data_4PV1 # _model_server_result.job_id jYwlBmQKiFPDfBXldnFi-g _model_server_result.datetime_utc '2024-11-06 03:01:31' _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 4pv1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":308}' # _entry.id 4PV1 # _exptl.entry_id 4PV1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 514.65 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'STIGMATELLIN A' _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 4PV1 _cell.length_a 159.085 _cell.length_b 159.085 _cell.length_c 361.322 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PV1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -79.5425 137.771651 60.220333 # _struct_asym.details ? _struct_asym.entity_id 13 _struct_asym.id P _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 disulf ? disulf1 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 C SG CYS 25 C CYS 25 1_555 W CAC HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.814 ? metalc ? metalc1 A NE2 HIS 86 A HIS 86 1_555 K FE HEC . A HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc2 A NE2 HIS 100 A HIS 100 1_555 L FE HEC . A HEC 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc3 A NE2 HIS 187 A HIS 187 1_555 K FE HEC . A HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc4 A NE2 HIS 202 A HIS 202 1_555 L FE HEC . A HEC 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc5 M FE HEC . A HEC 305 1_555 P O8 SMA . A SMA 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc6 M FE HEC . A HEC 305 1_555 CA O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc7 U MG CLA . B CLA 204 1_555 DA O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc8 C N TYR 1 C TYR 1 1_555 W FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc9 C NE2 HIS 26 C HIS 26 1_555 W FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc10 D SG CYS 108 D CYS 108 1_555 X FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc11 D ND1 HIS 110 D HIS 110 1_555 X FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc12 D SG CYS 126 D CYS 126 1_555 X FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc13 D ND1 HIS 129 D HIS 129 1_555 X FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? # _chem_comp.formula 'C30 H42 O7' _chem_comp.formula_weight 514.65 _chem_comp.id SMA _chem_comp.mon_nstd_flag . _chem_comp.name 'STIGMATELLIN A' _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 C7M O7 SMA sing 956 n n O7 C7 SMA sing 957 n n O8 C8 SMA sing 958 n n C7 C8 SMA doub 959 n y C7 C6 SMA sing 960 n y C8 C8A SMA sing 961 n y C6 C5 SMA doub 962 n y C8A O1 SMA sing 963 n n C8A C4A SMA doub 964 n y O1 C2 SMA sing 965 n n C22 C11 SMA sing 966 n n C9 C2 SMA sing 967 n n C9 C10 SMA sing 968 n n C5 C4A SMA sing 969 n y C5 O5 SMA sing 970 n n C4A C4 SMA sing 971 n n C2 C3 SMA doub 972 n n C5M O5 SMA sing 973 n n C3 C4 SMA sing 974 n n C3 C3M SMA sing 975 n n C4 O4 SMA doub 976 n n C11 C10 SMA sing 977 n n C11 C12 SMA sing 978 n n C24 C13 SMA sing 979 n n C12 C13 SMA sing 980 n n C12 O12 SMA sing 981 n n C13 C14 SMA sing 982 n n O12 C23 SMA sing 983 n n O14 C25 SMA sing 984 n n O14 C14 SMA sing 985 n n C14 C15 SMA sing 986 n n C15 C16 SMA doub 987 e n C16 C17 SMA sing 988 n n C17 C18 SMA doub 989 e n C18 C19 SMA sing 990 n n C20 C19 SMA doub 991 e n C20 C21 SMA sing 992 n n C19 C26 SMA sing 993 n n C3M H1 SMA sing 994 n n C3M H2 SMA sing 995 n n C3M H3 SMA sing 996 n n C5M H4 SMA sing 997 n n C5M H5 SMA sing 998 n n C5M H6 SMA sing 999 n n C6 H7 SMA sing 1000 n n C7M H8 SMA sing 1001 n n C7M H9 SMA sing 1002 n n C7M H10 SMA sing 1003 n n C9 H11 SMA sing 1004 n n C9 H12 SMA sing 1005 n n C10 H13 SMA sing 1006 n n C10 H14 SMA sing 1007 n n C11 H15 SMA sing 1008 n n C12 H16 SMA sing 1009 n n C13 H17 SMA sing 1010 n n C14 H18 SMA sing 1011 n n C15 H19 SMA sing 1012 n n C16 H21 SMA sing 1013 n n C17 H22 SMA sing 1014 n n C18 H23 SMA sing 1015 n n C20 H25 SMA sing 1016 n n C21 H26 SMA sing 1017 n n C21 H27 SMA sing 1018 n n C21 H28 SMA sing 1019 n n C22 H29 SMA sing 1020 n n C22 H30 SMA sing 1021 n n C22 H31 SMA sing 1022 n n C23 H32 SMA sing 1023 n n C23 H33 SMA sing 1024 n n C23 H34 SMA sing 1025 n n C24 H35 SMA sing 1026 n n C24 H36 SMA sing 1027 n n C24 H37 SMA sing 1028 n n C25 H38 SMA sing 1029 n n C25 H39 SMA sing 1030 n n C25 H40 SMA sing 1031 n n C26 H41 SMA sing 1032 n n C26 H42 SMA sing 1033 n n C26 H43 SMA sing 1034 n n O8 H44 SMA sing 1035 n n # _atom_sites.entry_id 4PV1 _atom_sites.fract_transf_matrix[1][1] 0.006286 _atom_sites.fract_transf_matrix[1][2] 0.003629 _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] 0.002768 _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 I 9 MYS A 1 301 301 MYS MYS . J 10 CD A 1 302 302 CD CD . K 11 HEC A 1 303 303 HEC HEM . L 11 HEC A 1 304 304 HEC HEM . M 11 HEC A 1 305 305 HEC HEM . N 12 UMQ A 1 306 306 UMQ UMQ . O 12 UMQ A 1 307 307 UMQ UMQ . P 13 SMA A 1 308 308 SMA SMA . Q 14 7PH A 1 309 309 7PH 7PH . R 15 8K6 B 1 201 201 8K6 8K6 . S 10 CD B 1 202 202 CD CD . T 12 UMQ B 1 203 203 UMQ UMQ . U 16 CLA B 1 204 204 CLA CLA . V 17 OPC B 1 205 205 OPC OPC . W 11 HEC C 1 301 301 HEC HEM . X 18 FES D 1 201 201 FES FES . Y 19 SQD D 1 202 202 SQD SQD . Z 17 OPC D 1 203 203 OPC OPC . AA 17 OPC E 1 101 101 OPC OPC . BA 20 BCR G 1 101 101 BCR BCR . CA 21 HOH A 1 401 401 HOH HOH . CA 21 HOH A 2 402 402 HOH HOH . CA 21 HOH A 3 403 403 HOH HOH . CA 21 HOH A 4 404 404 HOH HOH . CA 21 HOH A 5 405 405 HOH HOH . CA 21 HOH A 6 406 406 HOH HOH . CA 21 HOH A 7 407 407 HOH HOH . CA 21 HOH A 8 408 408 HOH HOH . DA 21 HOH B 1 301 301 HOH HOH . DA 21 HOH B 2 302 302 HOH HOH . DA 21 HOH B 3 303 303 HOH HOH . DA 21 HOH B 4 304 304 HOH HOH . DA 21 HOH B 5 305 305 HOH HOH . EA 21 HOH C 1 1101 1101 HOH HOH . EA 21 HOH C 2 1102 1102 HOH HOH . FA 21 HOH G 1 201 201 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 C2 SMA . . . P 13 -29.02 82.603 18.683 1 99.75 ? C2 SMA 308 A 1 HETATM 2 C C3 SMA . . . P 13 -28.052 83.259 19.555 1 103.51 ? C3 SMA 308 A 1 HETATM 3 C C3M SMA . . . P 13 -28.373 83.465 21.047 1 103.34 ? C3M SMA 308 A 1 HETATM 4 C C4 SMA . . . P 13 -26.802 83.718 19.02 1 97.93 ? C4 SMA 308 A 1 HETATM 5 C C4A SMA . . . P 13 -26.582 83.712 17.516 1 97.36 ? C4A SMA 308 A 1 HETATM 6 C C5 SMA . . . P 13 -25.444 84.342 16.916 0.38 110.94 ? C5 SMA 308 A 1 HETATM 7 C C5M SMA . . . P 13 -23.301 84.223 17.938 1 139.33 ? C5M SMA 308 A 1 HETATM 8 C C6 SMA . . . P 13 -25.254 84.327 15.536 1 97.41 ? C6 SMA 308 A 1 HETATM 9 C C7 SMA . . . P 13 -26.201 83.683 14.719 1 97.45 ? C7 SMA 308 A 1 HETATM 10 C C7M SMA . . . P 13 -26.533 84.704 12.608 1 105.68 ? C7M SMA 308 A 1 HETATM 11 C C8 SMA . . . P 13 -27.333 83.054 15.291 0.44 88.95 ? C8 SMA 308 A 1 HETATM 12 C C8A SMA . . . P 13 -27.518 83.071 16.69 0.38 91.16 ? C8A SMA 308 A 1 HETATM 13 C C9 SMA . . . P 13 -30.369 82.114 19.259 1 103.92 ? C9 SMA 308 A 1 HETATM 14 C C10 SMA . . . P 13 -31.319 83.341 19.355 1 121.97 ? C10 SMA 308 A 1 HETATM 15 C C11 SMA . . . P 13 -32.67 82.943 20.012 1 124.75 ? C11 SMA 308 A 1 HETATM 16 C C12 SMA . . . P 13 -33.338 84.173 20.605 0 129.91 ? C12 SMA 308 A 1 HETATM 17 C C13 SMA . . . P 13 -33.256 85.391 19.642 1 144.57 ? C13 SMA 308 A 1 HETATM 18 C C14 SMA . . . P 13 -34.544 86.148 19.69 0 142.48 ? C14 SMA 308 A 1 HETATM 19 C C15 SMA . . . P 13 -34.317 87.585 19.112 1 107.61 ? C15 SMA 308 A 1 HETATM 20 C C16 SMA . . . P 13 -35.207 88.113 18.22 1 109.93 ? C16 SMA 308 A 1 HETATM 21 C C17 SMA . . . P 13 -36.361 89.017 18.727 1 113.84 ? C17 SMA 308 A 1 HETATM 22 C C18 SMA . . . P 13 -36.251 90.371 18.659 1 110.57 ? C18 SMA 308 A 1 HETATM 23 C C19 SMA . . . P 13 -37.306 91.273 19.35 0.52 162.23 ? C19 SMA 308 A 1 HETATM 24 C C20 SMA . . . P 13 -38.464 91.602 18.698 1 157.35 ? C20 SMA 308 A 1 HETATM 25 C C21 SMA . . . P 13 -39.511 92.512 19.392 1 120.76 ? C21 SMA 308 A 1 HETATM 26 C C22 SMA . . . P 13 -33.555 82.353 18.975 1 126.16 ? C22 SMA 308 A 1 HETATM 27 C C23 SMA . . . P 13 -33.688 84.261 22.942 1 119.72 ? C23 SMA 308 A 1 HETATM 28 C C24 SMA . . . P 13 -32.16 86.289 20.073 1 138.32 ? C24 SMA 308 A 1 HETATM 29 C C25 SMA . . . P 13 -36.363 86.534 21.136 1 143.21 ? C25 SMA 308 A 1 HETATM 30 C C26 SMA . . . P 13 -37.036 91.824 20.677 0.99 166.23 ? C26 SMA 308 A 1 HETATM 31 O O1 SMA . . . P 13 -28.712 82.412 17.277 0.7 91.16 ? O1 SMA 308 A 1 HETATM 32 O O4 SMA . . . P 13 -25.907 84.12 19.818 0.63 100.85 ? O4 SMA 308 A 1 HETATM 33 O O5 SMA . . . P 13 -24.51 84.979 17.765 0.8 129.94 ? O5 SMA 308 A 1 HETATM 34 O O7 SMA . . . P 13 -26.284 83.507 13.318 0.49 108.2 ? O7 SMA 308 A 1 HETATM 35 O O8 SMA . . . P 13 -28.279 82.403 14.462 1 77.47 ? O8 SMA 308 A 1 HETATM 36 O O12 SMA . . . P 13 -32.798 84.495 21.83 0.51 133.5 ? O12 SMA 308 A 1 HETATM 37 O O14 SMA . . . P 13 -34.977 86.239 21.004 0 140.55 ? O14 SMA 308 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 37 #