data_2E76 # _model_server_result.job_id XSkYxVgl86anye2SqtS2qA _model_server_result.datetime_utc '2024-11-22 05:58:20' _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 2e76 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":1201}' # _entry.id 2E76 # _exptl.entry_id 2E76 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 418.566 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 8-HYDROXY-5,7-DIMETHOXY-3-METHYL-2-TRIDECYL-4H-CHROMEN-4-ONE _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 120 _cell.entry_id 2E76 _cell.length_a 157.227 _cell.length_b 157.227 _cell.length_c 363.295 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2E76 _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,PQS _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 _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 -78.6135 136.162576 60.549167 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 14 T N N ? 14 U N 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 108 D CYS 108 1_555 D SG CYS 126 D CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? disulf ? disulf2 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A SG CYS 35 A CYS 35 1_555 L CAB HEM . A HEM 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.814 ? covale ? covale2 C SG CYS 25 C CYS 25 1_555 V CAC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc1 A OE2 GLU 75 A GLU 75 1_555 I CD CD . A CD 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc2 A NE2 HIS 86 A HIS 86 1_555 J FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.73 ? metalc ? metalc3 A NE2 HIS 100 A HIS 100 1_555 K FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc4 A NE2 HIS 187 A HIS 187 1_555 J FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? metalc ? metalc5 A NE2 HIS 202 A HIS 202 1_555 K FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.915 ? metalc ? metalc6 I CD CD . A CD 216 1_555 C NE2 HIS 143 C HIS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc7 I CD CD . A CD 216 1_555 BA O HOH . C HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? metalc ? metalc8 L FE HEM . A HEM 303 1_555 Z O HOH . A HOH 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc9 L FE HEM . A HEM 303 1_555 U OBD TDS . B TDS 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.495 ? metalc ? metalc10 R MG CLA . B CLA 201 1_555 AA O HOH . B HOH 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.898 ? metalc ? metalc11 C N TYR 1 C TYR 1 1_555 V FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc12 C NE2 HIS 26 C HIS 26 1_555 V FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc13 D SG CYS 108 D CYS 108 1_555 W FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc14 D ND1 HIS 110 D HIS 110 1_555 W FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc15 D SG CYS 126 D CYS 126 1_555 W FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc16 D ND1 HIS 129 D HIS 129 1_555 W FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.748 ? # _chem_comp.formula 'C25 H38 O5' _chem_comp.formula_weight 418.566 _chem_comp.id TDS _chem_comp.mon_nstd_flag . _chem_comp.name 8-HYDROXY-5,7-DIMETHOXY-3-METHYL-2-TRIDECYL-4H-CHROMEN-4-ONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms TRIDECYL-STIGMATELLIN # 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 CBC CBB TDS sing 891 n n CBC HBC1 TDS sing 892 n n CBC HBC2 TDS sing 893 n n CBC HBC3 TDS sing 894 n n CBB CBA TDS sing 895 n n CBB HBB1 TDS sing 896 n n CBB HBB2 TDS sing 897 n n CBA CAZ TDS sing 898 n n CBA HBA1 TDS sing 899 n n CBA HBA2 TDS sing 900 n n CAZ CAY TDS sing 901 n n CAZ HAZ1 TDS sing 902 n n CAZ HAZ2 TDS sing 903 n n CAY CAX TDS sing 904 n n CAY HAY1 TDS sing 905 n n CAY HAY2 TDS sing 906 n n CAX CAW TDS sing 907 n n CAX HAX1 TDS sing 908 n n CAX HAX2 TDS sing 909 n n CAW CAV TDS sing 910 n n CAW HAW1 TDS sing 911 n n CAW HAW2 TDS sing 912 n n CAV CAU TDS sing 913 n n CAV HAV1 TDS sing 914 n n CAV HAV2 TDS sing 915 n n CAU CAT TDS sing 916 n n CAU HAU1 TDS sing 917 n n CAU HAU2 TDS sing 918 n n CAT CAS TDS sing 919 n n CAT HAT1 TDS sing 920 n n CAT HAT2 TDS sing 921 n n CAS CAR TDS sing 922 n n CAS HAS1 TDS sing 923 n n CAS HAS2 TDS sing 924 n n CAR CAQ TDS sing 925 n n CAR HAR1 TDS sing 926 n n CAR HAR2 TDS sing 927 n n CAQ CAP TDS sing 928 n n CAQ HAQ1 TDS sing 929 n n CAQ HAQ2 TDS sing 930 n n CAP OAO TDS sing 931 n y CAP CAH TDS doub 932 n y OAO CAN TDS sing 933 n y CAH CAI TDS sing 934 n n CAH CAG TDS sing 935 n y CAI HAI1 TDS sing 936 n n CAI HAI2 TDS sing 937 n n CAI HAI3 TDS sing 938 n n CAG OAC TDS doub 939 n n CAG CAF TDS sing 940 n y CAF CAN TDS doub 941 n y CAF CAE TDS sing 942 n y CAN CAM TDS sing 943 n y CAM OBD TDS sing 944 n n CAM CAL TDS doub 945 n y OBD HBD TDS sing 946 n n CAL OAK TDS sing 947 n n CAL CAD TDS sing 948 n y OAK CAJ TDS sing 949 n n CAJ HAJ1 TDS sing 950 n n CAJ HAJ2 TDS sing 951 n n CAJ HAJ3 TDS sing 952 n n CAD CAE TDS doub 953 n y CAD HAD TDS sing 954 n n CAE OAB TDS sing 955 n n OAB CAA TDS sing 956 n n CAA HAA1 TDS sing 957 n n CAA HAA2 TDS sing 958 n n CAA HAA3 TDS sing 959 n n # _atom_sites.entry_id 2E76 _atom_sites.fract_transf_matrix[1][1] 0.00636 _atom_sites.fract_transf_matrix[1][2] 0.003672 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007344 _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] 0.002753 _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 CD A 1 216 1 CD CD . J 10 HEM A 1 301 301 HEM HEM . K 10 HEM A 1 302 302 HEM HEM . L 10 HEM A 1 303 303 HEM HEM . M 11 OPC A 1 1002 1002 OPC OPC . N 12 UMQ A 1 1101 1101 UMQ UMQ . O 12 UMQ A 1 1102 1102 UMQ UMQ . P 12 UMQ A 1 1103 1103 UMQ UMQ . Q 12 UMQ A 1 1104 1104 UMQ UMQ . R 13 CLA B 1 201 201 CLA CLA . S 11 OPC B 1 1001 1001 OPC OPC . T 14 TDS B 1 1201 1201 TDS TDS . U 14 TDS B 1 1202 1202 TDS TDS . V 10 HEM C 1 301 301 HEM HEM . W 15 FES D 1 200 200 FES FES . X 16 SQD D 1 201 11 SQD SQD . Y 17 BCR G 1 101 101 BCR BCR . Z 18 HOH A 1 1105 3 HOH HOH . Z 18 HOH A 2 1106 401 HOH HOH . AA 18 HOH B 1 211 211 HOH HOH . AA 18 HOH B 2 212 212 HOH HOH . BA 18 HOH C 1 302 2 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 CBC TDS . . . T 14 -31.224 48.857 20.485 1 82.46 ? CBC TDS 1201 B 1 HETATM 2 C CBB TDS . . . T 14 -32.339 49.449 20.022 1 107.11 ? CBB TDS 1201 B 1 HETATM 3 C CBA TDS . . . T 14 -33.047 49.072 18.694 1 117.64 ? CBA TDS 1201 B 1 HETATM 4 C CAZ TDS . . . T 14 -34.439 49.752 18.442 1 104.16 ? CAZ TDS 1201 B 1 HETATM 5 C CAY TDS . . . T 14 -35.003 49.635 16.975 1 113.28 ? CAY TDS 1201 B 1 HETATM 6 C CAX TDS . . . T 14 -36.561 49.619 16.675 1 69.94 ? CAX TDS 1201 B 1 HETATM 7 C CAW TDS . . . T 14 -37.013 50.589 15.543 1 46.78 ? CAW TDS 1201 B 1 HETATM 8 C CAV TDS . . . T 14 -38.098 50.419 14.421 1 50.03 ? CAV TDS 1201 B 1 HETATM 9 C CAU TDS . . . T 14 -37.426 51.372 13.39 1 79.96 ? CAU TDS 1201 B 1 HETATM 10 C CAT TDS . . . T 14 -37.998 52.583 12.6 1 83.93 ? CAT TDS 1201 B 1 HETATM 11 C CAS TDS . . . T 14 -38.671 51.786 11.544 1 83.05 ? CAS TDS 1201 B 1 HETATM 12 C CAR TDS . . . T 14 -39.89 51.901 11.162 1 78.08 ? CAR TDS 1201 B 1 HETATM 13 C CAQ TDS . . . T 14 -40.017 50.999 10.272 1 74.04 ? CAQ TDS 1201 B 1 HETATM 14 C CAP TDS . . . T 14 -41.304 50.871 9.683 1 88.41 ? CAP TDS 1201 B 1 HETATM 15 O OAO TDS . . . T 14 -42.313 51.719 10.065 1 76.77 ? OAO TDS 1201 B 1 HETATM 16 C CAH TDS . . . T 14 -41.418 49.849 8.756 1 97.06 ? CAH TDS 1201 B 1 HETATM 17 C CAI TDS . . . T 14 -40.25 48.958 8.432 1 84.83 ? CAI TDS 1201 B 1 HETATM 18 C CAG TDS . . . T 14 -42.631 49.635 8.145 1 101.63 ? CAG TDS 1201 B 1 HETATM 19 O OAC TDS . . . T 14 -42.783 48.718 7.304 1 96.66 ? OAC TDS 1201 B 1 HETATM 20 C CAF TDS . . . T 14 -43.67 50.486 8.47 1 94.43 ? CAF TDS 1201 B 1 HETATM 21 C CAN TDS . . . T 14 -43.527 51.514 9.458 1 89.99 ? CAN TDS 1201 B 1 HETATM 22 C CAM TDS . . . T 14 -44.637 52.489 9.739 1 90.39 ? CAM TDS 1201 B 1 HETATM 23 O OBD TDS . . . T 14 -44.549 53.24 10.977 1 76.14 ? OBD TDS 1201 B 1 HETATM 24 C CAL TDS . . . T 14 -45.952 51.973 9.158 1 95.49 ? CAL TDS 1201 B 1 HETATM 25 O OAK TDS . . . T 14 -47.278 52.447 9.467 1 95.42 ? OAK TDS 1201 B 1 HETATM 26 C CAJ TDS . . . T 14 -47.405 53.766 10.008 1 127.35 ? CAJ TDS 1201 B 1 HETATM 27 C CAD TDS . . . T 14 -45.706 51.089 8.339 1 82.54 ? CAD TDS 1201 B 1 HETATM 28 C CAE TDS . . . T 14 -44.996 50.241 7.832 1 79.93 ? CAE TDS 1201 B 1 HETATM 29 O OAB TDS . . . T 14 -45.355 49.058 7.042 1 64.53 ? OAB TDS 1201 B 1 HETATM 30 C CAA TDS . . . T 14 -46.083 47.908 7.489 1 46.65 ? CAA TDS 1201 B 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 344 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 30 #