 HOH A 3 503 88 HOH HOH . Q 9 HOH A 4 504 95 HOH HOH . Q 9 HOH A 5 505 26 HOH HOH . Q 9 HOH A 6 506 19 HOH HOH . Q 9 HOH A 7 507 2 HOH HOH . Q 9 HOH A 8 508 28 HOH HOH . Q 9 HOH A 9 509 18 HOH HOH . Q 9 HOH A 10 510 84 HOH HOH . Q 9 HOH A 11 511 24 HOH HOH . Q 9 HOH A 12 512 92 HOH HOH . Q 9 HOH A 13 513 110 HOH HOH . Q 9 HOH A 14 514 29 HOH HOH . Q 9 HOH A 15 515 15 HOH HOH . Q 9 HOH A 16 516 17 HOH HOH . Q 9 HOH A 17 517 5 HOH HOH . Q 9 HOH A 18 518 11 HOH HOH . Q 9 HOH A 19 519 9 HOH HOH . Q 9 HOH A 20 520 3 HOH HOH . Q 9 HOH A 21 521 25 HOH HOH . Q 9 HOH A 22 522 70 HOH HOH . Q 9 HOH A 23 523 66 HOH HOH . Q 9 HOH A 24 524 41 HOH HOH . Q 9 HOH A 25 525 30 HOH HOH . Q 9 HOH A 26 526 115 HOH HOH . Q 9 HOH A 27 527 56 HOH HOH . Q 9 HOH A 28 528 22 HOH HOH . Q 9 HOH A 29 529 6 HOH HOH . Q 9 HOH A 30 530 52 HOH HOH . Q 9 HOH A 31 531 114 HOH HOH . Q 9 HOH A 32 532 4 HOH HOH . Q 9 HOH A 33 533 16 HOH HOH . Q 9 HOH A 34 534 34 HOH HOH . Q 9 HOH A 35 535 53 HOH HOH . Q 9 HOH A 36 536 31 HOH HOH . Q 9 HOH A 37 537 1 HOH HOH . Q 9 HOH A 38 538 36 HOH HOH . Q 9 HOH A 39 539 8 HOH HOH . Q 9 HOH A 40 540 39 HOH HOH . Q 9 HOH A 41 541 118 HOH HOH . Q 9 HOH A 42 542 58 HOH HOH . Q 9 HOH A 43 543 94 HOH HOH . Q 9 HOH A 44 544 27 HOH HOH . Q 9 HOH A 45 545 99 HOH HOH . Q 9 HOH A 46 546 101 HOH HOH . Q 9 HOH A 47 547 112 HOH HOH . Q 9 HOH A 48 548 85 HOH HOH . Q 9 HOH A 49 549 57 HOH HOH . Q 9 HOH A 50 550 87 HOH HOH . Q 9 HOH A 51 551 91 HOH HOH . Q 9 HOH A 52 552 45 HOH HOH . Q 9 HOH A 53 553 48 HOH HOH . Q 9 HOH A 54 554 67 HOH HOH . Q 9 HOH A 55 555 32 HOH HOH . Q 9 HOH A 56 556 47 HOH HOH . Q 9 HOH A 57 557 43 HOH HOH . Q 9 HOH A 58 558 93 HOH HOH . Q 9 HOH A 59 559 100 HOH HOH . Q 9 HOH A 60 560 86 HOH HOH . Q 9 HOH A 61 561 50 HOH HOH . Q 9 HOH A 62 562 97 HOH HOH . Q 9 HOH A 63 563 83 HOH HOH . Q 9 HOH A 64 564 37 HOH HOH . Q 9 HOH A 65 565 33 HOH HOH . Q 9 HOH A 66 566 89 HOH HOH . Q 9 HOH A 67 567 44 HOH HOH . Q 9 HOH A 68 568 23 HOH HOH . Q 9 HOH A 69 569 103 HOH HOH . Q 9 HOH A 70 570 7 HOH HOH . Q 9 HOH A 71 571 96 HOH HOH . R 9 HOH B 1 701 68 HOH HOH . R 9 HOH B 2 702 119 HOH HOH . R 9 HOH B 3 703 72 HOH HOH . R 9 HOH B 4 704 49 HOH HOH . R 9 HOH B 5 705 80 HOH HOH . R 9 HOH B 6 706 61 HOH HOH . R 9 HOH B 7 707 38 HOH HOH . R 9 HOH B 8 708 54 HOH HOH . R 9 HOH B 9 709 12 HOH HOH . R 9 HOH B 10 710 64 HOH HOH . R 9 HOH B 11 711 14 HOH HOH . R 9 HOH B 12 712 76 HOH HOH . R 9 HOH B 13 713 63 HOH HOH . R 9 HOH B 14 714 20 HOH HOH . R 9 HOH B 15 715 77 HOH HOH . R 9 HOH B 16 716 10 HOH HOH . R 9 HOH B 17 717 113 HOH HOH . R 9 HOH B 18 718 21 HOH HOH . R 9 HOH B 19 719 78 HOH HOH . R 9 HOH B 20 720 107 HOH HOH . R 9 HOH B 21 721 62 HOH HOH . R 9 HOH B 22 722 65 HOH HOH . R 9 HOH B 23 723 55 HOH HOH . R 9 HOH B 24 724 106 HOH HOH . R 9 HOH B 25 725 74 HOH HOH . R 9 HOH B 26 726 81 HOH HOH . R 9 HOH B 27 727 46 HOH HOH . R 9 HOH B 28 728 111 HOH HOH . R 9 HOH B 29 729 51 HOH HOH . R 9 HOH B 30 730 79 HOH HOH . R 9 HOH B 31 731 13 HOH HOH . R 9 HOH B 32 732 104 HOH HOH . R 9 HOH B 33 733 59 HOH HOH . R 9 HOH B 34 734 90 HOH HOH . R 9 HOH B 35 735 82 HOH