data_4QDD # _model_server_result.job_id 9cL6TvwKa_20dTaZ5PUx7w _model_server_result.datetime_utc '2024-11-28 05:07:00' _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 4qdd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 4QDD # _exptl.entry_id 4QDD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 457.668 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'S-[2-(propanoylamino)ethyl] (2S)-2-[(8S,9S,10R,13S,14S,17R)-10,13-dimethyl-3-oxo-6,7,8,9,10,11,12,13,14,15,16,17-dodecahydro-3H-cyclopenta[a]phenanthren-17-yl]propanethioate (non-preferred name)' _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 4QDD _cell.length_a 163.17 _cell.length_b 163.17 _cell.length_c 47.14 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4QDD _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -81.585 141.309365 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -163.17 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 SG CYS 73 A CYS 73 1_555 B FE2 FES . A FES 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc2 A ND1 HIS 75 A HIS 75 1_555 B FE1 FES . A FES 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc3 A SG CYS 92 A CYS 92 1_555 B FE2 FES . A FES 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc4 A ND1 HIS 95 A HIS 95 1_555 B FE1 FES . A FES 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc5 A NE2 HIS 187 A HIS 187 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc6 A NE2 HIS 192 A HIS 192 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc7 A OD2 ASP 311 A ASP 311 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc8 C FE FE2 . A FE2 402 1_555 E O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? # _chem_comp.formula 'C27 H39 N O3 S' _chem_comp.formula_weight 457.668 _chem_comp.id 30Q _chem_comp.mon_nstd_flag . _chem_comp.name 'S-[2-(propanoylamino)ethyl] (2S)-2-[(8S,9S,10R,13S,14S,17R)-10,13-dimethyl-3-oxo-6,7,8,9,10,11,12,13,14,15,16,17-dodecahydro-3H-cyclopenta[a]phenanthren-17-yl]propanethioate (non-preferred name)' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 CAZ CBB 30Q sing 1 n n CBB CBW 30Q sing 2 n n OAH CBW 30Q doub 3 n n CBW NBN 30Q sing 4 n n NBN CAY 30Q sing 5 n n CAY CBA 30Q sing 6 n n CBA SBU 30Q sing 7 n n SBU CBY 30Q sing 8 n n OAJ CBY 30Q doub 9 n n CBY CCD 30Q sing 10 n n CAA CCD 30Q sing 11 n n CCD CCI 30Q sing 12 n n CAE CCQ 30Q sing 13 n n CBE CCI 30Q sing 14 n n CBE CBF 30Q sing 15 n n CCI CCQ 30Q sing 16 n n CCQ CBH 30Q sing 17 n n CCQ CCK 30Q sing 18 n n CBF CCK 30Q sing 19 n n CBH CBG 30Q sing 20 n n CCK CCH 30Q sing 21 n n CBG CCJ 30Q sing 22 n n CCH CCJ 30Q sing 23 n n CCH CBD 30Q sing 24 n n CCJ CCP 30Q sing 25 n n CBD CBC 30Q sing 26 n n CAD CCP 30Q sing 27 n n CCP CAU 30Q sing 28 n n CCP CBZ 30Q sing 29 n n CBC CBZ 30Q sing 30 n n CAU CAT 30Q doub 31 n n CBZ CAV 30Q doub 32 n n CAT CBV 30Q sing 33 n n CAV CBV 30Q sing 34 n n CBV OAG 30Q doub 35 n n CAE H1 30Q sing 36 n n CAE H2 30Q sing 37 n n CAE H3 30Q sing 38 n n CBH H4 30Q sing 39 n n CBH H5 30Q sing 40 n n CBG H6 30Q sing 41 n n CBG H7 30Q sing 42 n n CCJ H8 30Q sing 43 n n CAD H9 30Q sing 44 n n CAD H10 30Q sing 45 n n CAD H11 30Q sing 46 n n CAU H12 30Q sing 47 n n CAT H13 30Q sing 48 n n CAV H14 30Q sing 49 n n CBC H15 30Q sing 50 n n CBC H16 30Q sing 51 n n CBD H17 30Q sing 52 n n CBD H18 30Q sing 53 n n CCH H19 30Q sing 54 n n CCK H20 30Q sing 55 n n CBF H21 30Q sing 56 n n CBF H22 30Q sing 57 n n CBE H23 30Q sing 58 n n CBE H24 30Q sing 59 n n CCI H25 30Q sing 60 n n CCD H26 30Q sing 61 n n CAA H27 30Q sing 62 n n CAA H28 30Q sing 63 n n CAA H29 30Q sing 64 n n CBA H30 30Q sing 65 n n CBA H31 30Q sing 66 n n CAY H32 30Q sing 67 n n CAY H33 30Q sing 68 n n NBN H34 30Q sing 69 n n CBB H35 30Q sing 70 n n CBB H36 30Q sing 71 n n CAZ H37 30Q sing 72 n n CAZ H38 30Q sing 73 n n CAZ H39 30Q sing 74 n n # _atom_sites.entry_id 4QDD _atom_sites.fract_transf_matrix[1][1] 0.006129 _atom_sites.fract_transf_matrix[1][2] 0.003538 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007077 _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] 0.021213 _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 FES A 1 401 399 FES FES . C 3 FE2 A 1 402 400 FE2 FE2 . D 4 30Q A 1 403 1 30Q 30Q . E 5 HOH A 1 501 1 HOH HOH . E 5 HOH A 2 502 2 HOH HOH . E 5 HOH A 3 503 4 HOH HOH . E 5 HOH A 4 504 8 HOH HOH . E 5 HOH A 5 505 13 HOH HOH . E 5 HOH A 6 506 24 HOH HOH . E 5 HOH A 7 507 29 HOH HOH . E 5 HOH A 8 508 30 HOH HOH . E 5 HOH A 9 509 35 HOH HOH . E 5 HOH A 10 510 36 HOH HOH . E 5 HOH A 11 511 53 HOH HOH . E 5 HOH A 12 512 61 HOH HOH . E 5 HOH A 13 513 73 HOH HOH . E 5 HOH A 14 514 76 HOH HOH . E 5 HOH A 15 515 84 HOH HOH . E 5 HOH A 16 516 89 HOH HOH . E 5 HOH A 17 517 90 HOH HOH . E 5 HOH A 18 518 91 HOH HOH . E 5 HOH A 19 519 92 HOH HOH . E 5 HOH A 20 520 93 HOH HOH . E 5 HOH A 21 521 94 HOH HOH . E 5 HOH A 22 522 95 HOH HOH . E 5 HOH A 23 523 96 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 CAE 30Q . . . D 4 -89.813 14.716 -3.833 1 62.16 ? CAE 30Q 403 A 1 HETATM 2 C CCQ 30Q . . . D 4 -91.098 14.755 -2.962 1 62.44 ? CCQ 30Q 403 A 1 HETATM 3 C CBH 30Q . . . D 4 -91.228 16.124 -2.321 1 64.34 ? CBH 30Q 403 A 1 HETATM 4 C CBG 30Q . . . D 4 -90.061 16.339 -1.323 1 62.84 ? CBG 30Q 403 A 1 HETATM 5 C CCJ 30Q . . . D 4 -90.092 15.237 -0.222 1 59.71 ? CCJ 30Q 403 A 1 HETATM 6 C CCP 30Q . . . D 4 -89.015 15.425 0.878 1 56.58 ? CCP 30Q 403 A 1 HETATM 7 C CAD 30Q . . . D 4 -87.583 15.487 0.298 1 56.71 ? CAD 30Q 403 A 1 HETATM 8 C CAU 30Q . . . D 4 -89.242 16.658 1.533 1 54.52 ? CAU 30Q 403 A 1 HETATM 9 C CAT 30Q . . . D 4 -89.469 16.784 2.9 1 52.3 ? CAT 30Q 403 A 1 HETATM 10 C CBV 30Q . . . D 4 -89.523 15.664 3.704 1 52.65 ? CBV 30Q 403 A 1 HETATM 11 O OAG 30Q . . . D 4 -89.748 15.788 4.902 1 50.1 ? OAG 30Q 403 A 1 HETATM 12 C CAV 30Q . . . D 4 -89.351 14.415 3.121 1 55.41 ? CAV 30Q 403 A 1 HETATM 13 C CBZ 30Q . . . D 4 -89.109 14.3 1.748 1 56.86 ? CBZ 30Q 403 A 1 HETATM 14 C CBC 30Q . . . D 4 -88.951 13.032 1.231 1 58.35 ? CBC 30Q 403 A 1 HETATM 15 C CBD 30Q . . . D 4 -90.112 12.826 0.245 1 57.4 ? CBD 30Q 403 A 1 HETATM 16 C CCH 30Q . . . D 4 -89.994 13.846 -0.86 1 59.62 ? CCH 30Q 403 A 1 HETATM 17 C CCK 30Q . . . D 4 -91.144 13.683 -1.854 1 62.28 ? CCK 30Q 403 A 1 HETATM 18 C CBF 30Q . . . D 4 -91.081 12.402 -2.643 1 63.52 ? CBF 30Q 403 A 1 HETATM 19 C CBE 30Q . . . D 4 -92.103 12.755 -3.772 1 62.36 ? CBE 30Q 403 A 1 HETATM 20 C CCI 30Q . . . D 4 -92.375 14.277 -3.675 1 62.74 ? CCI 30Q 403 A 1 HETATM 21 C CCD 30Q . . . D 4 -92.748 14.995 -5.023 1 63.95 ? CCD 30Q 403 A 1 HETATM 22 C CAA 30Q . . . D 4 -94.088 14.42 -5.567 1 61.97 ? CAA 30Q 403 A 1 HETATM 23 C CBY 30Q . . . D 4 -91.678 14.987 -6.151 1 65.16 ? CBY 30Q 403 A 1 HETATM 24 O OAJ 30Q . . . D 4 -91.034 16.009 -6.386 1 69.09 ? OAJ 30Q 403 A 1 HETATM 25 S SBU 30Q . . . D 4 -91.506 13.494 -7.108 1 66.71 ? SBU 30Q 403 A 1 HETATM 26 C CBA 30Q . . . D 4 -90.021 13.856 -8.11 1 60.4 ? CBA 30Q 403 A 1 HETATM 27 C CAY 30Q . . . D 4 -90.543 14.636 -9.337 1 56.94 ? CAY 30Q 403 A 1 HETATM 28 N NBN 30Q . . . D 4 -91.287 13.737 -10.247 1 57.64 ? NBN 30Q 403 A 1 HETATM 29 C CBW 30Q . . . D 4 -90.897 13.474 -11.524 1 57.65 ? CBW 30Q 403 A 1 HETATM 30 O OAH 30Q . . . D 4 -89.911 13.962 -12.078 1 48.94 ? OAH 30Q 403 A 1 HETATM 31 C CBB 30Q . . . D 4 -91.77 12.5 -12.287 1 59.76 ? CBB 30Q 403 A 1 HETATM 32 C CAZ 30Q . . . D 4 -93.111 13.222 -12.447 1 62.78 ? CAZ 30Q 403 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #