data_5NTH # _model_server_result.job_id 36TiB_WbFt5DcKBVl2YtwQ _model_server_result.datetime_utc '2024-11-01 12:27:24' _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 5nth # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":604}' # _entry.id 5NTH # _exptl.entry_id 5NTH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 385.498 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ACTINONIN _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 120 _cell.entry_id 5NTH _cell.length_a 116.439 _cell.length_b 116.439 _cell.length_c 91.491 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NTH _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # 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_675 -y+1,x-y+2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 201.678264 0 3 'crystal symmetry operation' 3_465 -x+y-1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -174.6585 100.839132 0 4 'crystal symmetry operation' 4_466 y-1,x+1,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 -174.6585 100.839132 91.491 5 'crystal symmetry operation' 5_676 x-y+1,-y+2,-z+1 1 0 0 0 -1 0 0 0 -1 0 201.678264 91.491 6 'crystal symmetry operation' 6_556 -x,-x+y,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 91.491 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A NZ LYS 298 A LYS 299 1_555 C MN MN . A MN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc2 A OD2 ASP 303 A ASP 304 1_555 C MN MN . A MN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc3 A OD2 ASP 303 A ASP 304 1_555 D MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc4 A OD2 ASP 321 A ASP 322 1_555 C MN MN . A MN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? metalc ? metalc5 A O ASP 388 A ASP 389 1_555 D MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc6 A OD1 ASP 388 A ASP 389 1_555 D MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? metalc ? metalc7 A OE2 GLU 390 A GLU 391 1_555 C MN MN . A MN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc8 A OE1 GLU 390 A GLU 391 1_555 D MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? metalc ? metalc9 C MN MN . A MN 602 1_555 E O2 BB2 . A BB2 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? metalc ? metalc10 D MN MN . A MN 603 1_555 E O4 BB2 . A BB2 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc11 D MN MN . A MN 603 1_555 E N1 BB2 . A BB2 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc12 D MN MN . A MN 603 1_555 E O2 BB2 . A BB2 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? # _chem_comp.formula 'C19 H35 N3 O5' _chem_comp.formula_weight 385.498 _chem_comp.id BB2 _chem_comp.mon_nstd_flag . _chem_comp.name ACTINONIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '2-[(FORMYL-HYDROXY-AMINO)-METHYL]-HEPTANOIC ACID [1-(2-HYDROXYMETHYL-PYRROLIDINE-1-CARBONYL)-2-METHYL-PROPYL]-AMIDE' # 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 C5 C3 BB2 sing 70 n n C5 C6 BB2 sing 71 n n C5 H51 BB2 sing 72 n n C5 H52 BB2 sing 73 n n C3 O4 BB2 doub 74 n n C3 N1 BB2 sing 75 n n N1 O2 BB2 sing 76 n n N1 HN1 BB2 sing 77 n n O2 HO2 BB2 sing 78 n n C6 C12 BB2 sing 79 n n C6 C7 BB2 sing 80 n n C6 H6 BB2 sing 81 n n C12 O13 BB2 doub 82 n n C12 N14 BB2 sing 83 n n C7 C8 BB2 sing 84 n n C7 H71 BB2 sing 85 n n C7 H72 BB2 sing 86 n n C8 C9 BB2 sing 87 n n C8 H81 BB2 sing 88 n n C8 H82 BB2 sing 89 n n C9 C10 BB2 sing 90 n n C9 H91 BB2 sing 91 n n C9 H92 BB2 sing 92 n n C10 C11 BB2 sing 93 n n C10 H101 BB2 sing 94 n n C10 H102 BB2 sing 95 n n C11 H111 BB2 sing 96 n n C11 H112 BB2 sing 97 n n C11 H113 BB2 sing 98 n n N14 C15 BB2 sing 99 n n N14 H14 BB2 sing 100 n n C15 C16 BB2 sing 101 n n C15 C19 BB2 sing 102 n n C15 H15 BB2 sing 103 n n C16 C18 BB2 sing 104 n n C16 C17 BB2 sing 105 n n C16 H16 BB2 sing 106 n n C18 H181 BB2 sing 107 n n C18 H182 BB2 sing 108 n n C18 H183 BB2 sing 109 n n C17 H171 BB2 sing 110 n n C17 H172 BB2 sing 111 n n C17 H173 BB2 sing 112 n n C19 O20 BB2 doub 113 n n C19 N21 BB2 sing 114 n n N21 C22 BB2 sing 115 n n N21 C23 BB2 sing 116 n n C22 C25 BB2 sing 117 n n C22 C26 BB2 sing 118 n n C22 H22 BB2 sing 119 n n C23 C24 BB2 sing 120 n n C23 H231 BB2 sing 121 n n C23 H232 BB2 sing 122 n n C24 C25 BB2 sing 123 n n C24 H241 BB2 sing 124 n n C24 H242 BB2 sing 125 n n C25 H251 BB2 sing 126 n n C25 H252 BB2 sing 127 n n C26 O27 BB2 sing 128 n n C26 H261 BB2 sing 129 n n C26 H262 BB2 sing 130 n n O27 H27 BB2 sing 131 n n # _atom_sites.entry_id 5NTH _atom_sites.fract_transf_matrix[1][1] 0.008588 _atom_sites.fract_transf_matrix[1][2] 0.004958 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009917 _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] 0.01093 _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 BCT A 1 601 1 BCT BCT . C 3 MN A 1 602 1 MN MN . D 3 MN A 1 603 2 MN MN . E 4 BB2 A 1 604 1 BB2 BB2 . F 5 HOH A 1 701 48 HOH HOH . F 5 HOH A 2 702 34 HOH HOH . F 5 HOH A 3 703 8 HOH HOH . F 5 HOH A 4 704 44 HOH HOH . F 5 HOH A 5 705 1 HOH HOH . F 5 HOH A 6 706 35 HOH HOH . F 5 HOH A 7 707 15 HOH HOH . F 5 HOH A 8 708 20 HOH HOH . F 5 HOH A 9 709 5 HOH HOH . F 5 HOH A 10 710 32 HOH HOH . F 5 HOH A 11 711 3 HOH HOH . F 5 HOH A 12 712 27 HOH HOH . F 5 HOH A 13 713 17 HOH HOH . F 5 HOH A 14 714 21 HOH HOH . F 5 HOH A 15 715 37 HOH HOH . F 5 HOH A 16 716 30 HOH HOH . F 5 HOH A 17 717 49 HOH HOH . F 5 HOH A 18 718 42 HOH HOH . F 5 HOH A 19 719 31 HOH HOH . F 5 HOH A 20 720 25 HOH HOH . F 5 HOH A 21 721 38 HOH HOH . F 5 HOH A 22 722 33 HOH HOH . F 5 HOH A 23 723 11 HOH HOH . F 5 HOH A 24 724 36 HOH HOH . F 5 HOH A 25 725 9 HOH HOH . F 5 HOH A 26 726 4 HOH HOH . F 5 HOH A 27 727 23 HOH HOH . F 5 HOH A 28 728 22 HOH HOH . F 5 HOH A 29 729 