HOH . R 9 HOH B 36 736 60 HOH HOH . R 9 HOH B 37 737 75 HOH HOH . R 9 HOH B 38 738 105 HOH HOH . R 9 HOH B 39 739 69 HOH HOH . R 9 HOH B 40 740 102 HOH HOH . R 9 HOH B 41 741 117 HOH HOH . R 9 HOH B 42 742 73 HOH HOH . R 9 HOH B 43 743 108 HOH HOH . R 9 HOH B 44 744 42 HOH HOH . R 9 HOH B 45 745 116 HOH HOH . R 9 HOH B 46 746 109 HOH HOH . R 9 HOH B 47 747 35 HOH HOH . R 9 HOH B 48 748 40 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 O5' 5ID . . . C 2 -10.929 -37.796 -24.623 1 85.73 ? O5' 5ID 401 A 1 HETATM 2 C C5' 5ID . . . C 2 -11.344 -37.98 -25.951 1 79.11 ? C5' 5ID 401 A 1 HETATM 3 C C4' 5ID . . . C 2 -12.482 -39.056 -25.952 1 91.65 ? C4' 5ID 401 A 1 HETATM 4 O O4' 5ID . . . C 2 -13.515 -38.73 -25.227 1 95.79 ? O4' 5ID 401 A 1 HETATM 5 C C1' 5ID . . . C 2 -14.851 -38.894 -26.179 1 92.65 ? C1' 5ID 401 A 1 HETATM 6 N N9 5ID . . . C 2 -15.226 -37.562 -26.618 1 91.86 ? N9 5ID 401 A 1 HETATM 7 C C8 5ID . . . C 2 -15.047 -36.489 -25.845 1 88.48 ? C8 5ID 401 A 1 HETATM 8 C C7 5ID . . . C 2 -15.517 -35.363 -26.509 1 88.04 ? C7 5ID 401 A 1 HETATM 9 C C5 5ID . . . C 2 -16.009 -35.808 -27.783 1 87.46 ? C5 5ID 401 A 1 HETATM 10 C C6 5ID . . . C 2 -16.613 -35.191 -28.936 1 74.97 ? C6 5ID 401 A 1 HETATM 11 N N1 5ID . . . C 2 -16.96 -35.946 -29.984 1 71.17 ? N1 5ID 401 A 1 HETATM 12 C C2 5ID . . . C 2 -16.755 -37.262 -29.975 1 76.05 ? C2 5ID 401 A 1 HETATM 13 N N3 5ID . . . C 2 -16.208 -37.865 -28.931 1 80.75 ? N3 5ID 401 A 1 HETATM 14 C C4 5ID . . . C 2 -15.819 -37.182 -27.814 1 86.8 ? C4 5ID 401 A 1 HETATM 15 N N6 5ID . . . C 2 -16.849 -33.759 -28.99 1 62.89 ? N6 5ID 401 A 1 HETATM 16 C C2' 5ID . . . C 2 -14.479 -39.726 -27.106 1 91.19 ? C2' 5ID 401 A 1 HETATM 17 O O2' 5ID . . . C 2 -14.465 -41.15 -26.57 1 87.19 ? O2' 5ID 401 A 1 HETATM 18 C C3' 5ID . . . C 2 -13.055 -39.258 -27.408 1 85.15 ? C3' 5ID 401 A 1 HETATM 19 O O3' 5ID . . . C 2 -12.393 -40.189 -28.125 1 88.2 ? O3' 5ID 401 A 1 HETATM 20 I IAE 5ID . . . C 2 -15.436 -33.408 -25.658 1 128.82 ? IAE 5ID 401 A 1 HETATM 21 H H5' 5ID . . . C 2 -10.474 -37.078 -24.563 1 102.88 ? H5' 5ID 401 A 1 HETATM 22 H "H5'1" 5ID . . . C 2 -10.598 -38.289 -26.489 1 94.93 ? "H5'1" 5ID 401 A 1 HETATM 23 H "H5'2" 5ID . . . C 2 -11.682 -37.144 -26.31 1 94.93 ? "H5'2" 5ID 401 A 1 HETATM 24 H H4' 5ID . . . C 2 -12.111 -39.88 -25.597 1 109.97 ? H4' 5ID 401 A 1 HETATM 25 H H1' 5ID . . . C 2 -15.623 -39.298 -25.751 1 111.18 ? H1' 5ID 401 A 1 HETATM 26 H H8 5ID . . . C 2 -14.669 -36.493 -24.995 1 106.17 ? H8 5ID 401 A 1 HETATM 27 H H2 5ID . . . C 2 -17.002 -37.767 -30.716 1 91.26 ? H2 5ID 401 A 1 HETATM 28 H H6N1 5ID . . . C 2 -17.652 -33.455 -28.989 1 75.46 ? H6N1 5ID 401 A 1 HETATM 29 H H6N2 5ID . . . C 2 -16.182 -33.22 -29.043 1 75.46 ? H6N2 5ID 401 A 1 HETATM 30 H H2' 5ID . . . C 2 -15.054 -39.683 -27.887 1 109.43 ? H2' 5ID 401 A 1 HETATM 31 H HA 5ID . . . C 2 -14.62 -41.155 -25.734 1 104.63 ? HA 5ID 401 A 1 HETATM 32 H H3' 5ID . . . C 2 -13.013 -38.43 -27.912 1 102.18 ? H3' 5ID 401 A 1 HETATM 33 H HB 5ID . . . C 2 -12.872 -40.883 -28.191 1 105.84 ? HB 5ID 401 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #