data_5EDU # _model_server_result.job_id s8hIsjEtzI0f1dTwVIJUfA _model_server_result.datetime_utc '2024-11-24 06:33:24' _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 5edu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2501}' # _entry.id 5EDU # _exptl.entry_id 5EDU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 302.368 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'TRICHOSTATIN A' _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 90 _cell.angle_gamma 90 _cell.entry_id 5EDU _cell.length_a 49.262 _cell.length_b 149.032 _cell.length_c 216.333 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5EDU _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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,E,F,G,H,M 1 1 B,D,I,J,K,L,N 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 ? 3 E N N ? 3 L N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 GLC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C GLC 1 C 1 GLC H 1404 MAL 2 n C GLC 2 C 2 GLC H 1404 MAL 2 n D GLC 1 D 1 GLC H 1403 MAL 2 n D GLC 2 D 2 GLC H 1403 MAL # 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 C O4 GLC . C GLC 1 1_555 C C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 sing covale ? covale2 D O4 GLC . D GLC 1 1_555 D C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 sing metalc ? metalc1 A O ASP 557 B ASP 647 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc2 A OD1 ASP 557 B ASP 647 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? metalc ? metalc3 A OD1 ASP 559 B ASP 649 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc4 A O ASP 559 B ASP 649 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc5 A ND1 HIS 561 B HIS 651 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc6 A O HIS 561 B HIS 651 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc7 A O PHE 570 B PHE 660 1_555 G K K . B K 2503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc8 A O ASP 573 B ASP 663 1_555 G K K . B K 2503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.157 ? metalc ? metalc9 A O VAL 576 B VAL 666 1_555 G K K . B K 2503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.873 ? metalc ? metalc10 A OG SER 580 B SER 670 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc11 A O LEU 581 B LEU 671 1_555 H K K . B K 2504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.005 ? metalc ? metalc12 A O PHE 609 B PHE 699 1_555 G K K . B K 2503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? metalc ? metalc13 A OD2 ASP 652 B ASP 742 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc14 E O1 TSN . B TSN 2501 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc15 E O2 TSN . B TSN 2501 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc16 E N1 TSN . B TSN 2501 1_555 F ZN ZN . B ZN 2502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc17 B O ASP 557 A ASP 647 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? metalc ? metalc18 B OD1 ASP 557 A ASP 647 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.789 ? metalc ? metalc19 B OD1 ASP 559 A ASP 649 1_555 I ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc20 B O ASP 559 A ASP 649 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.789 ? metalc ? metalc21 B ND1 HIS 561 A HIS 651 1_555 I ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc22 B O HIS 561 A HIS 651 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.853 ? metalc ? metalc23 B O PHE 570 A PHE 660 1_555 K K K . A K 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? metalc ? metalc24 B O ASP 573 A ASP 663 1_555 K K K . A K 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.065 ? metalc ? metalc25 B O VAL 576 A VAL 666 1_555 K K K . A K 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc26 B OG SER 580 A SER 670 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc27 B O LEU 581 A LEU 671 1_555 J K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.938 ? metalc ? metalc28 B O PHE 609 A PHE 699 1_555 K K K . A K 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? metalc ? metalc29 B OD2 ASP 652 A ASP 742 1_555 I ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc30 I ZN ZN . A ZN 901 1_555 L O2 TSN . A TSN 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc31 I ZN ZN . A ZN 901 1_555 L O1 TSN . A TSN 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc32 K K K . A K 903 1_555 N O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.054 ? # _chem_comp.formula 'C17 H22 N2 O3' _chem_comp.formula_weight 302.368 _chem_comp.id TSN _chem_comp.mon_nstd_flag . _chem_comp.name 'TRICHOSTATIN A' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7-[4-(DIMETHYLAMINO)PHENYL]-N-HYDROXY-4,6-DIMETHYL-7-OXO-2,4-HEPTADIENAMIDE # 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 O1 N1 TSN sing 358 n n O1 HO1 TSN sing 359 n n O2 C13 TSN doub 360 n n O3 C7 TSN doub 361 n n N1 C13 TSN sing 362 n n N1 HN1 TSN sing 363 n n N2 C4 TSN sing 364 n n N2 C17 TSN sing 365 n n N2 C16 TSN sing 366 n n C1 C2 TSN doub 367 n y C1 C6 TSN sing 368 n y C1 C7 TSN sing 369 n n C2 C3 TSN sing 370 n y C2 H21 TSN sing 371 n n C3 C4 TSN doub 372 n y C3 H31 TSN sing 373 n n C4 C5 TSN sing 374 n y C5 C6 TSN doub 375 n y C5 H51 TSN sing 376 n n C6 H61 TSN sing 377 n n C7 C8 TSN sing 378 n n C8 C9 TSN sing 379 n n C8 C14 TSN sing 380 n n C8 H8 TSN sing 381 n n C9 C10 TSN doub 382 e n C9 H9 TSN sing 383 n n C10 C11 TSN sing 384 n n C10 C15 TSN sing 385 n n C11 C12 TSN doub 386 e n C11 H111 TSN sing 387 n n C12 C13 TSN sing 388 n n C12 H121 TSN sing 389 n n C14 H141 TSN sing 390 n n C14 H142 TSN sing 391 n n C14 H143 TSN sing 392 n n C15 H151 TSN sing 393 n n C15 H152 TSN sing 394 n n C15 H153 TSN sing 395 n n C17 H171 TSN sing 396 n n C17 H172 TSN sing 397 n n C17 H173 TSN sing 398 n n C16 H161 TSN sing 399 n n C16 H162 TSN sing 400 n n C16 H163 TSN sing 401 n n # _atom_sites.entry_id 5EDU _atom_sites.fract_transf_matrix[1][1] 0.0203 _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] 0.00671 _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] 0.004623 _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 E 3 TSN B 1 2501 2501 TSN TSN . F 4 ZN B 1 2502 2 ZN ZN . G 5 K B 1 2503 3 K K . H 5 K B 1 2504 4 K K . I 4 ZN A 1 901 1 ZN ZN . J 5 K A 1 902 1 K K . K 5 K A 1 903 2 K K . L 3 TSN A 1 904 2501 TSN TSN . M 6 HOH B 1 2601 17 HOH HOH . M 6 HOH B 2 2602 32 HOH HOH . M 6 HOH B 3 2603 30 HOH HOH . M 6 HOH B 4 2604 6 HOH HOH . M 6 HOH B 5 2605 18 HOH HOH . M 6 HOH B 6 2606 27 HOH HOH . M 6 HOH B 7 2607 21 HOH HOH . M 6 HOH B 8 2608 51 HOH HOH . M 6 HOH B 9 2609 22 HOH HOH . M 6 HOH B 10 2610 14 HOH HOH . M 6 HOH B 11 2611 29 HOH HOH . M 6 HOH B 12 2612 16 HOH HOH . M 6 HOH B 13 2613 12 HOH HOH . M 6 HOH B 14 2614 25 HOH HOH . M 6 HOH B 15 2615 48 HOH HOH . M 6 HOH B 16 2616 31 HOH HOH . M 6 HOH B 17 2617 28 HOH HOH . M 6 HOH B 18 2618 26 HOH HOH . M 6 HOH B 19 2619 52 HOH HOH . M 6 HOH B 20 2620 42 HOH HOH . M 6 HOH B 21 2621 34 HOH HOH . M 6 HOH B 22 2622 46 HOH HOH . M 6 HOH B 23 2623 47 HOH HOH . M 6 HOH B 24 2624 49 HOH HOH . M 6 HOH B 25 2625 53 HOH HOH . M 6 HOH B 26 2626 44 HOH HOH . M 6 HOH B 27 2627 37 HOH HOH . M 6 HOH B 28 2628 43 HOH HOH . M 6 HOH B 29 2629 50 HOH HOH . N 6 HOH A 1 1001 5 HOH HOH . N 6 HOH A 2 1002 23 HOH HOH . N 6 HOH A 3 1003 3 HOH HOH . N 6 HOH A 4 1004 8 HOH HOH . N 6 HOH A 5 1005 13 HOH HOH . N 6 HOH A 6 1006 1 HOH HOH . N 6 HOH A 7 1007 15 HOH HOH . N 6 HOH A 8 1008 33 HOH HOH . N 6 HOH A 9 1009 2 HOH HOH . N 6 HOH A 10 1010 9 HOH HOH . N 6 HOH A 11 1011 39 HOH HOH . N 6 HOH A 12 1012 55 HOH HOH . N 6 HOH A 13 1013 10 HOH HOH . N 6 HOH A 14 1014 11 HOH HOH . N 6 HOH A 15 1015 62 HOH HOH . N 6 HOH A 16 1016 40 HOH HOH . N 6 HOH A 17 1017 45 HOH HOH . N 6 HOH A 18 1018 56 HOH HOH . N 6 HOH A 19 1019 19 HOH HOH . N 6 HOH A 20 1020 59 HOH HOH . N 6 HOH A 21 1021 36 HOH HOH . N 6 HOH A 22 1022 61 HOH HOH . N 6 HOH A 23 1023 41 HOH HOH . N 6 HOH A 24 1024 54 HOH HOH . N 6 HOH A 25 1025 35 HOH HOH . N 6 HOH A 26 1026 58 HOH HOH . N 6 HOH A 27 1027 38 HOH HOH . N 6 HOH A 28 1028 57 HOH HOH . N 6 HOH A 29 1029 60 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 O1 TSN . . . E 3 -2.676 1.731 10.313 1 74.91 ? O1 TSN 2501 B 1 HETATM 2 O O2 TSN . . . E 3 -3.568 3.813 8.915 1 75.46 ? O2 TSN 2501 B 1 HETATM 3 O O3 TSN . . . E 3 -1.075 7.553 2.969 1 61.86 ? O3 TSN 2501 B 1 HETATM 4 N N1 TSN . . . E 3 -1.854 2.766 9.873 1 73.76 ? N1 TSN 2501 B 1 HETATM 5 N N2 TSN . . . E 3 -2.501 13.532 4.517 1 59.64 ? N2 TSN 2501 B 1 HETATM 6 C C1 TSN . . . E 3 -1.189 9.621 4.102 1 60.06 ? C1 TSN 2501 B 1 HETATM 7 C C2 TSN . . . E 3 -2.024 10.188 3.146 1 61.42 ? C2 TSN 2501 B 1 HETATM 8 C C3 TSN . . . E 3 -2.463 11.499 3.287 1 61.96 ? C3 TSN 2501 B 1 HETATM 9 C C4 TSN . . . E 3 -2.067 12.251 4.387 1 61.15 ? C4 TSN 2501 B 1 HETATM 10 C C5 TSN . . . E 3 -1.229 11.684 5.344 1 59.36 ? C5 TSN 2501 B 1 HETATM 11 C C6 TSN . . . E 3 -0.791 10.371 5.202 1 58.26 ? C6 TSN 2501 B 1 HETATM 12 C C7 TSN . . . E 3 -0.719 8.205 3.938 1 61.05 ? C7 TSN 2501 B 1 HETATM 13 C C8 TSN . . . E 3 0.178 7.578 4.961 1 61.47 ? C8 TSN 2501 B 1 HETATM 14 C C9 TSN . . . E 3 -0.616 6.5 5.659 1 62.34 ? C9 TSN 2501 B 1 HETATM 15 C C10 TSN . . . E 3 -0.349 6.028 6.889 1 64.11 ? C10 TSN 2501 B 1 HETATM 16 C C11 TSN . . . E 3 -1.226 4.97 7.425 1 66.12 ? C11 TSN 2501 B 1 HETATM 17 C C12 TSN . . . E 3 -1.482 4.848 8.724 1 68.8 ? C12 TSN 2501 B 1 HETATM 18 C C13 TSN . . . E 3 -2.378 3.763 9.172 1 72.61 ? C13 TSN 2501 B 1 HETATM 19 C C14 TSN . . . E 3 1.364 6.959 4.231 1 60.99 ? C14 TSN 2501 B 1 HETATM 20 C C15 TSN . . . E 3 0.802 6.545 7.703 1 64.12 ? C15 TSN 2501 B 1 HETATM 21 C C17 TSN . . . E 3 -3.376 14.116 3.51 1 59.64 ? C17 TSN 2501 B 1 HETATM 22 C C16 TSN . . . E 3 -2.094 14.331 5.661 1 58.98 ? C16 TSN 2501 B 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 22 #