data_8Q9W # _model_server_result.job_id 6sZkkEpk1hLgyGSzD5vriw _model_server_result.datetime_utc '2024-11-13 07:46:19' _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 8q9w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 8Q9W # _exptl.entry_id 8Q9W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 381.387 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SINEFUNGIN _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.67 _cell.angle_gamma 90 _cell.entry_id 8Q9W _cell.length_a 40.463 _cell.length_b 84.086 _cell.length_c 85.344 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Q9W _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,G 1 1 B,E,F,H 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _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 341 n n N HN1 SFG sing 342 n n N HN2 SFG sing 343 n n CA C SFG sing 344 n n CA CB SFG sing 345 n n CA HA SFG sing 346 n n C O SFG doub 347 n n C OXT SFG sing 348 n n OXT HXT SFG sing 349 n n CB CG SFG sing 350 n n CB HB1 SFG sing 351 n n CB HB2 SFG sing 352 n n CG CD SFG sing 353 n n CG HG1 SFG sing 354 n n CG HG2 SFG sing 355 n n CD NE SFG sing 356 n n CD C5' SFG sing 357 n n CD HD SFG sing 358 n n NE HNE1 SFG sing 359 n n NE HNE2 SFG sing 360 n n C5' C4' SFG sing 361 n n C5' "H5'1" SFG sing 362 n n C5' "H5'2" SFG sing 363 n n C4' O4' SFG sing 364 n n C4' C3' SFG sing 365 n n C4' H4' SFG sing 366 n n O4' C1' SFG sing 367 n n C3' O3' SFG sing 368 n n C3' C2' SFG sing 369 n n C3' H3' SFG sing 370 n n O3' HO3' SFG sing 371 n n C2' O2' SFG sing 372 n n C2' C1' SFG sing 373 n n C2' H2' SFG sing 374 n n O2' HO2' SFG sing 375 n n C1' N9 SFG sing 376 n n C1' H1' SFG sing 377 n n N9 C8 SFG sing 378 n y N9 C4 SFG sing 379 n y C8 N7 SFG doub 380 n y C8 H8 SFG sing 381 n n N7 C5 SFG sing 382 n y C5 C6 SFG sing 383 n y C5 C4 SFG doub 384 n y C6 N6 SFG sing 385 n n C6 N1 SFG doub 386 n y N6 HN61 SFG sing 387 n n N6 HN62 SFG sing 388 n n N1 C2 SFG sing 389 n y C2 N3 SFG doub 390 n y C2 H2 SFG sing 391 n n N3 C4 SFG sing 392 n y # _atom_sites.entry_id 8Q9W _atom_sites.fract_transf_matrix[1][1] 0.024714 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004213 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011893 _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] 0.011886 _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 SFG A 1 501 501 SFG SFG . D 3 SO4 A 1 502 1 SO4 SO4 . E 2 SFG B 1 501 501 SFG SFG . F 4 GNP B 1 502 502 GNP GNP . G 5 HOH A 1 601 107 HOH HOH . G 5 HOH A 2 602 13 HOH HOH . G 5 HOH A 3 603 81 HOH HOH . G 5 HOH A 4 604 76 HOH HOH . G 5 HOH A 5 605 63 HOH HOH . G 5 HOH A 6 606 9 HOH HOH . G 5 HOH A 7 607 10 HOH HOH . G 5 HOH A 8 608 125 HOH HOH . G 5 HOH A 9 609 43 HOH HOH . G 5 HOH A 10 610 52 HOH HOH . G 5 HOH A 11 611 2 HOH HOH . G 5 HOH A 12 612 1 HOH HOH . G 5 HOH A 13 613 60 HOH HOH . G 5 HOH A 14 614 17 HOH HOH . G 5 HOH A 15 615 20 HOH HOH . G 5 HOH A 16 616 15 HOH HOH . G 5 HOH A 17 617 65 HOH HOH . G 5 HOH A 18 618 87 HOH HOH . G 5 HOH A 19 619 21 HOH HOH . G 5 HOH A 20 620 35 HOH HOH . G 5 HOH A 21 621 41 HOH HOH . G 5 HOH A 22 622 56 HOH HOH . G 5 HOH A 23 623 75 HOH HOH . G 5 HOH A 24 624 33 HOH HOH . G 5 HOH A 25 625 48 HOH HOH . G 5 HOH A 26 626 108 HOH HOH . G 5 HOH A 27 627 74 HOH HOH . G 5 HOH A 28 628 96 HOH HOH . G 5 HOH A 29 629 19 HOH HOH . G 5 HOH A 30 630 12 HOH HOH . G 5 HOH A 31 631 24 HOH HOH . G 5 HOH A 32 632 94 HOH HOH . G 5 HOH A 33 633 29 HOH HOH . G 5 HOH A 34 634 50 HOH HOH . G 5 HOH A 35 635 8 HOH HOH . G 5 HOH A 36 636 61 HOH HOH . G 5 HOH A 37 637 4 HOH HOH . G 5 HOH A 38 638 92 HOH HOH . G 5 HOH A 39 639 93 HOH HOH . G 5 HOH A 40 640 68 HOH HOH . G 5 HOH A 41 641 22 HOH HOH . G 5 HOH A 42 642 23 HOH HOH . G 5 HOH A 43 643 37 HOH HOH . G 5 HOH A 44 644 124 HOH HOH . G 5 HOH A 45 645 62 HOH HOH . G 5 HOH A 46 646 98 HOH HOH . G 5 HOH A 47 647 89 HOH HOH . G 5 HOH A 48 648 64 HOH HOH . G 5 HOH A 49 649 90 HOH HOH . G 5 HOH A 50 650 59 HOH HOH . G 5 HOH A 51 651 106 HOH HOH . G 5 HOH A 52 652 120 HOH HOH . G 5 HOH A 53 653 54 HOH HOH . G 5 HOH A 54 654 86 HOH HOH . G 5 HOH A 55 655 14 HOH HOH . G 5 HOH A 56 656 38 HOH HOH . G 5 HOH A 57 657 67 HOH HOH . H 5 HOH B 1 601 97 HOH HOH . H 5 HOH B 2 602 5 HOH HOH . H 5 HOH B 3 603 3 HOH HOH . H 5 HOH B 4 604 66 HOH HOH . H 5 HOH B 5 605 77 HOH HOH . H 5 HOH B 6 606 6 HOH HOH . H 5 HOH B 7 607 114 HOH HOH . H 5 HOH B 8 608 7 HOH HOH . H 5 HOH B 9 609 103 HOH HOH . H 5 HOH B 10 610 80 HOH HOH . H 5 HOH B 11 611 16 HOH HOH . H 5 HOH B 12 612 36 HOH HOH . H 5 HOH B 13 613 31 HOH HOH . H 5 HOH B 14 614 18 HOH HOH . H 5 HOH B 15 615 99 HOH HOH . H 5 HOH B 16 616 44 HOH HOH . H 5 HOH B 17 617 26 HOH HOH . H 5 HOH B 18 618 70 HOH HOH . H 5 HOH B 19 619 25 HOH HOH . H 5 HOH B 20 620 58 HOH HOH . H 5 HOH B 21 621 42 HOH HOH . H 5 HOH B 22 622 27 HOH HOH . H 5 HOH B 23 623 119 HOH HOH . H 5 HOH B 24 624 115 HOH HOH . H 5 HOH B 25 625 85 HOH HOH . H 5 HOH B 26 626 118 HOH HOH . H 5 HOH B 27 627 91 HOH HOH . H 5 HOH B 28 628 34 HOH HOH . H 5 HOH B 29 629 28 HOH HOH . H 5 HOH B 30 630 55 HOH HOH . H 5 HOH B 31 631 72 HOH HOH . H 5 HOH B 32 632 11 HOH HOH . H 5 HOH B 33 633 30 HOH HOH . H 5 HOH B 34 634 83 HOH HOH . H 5 HOH B 35 635 78 HOH HOH . H 5 HOH B 36 636 110 HOH HOH . H 5 HOH B 37 637 49 HOH HOH . H 5 HOH B 38 638 45 HOH HOH . H 5 HOH B 39 639 112 HOH HOH . H 5 HOH B 40 640 71 HOH HOH . H 5 HOH B 41 641 82 HOH HOH . H 5 HOH B 42 642 100 HOH HOH . H 5 HOH B 43 643 88 HOH HOH . H 5 HOH B 44 644 109 HOH HOH . H 5 HOH B 45 645 84 HOH HOH . H 5 HOH B 46 646 102 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 . . . E 2 -6.133 -25.408 11.819 1 37.91 ? N SFG 501 B 1 HETATM 2 C CA SFG . . . E 2 -4.774 -24.923 11.642 1 41.85 ? CA SFG 501 B 1 HETATM 3 C C SFG . . . E 2 -4.795 -23.399 11.712 1 57.19 ? C SFG 501 B 1 HETATM 4 O O SFG . . . E 2 -4.01 -22.785 12.485 1 53.64 ? O SFG 501 B 1 HETATM 5 O OXT SFG . . . E 2 -5.617 -22.766 10.998 1 53.38 ? OXT SFG 501 B 1 HETATM 6 C CB SFG . . . E 2 -4.204 -25.416 10.311 1 41.58 ? CB SFG 501 B 1 HETATM 7 C CG SFG . . . E 2 -2.845 -24.793 10.003 1 44.67 ? CG SFG 501 B 1 HETATM 8 C CD SFG . . . E 2 -1.767 -25.838 9.684 1 41.96 ? CD SFG 501 B 1 HETATM 9 N NE SFG . . . E 2 -0.932 -25.316 8.618 1 30.8 ? NE SFG 501 B 1 HETATM 10 C C5' SFG . . . E 2 -2.337 -27.175 9.209 1 22.44 ? C5' SFG 501 B 1 HETATM 11 C C4' SFG . . . E 2 -2.344 -28.251 10.335 1 45.2 ? C4' SFG 501 B 1 HETATM 12 O O4' SFG . . . E 2 -2.684 -29.401 9.82 1 41.4 ? O4' SFG 501 B 1 HETATM 13 C C3' SFG . . . E 2 -0.956 -28.439 10.986 1 28.63 ? C3' SFG 501 B 1 HETATM 14 O O3' SFG . . . E 2 -1.064 -28.278 12.33 1 36.68 ? O3' SFG 501 B 1 HETATM 15 C C2' SFG . . . E 2 -0.573 -29.897 10.681 1 26.63 ? C2' SFG 501 B 1 HETATM 16 O O2' SFG . . . E 2 0.127 -30.5 11.855 1 32.48 ? O2' SFG 501 B 1 HETATM 17 C C1' SFG . . . E 2 -1.72 -30.494 10.505 1 33.98 ? C1' SFG 501 B 1 HETATM 18 N N9 SFG . . . E 2 -1.593 -31.622 9.624 1 45.98 ? N9 SFG 501 B 1 HETATM 19 C C8 SFG . . . E 2 -0.781 -31.728 8.565 1 32.59 ? C8 SFG 501 B 1 HETATM 20 N N7 SFG . . . E 2 -0.976 -32.935 8.026 1 25.77 ? N7 SFG 501 B 1 HETATM 21 C C5 SFG . . . E 2 -1.911 -33.565 8.751 1 35.92 ? C5 SFG 501 B 1 HETATM 22 C C6 SFG . . . E 2 -2.474 -34.814 8.633 1 43.39 ? C6 SFG 501 B 1 HETATM 23 N N6 SFG . . . E 2 -2.242 -35.878 7.674 1 26.91 ? N6 SFG 501 B 1 HETATM 24 N N1 SFG . . . E 2 -3.4 -35.205 9.502 1 35.36 ? N1 SFG 501 B 1 HETATM 25 C C2 SFG . . . E 2 -3.783 -34.376 10.505 1 37.45 ? C2 SFG 501 B 1 HETATM 26 N N3 SFG . . . E 2 -3.225 -33.149 10.619 1 30.02 ? N3 SFG 501 B 1 HETATM 27 C C4 SFG . . . E 2 -2.293 -32.753 9.739 1 23.26 ? C4 SFG 501 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #