data_5C9Z # _model_server_result.job_id ZOIofbXqqY9a4-MlyU4ztw _model_server_result.datetime_utc '2024-11-29 16:15:40' _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 5c9z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 5C9Z # _exptl.entry_id 5C9Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 381.387 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SINEFUNGIN _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 5C9Z _cell.length_a 102.81 _cell.length_b 137.78 _cell.length_c 178.91 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C9Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 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 _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 3 _struct_asym.id C _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 B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 216 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 208 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 255 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 247 _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 ? _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 2.033 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C15 H23 N7 O5' _chem_comp.formula_weight 381.387 _chem_comp.id SFG _chem_comp.mon_nstd_flag . _chem_comp.name SINEFUNGIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ADENOSYL-ORNITHINE # 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 N CA SFG sing 362 n n N HN1 SFG sing 363 n n N HN2 SFG sing 364 n n CA C SFG sing 365 n n CA CB SFG sing 366 n n CA HA SFG sing 367 n n C O SFG doub 368 n n C OXT SFG sing 369 n n OXT HXT SFG sing 370 n n CB CG SFG sing 371 n n CB HB1 SFG sing 372 n n CB HB2 SFG sing 373 n n CG CD SFG sing 374 n n CG HG1 SFG sing 375 n n CG HG2 SFG sing 376 n n CD NE SFG sing 377 n n CD C5' SFG sing 378 n n CD HD SFG sing 379 n n NE HNE1 SFG sing 380 n n NE HNE2 SFG sing 381 n n C5' C4' SFG sing 382 n n C5' "H5'1" SFG sing 383 n n C5' "H5'2" SFG sing 384 n n C4' O4' SFG sing 385 n n C4' C3' SFG sing 386 n n C4' H4' SFG sing 387 n n O4' C1' SFG sing 388 n n C3' O3' SFG sing 389 n n C3' C2' SFG sing 390 n n C3' H3' SFG sing 391 n n O3' HO3' SFG sing 392 n n C2' O2' SFG sing 393 n n C2' C1' SFG sing 394 n n C2' H2' SFG sing 395 n n O2' HO2' SFG sing 396 n n C1' N9 SFG sing 397 n n C1' H1' SFG sing 398 n n N9 C8 SFG sing 399 n y N9 C4 SFG sing 400 n y C8 N7 SFG doub 401 n y C8 H8 SFG sing 402 n n N7 C5 SFG sing 403 n y C5 C6 SFG sing 404 n y C5 C4 SFG doub 405 n y C6 N6 SFG sing 406 n n C6 N1 SFG doub 407 n y N6 HN61 SFG sing 408 n n N6 HN62 SFG sing 409 n n N1 C2 SFG sing 410 n y C2 N3 SFG doub 411 n y C2 H2 SFG sing 412 n n N3 C4 SFG sing 413 n y # _atom_sites.entry_id 5C9Z _atom_sites.fract_transf_matrix[1][1] 0.009727 _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] 0.007258 _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] 0.005589 _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 SFG A 1 701 1 SFG SFG . D 4 4Z2 A 1 702 1 4Z2 EPZ . E 5 GOL A 1 703 1 GOL GOL . F 6 HOH A 1 801 122 HOH HOH . F 6 HOH A 2 802 52 HOH HOH . F 6 HOH A 3 803 78 HOH HOH . F 6 HOH A 4 804 18 HOH HOH . F 6 HOH A 5 805 81 HOH HOH . F 6 HOH A 6 806 7 HOH HOH . F 6 HOH A 7 807 104 HOH HOH . F 6 HOH A 8 808 94 HOH HOH . F 6 HOH A 9 809 76 HOH HOH . F 6 HOH A 10 810 89 HOH HOH . F 6 HOH A 11 811 68 HOH HOH . F 6 HOH A 12 812 93 HOH HOH . F 6 HOH A 13 813 62 HOH HOH . F 6 HOH A 14 814 23 HOH HOH . F 6 HOH A 15 815 32 HOH HOH . F 6 HOH A 16 816 46 HOH HOH . F 6 HOH A 17 817 11 HOH HOH . F 6 HOH A 18 818 21 HOH HOH . F 6 HOH A 19 819 13 HOH HOH . F 6 HOH A 20 820 36 HOH HOH . F 6 HOH A 21 821 30 HOH HOH . F 6 HOH A 22 822 4 HOH HOH . F 6 HOH A 23 823 50 HOH HOH . F 6 HOH A 24 824 3 HOH HOH . F 6 HOH A 25 825 120 HOH HOH . F 6 HOH A 26 826 29 HOH HOH . F 6 HOH A 27 827 2 HOH HOH . F 6 HOH A 28 828 98 HOH HOH . F 6 HOH A 29 829 61 HOH HOH . F 6 HOH A 30 830 64 HOH HOH . F 6 HOH A 31 831 96 HOH HOH . F 6 HOH A 32 832 16 HOH HOH . F 6 HOH A 33 833 67 HOH HOH . F 6 HOH A 34 834 15 HOH HOH . F 6 HOH A 35 835 95 HOH HOH . F 6 HOH A 36 836 59 HOH HOH . F 6 HOH A 37 837 17 HOH HOH . F 6 HOH A 38 838 43 HOH HOH . F 6 HOH A 39 839 65 HOH HOH . F 6 HOH A 40 840 102 HOH HOH . F 6 HOH A 41 841 37 HOH HOH . F 6 HOH A 42 842 41 HOH HOH . F 6 HOH A 43 843 35 HOH HOH . F 6 HOH A 44 844 1 HOH HOH . F 6 HOH A 45 845 101 HOH HOH . F 6 HOH A 46 846 47 HOH HOH . F 6 HOH A 47 847 39 HOH HOH . F 6 HOH A 48 848 40 HOH HOH . F 6 HOH A 49 849 99 HOH HOH . F 6 HOH A 50 850 8 HOH HOH . F 6 HOH A 51 851 25 HOH HOH . F 6 HOH A 52 852 26 HOH HOH . F 6 HOH A 53 853 14 HOH HOH . F 6 HOH A 54 854 54 HOH HOH . F 6 HOH A 55 855 70 HOH HOH . F 6 HOH A 56 856 49 HOH HOH . F 6 HOH A 57 857 103 HOH HOH . F 6 HOH A 58 858 58 HOH HOH . F 6 HOH A 59 859 121 HOH HOH . F 6 HOH A 60 860 118 HOH HOH . F 6 HOH A 61 861 9 HOH HOH . F 6 HOH A 62 862 74 HOH HOH . F 6 HOH A 63 863 79 HOH HOH . F 6 HOH A 64 864 77 HOH HOH . F 6 HOH A 65 865 72 HOH HOH . F 6 HOH A 66 866 22 HOH HOH . F 6 HOH A 67 867 6 HOH HOH . F 6 HOH A 68 868 100 HOH HOH . F 6 HOH A 69 869 12 HOH HOH . F 6 HOH A 70 870 73 HOH HOH . F 6 HOH A 71 871 19 HOH HOH . F 6 HOH A 72 872 60 HOH HOH . F 6 HOH A 73 873 92 HOH HOH . F 6 HOH A 74 874 27 HOH HOH . F 6 HOH A 75 875 105 HOH HOH . F 6 HOH A 76 876 48 HOH HOH . F 6 HOH A 77 877 69 HOH HOH . F 6 HOH A 78 878 119 HOH HOH . F 6 HOH A 79 879 53 HOH HOH . F 6 HOH A 80 880 88 HOH HOH . F 6 HOH A 81 881 45 HOH HOH . F 6 HOH A 82 882 31 HOH HOH . F 6 HOH A 83 883 33 HOH HOH . F 6 HOH A 84 884 123 HOH HOH . F 6 HOH A 85 885 86 HOH HOH . F 6 HOH A 86 886 10 HOH HOH . F 6 HOH A 87 887 80 HOH HOH . F 6 HOH A 88 888 97 HOH HOH . F 6 HOH A 89 889 109 HOH HOH . F 6 HOH A 90 890 87 HOH HOH . F 6 HOH A 91 891 106 HOH HOH . F 6 HOH A 92 892 91 HOH HOH . F 6 HOH A 93 893 85 HOH HOH . F 6 HOH A 94 894 117 HOH HOH . G 6 HOH B 1 401 82 HOH HOH . G 6 HOH B 2 402 44 HOH HOH . G 6 HOH B 3 403 5 HOH HOH . G 6 HOH B 4 404 38 HOH HOH . G 6 HOH B 5 405 110 HOH HOH . G 6 HOH B 6 406 115 HOH HOH . G 6 HOH B 7 407 114 HOH HOH . G 6 HOH B 8 408 57 HOH HOH . G 6 HOH B 9 409 28 HOH HOH . G 6 HOH B 10 410 56 HOH HOH . G 6 HOH B 11 411 20 HOH HOH . G 6 HOH B 12 412 84 HOH HOH . G 6 HOH B 13 413 55 HOH HOH . G 6 HOH B 14 414 42 HOH HOH . G 6 HOH B 15 415 34 HOH HOH . G 6 HOH B 16 416 116 HOH HOH . G 6 HOH B 17 417 75 HOH HOH . G 6 HOH B 18 418 24 HOH HOH . G 6 HOH B 19 419 112 HOH HOH . G 6 HOH B 20 420 63 HOH HOH . G 6 HOH B 21 421 66 HOH HOH . G 6 HOH B 22 422 71 HOH HOH . G 6 HOH B 23 423 107 HOH HOH . G 6 HOH B 24 424 51 HOH HOH . G 6 HOH B 25 425 113 HOH HOH . G 6 HOH B 26 426 90 HOH HOH . G 6 HOH B 27 427 111 HOH HOH . G 6 HOH B 28 428 83 HOH HOH . G 6 HOH B 29 429 108 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 N SFG . . . C 3 23.905 -36.145 -6.676 1 39.67 ? N SFG 701 A 1 HETATM 2 C CA SFG . . . C 3 24.34 -37.439 -6.171 1 40.26 ? CA SFG 701 A 1 HETATM 3 C C SFG . . . C 3 25.243 -38.13 -7.155 1 40.51 ? C SFG 701 A 1 HETATM 4 O O SFG . . . C 3 25.096 -37.921 -8.381 1 39.98 ? O SFG 701 A 1 HETATM 5 O OXT SFG . . . C 3 26.109 -38.905 -6.699 1 41.1 ? OXT SFG 701 A 1 HETATM 6 C CB SFG . . . C 3 23.144 -38.338 -5.855 1 40.67 ? CB SFG 701 A 1 HETATM 7 C CG SFG . . . C 3 22.165 -38.487 -7.016 1 41.75 ? CG SFG 701 A 1 HETATM 8 C CD SFG . . . C 3 21.036 -39.46 -6.677 1 42.2 ? CD SFG 701 A 1 HETATM 9 N NE SFG . . . C 3 20.817 -40.331 -7.815 1 43.79 ? NE SFG 701 A 1 HETATM 10 C C5' SFG . . . C 3 19.737 -38.714 -6.372 1 40.11 ? C5' SFG 701 A 1 HETATM 11 C C4' SFG . . . C 3 19.737 -38.04 -4.998 1 39.36 ? C4' SFG 701 A 1 HETATM 12 O O4' SFG . . . C 3 18.617 -37.156 -4.877 1 38.68 ? O4' SFG 701 A 1 HETATM 13 C C3' SFG . . . C 3 19.628 -39.041 -3.86 1 39 ? C3' SFG 701 A 1 HETATM 14 O O3' SFG . . . C 3 20.641 -38.724 -2.902 1 38.58 ? O3' SFG 701 A 1 HETATM 15 C C2' SFG . . . C 3 18.237 -38.83 -3.291 1 38.16 ? C2' SFG 701 A 1 HETATM 16 O O2' SFG . . . C 3 18.221 -39.058 -1.88 1 39.41 ? O2' SFG 701 A 1 HETATM 17 C C1' SFG . . . C 3 17.928 -37.386 -3.649 1 37.62 ? C1' SFG 701 A 1 HETATM 18 N N9 SFG . . . C 3 16.488 -37.09 -3.848 1 36.56 ? N9 SFG 701 A 1 HETATM 19 C C8 SFG . . . C 3 15.606 -37.849 -4.519 1 36.72 ? C8 SFG 701 A 1 HETATM 20 N N7 SFG . . . C 3 14.372 -37.28 -4.513 1 37.47 ? N7 SFG 701 A 1 HETATM 21 C C5 SFG . . . C 3 14.461 -36.125 -3.832 1 36.1 ? C5 SFG 701 A 1 HETATM 22 C C6 SFG . . . C 3 13.532 -35.039 -3.457 1 36.79 ? C6 SFG 701 A 1 HETATM 23 N N6 SFG . . . C 3 12.231 -35.092 -3.826 1 38.8 ? N6 SFG 701 A 1 HETATM 24 N N1 SFG . . . C 3 14.021 -34.001 -2.733 1 38.24 ? N1 SFG 701 A 1 HETATM 25 C C2 SFG . . . C 3 15.323 -33.948 -2.366 1 37.28 ? C2 SFG 701 A 1 HETATM 26 N N3 SFG . . . C 3 16.218 -34.906 -2.671 1 36.24 ? N3 SFG 701 A 1 HETATM 27 C C4 SFG . . . C 3 15.857 -36 -3.395 1 35.92 ? C4 SFG 701 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #