data_7VZG # _model_server_result.job_id Pbm9QpbFX8WdntWQj3kgeA _model_server_result.datetime_utc '2024-12-26 16:43:49' _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 7vzg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"TB","auth_seq_id":919}' # _entry.id 7VZG # _exptl.entry_id 7VZG _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 663.906 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2~{R})-2-[2-(methylamino)ethoxy-oxidanyl-phosphoryl]oxy-2-(13-methyltetradecanoyloxy)ethyl] 13-methyltetradecanoate' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetradecameric _pdbx_struct_assembly.oligomeric_count 14 _pdbx_struct_assembly.details author_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,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 ? _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 ? 15 CA N N ? 15 DA N N ? 15 EA N N ? 15 SB N N ? 15 TB N N ? 15 UB 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 covale ? covale1 B SG CYS 111 C CYS 125 1_555 VA CAB HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? covale ? covale2 H SG CYS 6 c CYS 21 1_555 LC C11 UNL . c UNL 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.569 ? covale ? covale3 H SG CYS 74 c CYS 89 1_555 KC CAB HEC . c HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? covale ? covale4 H SG CYS 77 c CYS 92 1_555 KC CAC HEC . c HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc1 A OE1 GLU 259 A GLU 266 1_555 T MG BCL . A BCL 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc2 A SG CYS 698 A CYS 705 1_555 RB FE1 SF4 . a SF4 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc3 A OD1 ASP 725 A ASP 732 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc4 A OD2 ASP 725 A ASP 732 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc5 A OE1 GLU 759 A GLU 766 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc6 A NE2 HIS 777 A HIS 784 1_555 O ZN 2GO . A 2GO 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc7 A O TYR 849 A TYR 856 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.882 ? metalc ? metalc8 A OD1 ASP 852 A ASP 859 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? metalc ? metalc9 A O GLY 853 A GLY 860 1_555 BA CA CA . A CA 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc10 BA CA CA . A CA 914 1_555 RC O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? metalc ? metalc11 RC O HOH . A HOH 1002 1_555 BB MG CLA . a CLA 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc12 B NE2 HIS 115 C HIS 129 1_555 VA FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc13 G OE1 GLU 259 a GLU 266 1_555 IB MG BCL . a BCL 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc14 G SG CYS 689 a CYS 696 1_555 RB FE3 SF4 . a SF4 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc15 G SG CYS 698 a CYS 705 1_555 RB FE2 SF4 . a SF4 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc16 G OD1 ASP 725 a ASP 732 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.791 ? metalc ? metalc17 G OD2 ASP 725 a ASP 732 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.137 ? metalc ? metalc18 G OE1 GLU 759 a GLU 766 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc19 G NE2 HIS 777 a HIS 784 1_555 DB ZN 2GO . a 2GO 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc20 G O TYR 849 a TYR 856 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc21 G OD1 ASP 852 a ASP 859 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc22 G O GLY 853 a GLY 860 1_555 QB CA CA . a CA 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc23 MB MG CLA . a CLA 912 1_555 SC O HOH . a HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc24 QB CA CA . a CA 916 1_555 SC O HOH . a HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc25 H NE2 HIS 78 c HIS 93 1_555 KC FE HEC . c HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc26 H SD MET 119 c MET 134 1_555 KC FE HEC . c HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc27 M SG CYS 20 B CYS 93 1_555 QC FE2 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc28 M SG CYS 49 B CYS 122 1_555 QC FE4 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc29 M N CYS 52 B CYS 125 1_555 QC FE1 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc30 M SG CYS 52 B CYS 125 1_555 QC FE1 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? # _chem_comp.formula 'C35 H70 N O8 P' _chem_comp.formula_weight 663.906 _chem_comp.id 85I _chem_comp.mon_nstd_flag . _chem_comp.name '[(2~{R})-2-[2-(methylamino)ethoxy-oxidanyl-phosphoryl]oxy-2-(13-methyltetradecanoyloxy)ethyl] 13-methyltetradecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7VZG _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 O 10 2GO A 1 901 901 2GO 2GO . P 11 BCL A 1 902 902 BCL BCL . Q 11 BCL A 1 903 903 BCL BCL . R 11 BCL A 1 904 904 BCL BCL . S 11 BCL A 1 905 905 BCL BCL . T 11 BCL A 1 906 906 BCL BCL . U 11 BCL A 1 907 907 BCL BCL . V 11 BCL A 1 908 908 BCL BCL . W 11 BCL A 1 909 909 BCL BCL . X 12 CLA A 1 910 910 CLA CLA . Y 12 CLA A 1 911 911 CLA CLA . Z 12 CLA A 1 912 912 CLA CLA . AA 13 LYC A 1 913 913 LYC LYC . BA 14 CA A 1 914 914 CA CA . CA 15 85I A 1 915 915 85I 85I . DA 15 85I A 1 916 916 85I 85I . EA 15 85I A 1 917 917 85I 85I . FA 16 UNL A 1 918 918 UNL UNL . GA 16 UNL A 1 919 919 UNL UNL . HA 16 UNL A 1 920 920 UNL UNL . IA 16 UNL A 1 921 921 UNL UNL . JA 16 UNL A 1 922 922 UNL UNL . KA 16 UNL A 1 923 923 UNL UNL . LA 16 UNL A 1 924 924 UNL UNL . MA 16 UNL A 1 925 925 UNL UNL . NA 16 UNL A 1 926 926 UNL UNL . OA 16 UNL A 1 927 927 UNL UNL . PA 16 UNL A 1 928 928 UNL UNL . QA 16 UNL A 1 929 929 UNL UNL . RA 16 UNL A 1 930 930 UNL UNL . SA 12 CLA A 1 931 931 CLA CLA . TA 17 85N A 1 932 932 85N 85N . UA 12 CLA A 1 933 301 CLA CLA . VA 18 HEC C 1 301 302 HEC HEC . WA 16 UNL C 1 302 303 UNL UNL . XA 19 84Q E 1 101 101 84Q 84Q . YA 16 UNL E 1 102 102 UNL UNL . ZA 16 UNL E 1 103 103 UNL UNL . AB 17 85N G 1 101 101 85N 85N . BB 12 CLA a 1 901 901 CLA CLA . CB 17 85N a 1 902 902 85N 85N . DB 10 2GO a 1 903 903 2GO 2GO . EB 11 BCL a 1 904 904 BCL BCL . FB 11 BCL a 1 905 905 BCL BCL . GB 11 BCL a 1 906 906 BCL BCL . HB 11 BCL a 1 907 907 BCL BCL . IB 11 BCL a 1 908 908 BCL BCL . JB 11 BCL a 1 909 909 BCL BCL . KB 11 BCL a 1 910 910 BCL BCL . LB 11 BCL a 1 911 911 BCL BCL . MB 12 CLA a 1 912 912 CLA CLA . NB 12 CLA a 1 913 913 CLA CLA . OB 12 CLA a 1 914 914 CLA CLA . PB 12 CLA a 1 915 915 CLA CLA . QB 14 CA a 1 916 916 CA CA . RB 20 SF4 a 1 917 917 SF4 SF4 . SB 15 85I a 1 918 918 85I 85I . TB 15 85I a 1 919 919 85I 85I . UB 15 85I a 1 920 920 85I 85I . VB 19 84Q a 1 921 921 84Q 84Q . WB 16 UNL a 1 922 922 UNL UNL . XB 16 UNL a 1 923 923 UNL UNL . YB 16 UNL a 1 924 924 UNL UNL . ZB 16 UNL a 1 925 925 UNL UNL . AC 16 UNL a 1 926 926 UNL UNL . BC 16 UNL a 1 927 927 UNL UNL . CC 16 UNL a 1 928 928 UNL UNL . DC 16 UNL a 1 929 929 UNL UNL . EC 16 UNL a 1 930 930 UNL UNL . FC 16 UNL a 1 931 931 UNL UNL . GC 16 UNL a 1 932 932 UNL UNL . HC 16 UNL a 1 933 933 UNL UNL . IC 16 UNL a 1 934 934 UNL UNL . JC 13 LYC c 1 201 201 LYC LYC . KC 18 HEC c 1 202 202 HEC HEC . LC 16 UNL c 1 203 203 UNL UNL . MC 16 UNL e 1 101 101 UNL UNL . NC 16 UNL e 1 102 102 UNL UNL . OC 17 85N g 1 101 101 85N 85N . PC 20 SF4 B 1 201 201 SF4 SF4 . QC 20 SF4 B 1 202 202 SF4 SF4 . RC 21 HOH A 1 1001 1001 HOH HOH . RC 21 HOH A 2 1002 1002 HOH HOH . RC 21 HOH A 3 1003 1003 HOH HOH . SC 21 HOH a 1 1001 1001 HOH HOH . SC 21 HOH a 2 1002 1002 HOH HOH . SC 21 HOH a 3 1003 1003 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 C1 85I . . . TB 15 137.868 101.452 119.731 1 20 ? C1 85I 919 a 1 HETATM 2 O O1 85I . . . TB 15 133.933 100.91 119.189 1 20 ? O1 85I 919 a 1 HETATM 3 O O2 85I . . . TB 15 134.015 100.124 121.614 1 20 ? O2 85I 919 a 1 HETATM 4 C C2 85I . . . TB 15 136.487 102.017 119.586 1 20 ? C2 85I 919 a 1 HETATM 5 C C3 85I . . . TB 15 133.081 103.658 120.93 1 20 ? C3 85I 919 a 1 HETATM 6 C C4 85I . . . TB 15 133.511 104.745 120.123 1 20 ? C4 85I 919 a 1 HETATM 7 C C5 85I . . . TB 15 133.148 107.022 119.568 1 20 ? C5 85I 919 a 1 HETATM 8 C C6 85I . . . TB 15 134.393 106.843 118.751 1 20 ? C6 85I 919 a 1 HETATM 9 C C7 85I . . . TB 15 135.512 107.797 119.149 1 20 ? C7 85I 919 a 1 HETATM 10 C C8 85I . . . TB 15 136.805 107.543 118.39 1 20 ? C8 85I 919 a 1 HETATM 11 N N 85I . . . TB 15 138.518 101.275 118.407 1 20 ? N 85I 919 a 1 HETATM 12 C C 85I . . . TB 15 138.99 102.547 117.81 1 20 ? C 85I 919 a 1 HETATM 13 O O 85I . . . TB 15 135.697 101.73 120.767 1 20 ? O 85I 919 a 1 HETATM 14 C C9 85I . . . TB 15 137.96 107.097 119.272 1 20 ? C9 85I 919 a 1 HETATM 15 O O3 85I . . . TB 15 133.282 102.513 121.004 1 20 ? O3 85I 919 a 1 HETATM 16 O O4 85I . . . TB 15 133.029 106.06 120.485 1 20 ? O4 85I 919 a 1 HETATM 17 O O7 85I . . . TB 15 132.724 102.181 123.515 1 20 ? O7 85I 919 a 1 HETATM 18 C C20 85I . . . TB 15 132.922 103.367 123.511 1 20 ? C20 85I 919 a 1 HETATM 19 C C21 85I . . . TB 15 133.281 104.183 124.717 1 20 ? C21 85I 919 a 1 HETATM 20 C C22 85I . . . TB 15 133.084 103.432 126.028 1 20 ? C22 85I 919 a 1 HETATM 21 C C23 85I . . . TB 15 132.834 104.357 127.208 1 20 ? C23 85I 919 a 1 HETATM 22 C C24 85I . . . TB 15 133.926 104.317 128.266 1 20 ? C24 85I 919 a 1 HETATM 23 C C25 85I . . . TB 15 134.831 105.539 128.263 1 20 ? C25 85I 919 a 1 HETATM 24 C C26 85I . . . TB 15 134.385 106.638 129.215 1 20 ? C26 85I 919 a 1 HETATM 25 C C27 85I . . . TB 15 135.524 107.495 129.744 1 20 ? C27 85I 919 a 1 HETATM 26 C C28 85I . . . TB 15 135.328 108.986 129.521 1 20 ? C28 85I 919 a 1 HETATM 27 C C29 85I . . . TB 15 136.625 109.777 129.462 1 20 ? C29 85I 919 a 1 HETATM 28 C C30 85I . . . TB 15 136.464 111.249 129.809 1 20 ? C30 85I 919 a 1 HETATM 29 C C31 85I . . . TB 15 137.59 111.8 130.676 1 20 ? C31 85I 919 a 1 HETATM 30 C C32 85I . . . TB 15 137.991 113.24 130.399 1 20 ? C32 85I 919 a 1 HETATM 31 C C34 85I . . . TB 15 139.501 113.408 130.379 1 20 ? C34 85I 919 a 1 HETATM 32 C C33 85I . . . TB 15 137.36 114.2 131.393 1 20 ? C33 85I 919 a 1 HETATM 33 O O6 85I . . . TB 15 132.846 104.133 122.413 1 20 ? O6 85I 919 a 1 HETATM 34 P P 85I . . . TB 15 134.199 101.2 120.618 1 20 ? P 85I 919 a 1 HETATM 35 O O5 85I . . . TB 15 132.353 107.911 119.426 1 20 ? O5 85I 919 a 1 HETATM 36 C C10 85I . . . TB 15 138.656 105.834 118.786 1 20 ? C10 85I 919 a 1 HETATM 37 C C11 85I . . . TB 15 140.129 106.028 118.461 1 20 ? C11 85I 919 a 1 HETATM 38 C C12 85I . . . TB 15 140.44 105.997 116.973 1 20 ? C12 85I 919 a 1 HETATM 39 C C13 85I . . . TB 15 141.055 104.688 116.499 1 20 ? C13 85I 919 a 1 HETATM 40 C C14 85I . . . TB 15 142.331 104.864 115.691 1 20 ? C14 85I 919 a 1 HETATM 41 C C15 85I . . . TB 15 142.194 104.467 114.23 1 20 ? C15 85I 919 a 1 HETATM 42 C C16 85I . . . TB 15 143.233 103.451 113.771 1 20 ? C16 85I 919 a 1 HETATM 43 C C17 85I . . . TB 15 144.036 103.835 112.538 1 20 ? C17 85I 919 a 1 HETATM 44 C C19 85I . . . TB 15 144.116 102.691 111.542 1 20 ? C19 85I 919 a 1 HETATM 45 C C18 85I . . . TB 15 143.482 105.084 111.873 1 20 ? C18 85I 919 a 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 45 #