12 HOH HOH . F 5 HOH A 30 730 24 HOH HOH . F 5 HOH A 31 731 43 HOH HOH . F 5 HOH A 32 732 47 HOH HOH . F 5 HOH A 33 733 14 HOH HOH . F 5 HOH A 34 734 6 HOH HOH . F 5 HOH A 35 735 7 HOH HOH . F 5 HOH A 36 736 13 HOH HOH . F 5 HOH A 37 737 39 HOH HOH . F 5 HOH A 38 738 29 HOH HOH . F 5 HOH A 39 739 45 HOH HOH . F 5 HOH A 40 740 18 HOH HOH . F 5 HOH A 41 741 19 HOH HOH . F 5 HOH A 42 742 50 HOH HOH . F 5 HOH A 43 743 40 HOH HOH . F 5 HOH A 44 744 2 HOH HOH . F 5 HOH A 45 745 26 HOH HOH . F 5 HOH A 46 746 46 HOH HOH . F 5 HOH A 47 747 10 HOH HOH . F 5 HOH A 48 748 16 HOH HOH . F 5 HOH A 49 749 28 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 C C5 BB2 . . . E 4 -49.599 87.895 34.82 0.6 40.35 ? C5 BB2 604 A 1 HETATM 2 C C3 BB2 . . . E 4 -49.789 88.145 33.354 0.6 40.41 ? C3 BB2 604 A 1 HETATM 3 O O4 BB2 . . . E 4 -50.247 89.206 33.033 0.6 39.32 ? O4 BB2 604 A 1 HETATM 4 N N1 BB2 . . . E 4 -49.423 87.254 32.443 0.6 41.21 ? N1 BB2 604 A 1 HETATM 5 O O2 BB2 . . . E 4 -49.585 87.556 31.072 0.6 46.17 ? O2 BB2 604 A 1 HETATM 6 C C6 BB2 . . . E 4 -50.958 87.856 35.508 0.6 41.71 ? C6 BB2 604 A 1 HETATM 7 C C12 BB2 . . . E 4 -50.75 88.22 36.943 0.6 42.8 ? C12 BB2 604 A 1 HETATM 8 O O13 BB2 . . . E 4 -50.454 87.344 37.709 0.6 42.87 ? O13 BB2 604 A 1 HETATM 9 C C7 BB2 . . . E 4 -51.574 86.461 35.339 0.6 41.01 ? C7 BB2 604 A 1 HETATM 10 C C8 BB2 . . . E 4 -52.9 86.268 36.068 0.6 40.76 ? C8 BB2 604 A 1 HETATM 11 C C9 BB2 . . . E 4 -54.02 87.094 35.452 0.6 41.18 ? C9 BB2 604 A 1 HETATM 12 C C10 BB2 . . . E 4 -54.715 87.952 36.495 0.6 42.64 ? C10 BB2 604 A 1 HETATM 13 C C11 BB2 . . . E 4 -55.6 87.111 37.398 0.6 42.98 ? C11 BB2 604 A 1 HETATM 14 N N14 BB2 . . . E 4 -50.872 89.485 37.322 0.6 45.4 ? N14 BB2 604 A 1 HETATM 15 C C15 BB2 . . . E 4 -50.637 89.887 38.705 0.6 48.91 ? C15 BB2 604 A 1 HETATM 16 C C16 BB2 . . . E 4 -49.929 91.26 38.791 0.6 49.63 ? C16 BB2 604 A 1 HETATM 17 C C18 BB2 . . . E 4 -50.327 92.123 39.998 0.6 49.71 ? C18 BB2 604 A 1 HETATM 18 C C17 BB2 . . . E 4 -48.399 91.076 38.761 0.6 47.74 ? C17 BB2 604 A 1 HETATM 19 C C19 BB2 . . . E 4 -51.92 89.734 39.486 0.6 51.8 ? C19 BB2 604 A 1 HETATM 20 O O20 BB2 . . . E 4 -51.997 88.742 40.182 0.6 48.62 ? O20 BB2 604 A 1 HETATM 21 N N21 BB2 . . . E 4 -52.932 90.629 39.43 0.6 60.03 ? N21 BB2 604 A 1 HETATM 22 C C22 BB2 . . . E 4 -53.858 90.778 40.561 0.6 64.16 ? C22 BB2 604 A 1 HETATM 23 C C23 BB2 . . . E 4 -53.319 91.576 38.373 0.6 60.72 ? C23 BB2 604 A 1 HETATM 24 C C24 BB2 . . . E 4 -54.192 92.647 39.028 0.6 61.25 ? C24 BB2 604 A 1 HETATM 25 C C25 BB2 . . . E 4 -54.428 92.203 40.459 0.6 62.53 ? C25 BB2 604 A 1 HETATM 26 C C26 BB2 . . . E 4 -54.964 89.726 40.38 0.6 65.3 ? C26 BB2 604 A 1 HETATM 27 O O27 BB2 . . . E 4 -54.464 88.391 40.543 0.6 64.64 ? O27 BB2 604 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 27 #