data_7VY9 # _model_server_result.job_id p1uymUxnA4rf-e_ksIItLA _model_server_result.datetime_utc '2024-12-21 15:50:25' _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 7vy9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"VA","auth_seq_id":101}' # _entry.id 7VY9 # _exptl.entry_id 7VY9 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 1464.043 _entity.id 31 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CARDIOLIPIN _entity.pdbx_number_of_molecules 9 _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 90 _cell.entry_id 7VY9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7VY9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 29-meric _pdbx_struct_assembly.oligomeric_count 29 _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 _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 ? 31 EA N N ? 31 FA N N ? 31 IA N N ? 31 LA N N ? 31 PA N N ? 31 RA N N ? 31 SA N N ? 31 VA N N ? 31 AB 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 17 V CYS 18 1_555 D SG CYS 74 V CYS 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 D SG CYS 94 V CYS 95 1_555 D SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 L SG CYS 112 d CYS 113 1_555 L SG CYS 124 d CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 P SG CYS 32 h CYS 33 1_555 P SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 AA SG CYS 45 u CYS 46 1_555 AA SG CYS 55 u CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 AA SG CYS 77 u CYS 78 1_555 AA SG CYS 109 u CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 AA SG CYS 87 u CYS 88 1_555 AA SG CYS 99 u CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C81 H156 O17 P2 -2' _chem_comp.formula_weight 1464.043 _chem_comp.id CDL _chem_comp.mon_nstd_flag . _chem_comp.name CARDIOLIPIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "DIPHOSPHATIDYL GLYCEROL;BIS-(1,2-DIACYL-SN-GLYCERO-3-PHOSPHO)-1',3'-SN-GLYCEROL" # _atom_sites.entry_id 7VY9 _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 DA 30 PEE Q 1 101 718 PEE PEE . EA 31 CDL V 1 201 201 CDL CDL . FA 31 CDL V 1 202 203 CDL CDL . GA 30 PEE W 1 201 202 PEE PEE . HA 32 8Q1 X 1 201 201 8Q1 8Q1 . IA 31 CDL a 1 201 201 CDL CDL . JA 33 PLX a 1 202 101 PLX PLX . KA 33 PLX g 1 201 705 PLX PLX . LA 31 CDL g 1 202 714 CDL CDL . MA 30 PEE j 1 201 101 PEE PEE . NA 33 PLX j 1 202 202 PLX PLX . OA 33 PLX j 1 203 203 PLX PLX . PA 31 CDL k 1 101 101 CDL CDL . QA 30 PEE l 1 701 207 PEE PEE . RA 31 CDL l 1 702 712 CDL CDL . SA 31 CDL l 1 703 713 CDL CDL . TA 30 PEE l 1 704 719 PEE PEE . UA 30 PEE l 1 705 720 PEE PEE . VA 31 CDL n 1 101 102 CDL CDL . WA 30 PEE r 1 501 202 PEE PEE . XA 33 PLX r 1 502 205 PLX PLX . YA 33 PLX r 1 503 201 PLX PLX . ZA 30 PEE s 1 401 201 PEE PEE . AB 31 CDL s 1 402 201 CDL CDL . BB 30 PEE s 1 403 401 PEE PEE . CB 34 UQ s 1 404 402 UQ UQ . DB 35 ADP w 1 401 401 ADP ADP . # 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 CDL . . . VA 31 204.398 144.393 101.222 1 60.76 ? C1 CDL 101 n 1 HETATM 2 O O1 CDL . . . VA 31 205.36 144.66 102.199 1 55.56 ? O1 CDL 101 n 1 HETATM 3 C CA2 CDL . . . VA 31 204.093 142.872 101.248 1 57.2 ? CA2 CDL 101 n 1 HETATM 4 O OA2 CDL . . . VA 31 205.022 142.238 102.114 1 62.24 ? OA2 CDL 101 n 1 HETATM 5 P PA1 CDL . . . VA 31 204.986 140.585 102.232 1 68.55 ? PA1 CDL 101 n 1 HETATM 6 O OA3 CDL . . . VA 31 203.591 140.093 101.936 1 54.51 ? OA3 CDL 101 n 1 HETATM 7 O OA4 CDL . . . VA 31 205.944 139.985 101.248 1 57.54 ? OA4 CDL 101 n 1 HETATM 8 O OA5 CDL . . . VA 31 205.418 140.136 103.773 1 58.64 ? OA5 CDL 101 n 1 HETATM 9 C CA3 CDL . . . VA 31 205.092 138.831 104.22 1 51.37 ? CA3 CDL 101 n 1 HETATM 10 C CA4 CDL . . . VA 31 204.998 138.859 105.738 1 52.62 ? CA4 CDL 101 n 1 HETATM 11 O OA6 CDL . . . VA 31 205.185 140.171 106.195 1 57.22 ? OA6 CDL 101 n 1 HETATM 12 C CA5 CDL . . . VA 31 204.174 140.619 107.09 1 53.51 ? CA5 CDL 101 n 1 HETATM 13 O OA7 CDL . . . VA 31 203.393 139.84 107.538 1 56.18 ? OA7 CDL 101 n 1 HETATM 14 C C11 CDL . . . VA 31 204.089 142.127 107.483 1 52.14 ? C11 CDL 101 n 1 HETATM 15 C C12 CDL . . . VA 31 203.751 142.332 108.965 1 57.29 ? C12 CDL 101 n 1 HETATM 16 C C13 CDL . . . VA 31 202.246 142.34 109.232 1 52.26 ? C13 CDL 101 n 1 HETATM 17 C CA6 CDL . . . VA 31 206.084 137.949 106.344 1 52.02 ? CA6 CDL 101 n 1 HETATM 18 O OA8 CDL . . . VA 31 206.388 138.442 107.634 1 62.32 ? OA8 CDL 101 n 1 HETATM 19 C CA7 CDL . . . VA 31 206.451 137.442 108.653 1 59.59 ? CA7 CDL 101 n 1 HETATM 20 O OA9 CDL . . . VA 31 206.234 136.31 108.389 1 56 ? OA9 CDL 101 n 1 HETATM 21 C C31 CDL . . . VA 31 206.798 137.846 110.099 1 53.05 ? C31 CDL 101 n 1 HETATM 22 C C32 CDL . . . VA 31 207.329 136.675 110.92 1 50.95 ? C32 CDL 101 n 1 HETATM 23 C CB2 CDL . . . VA 31 203.129 145.257 101.539 1 56.09 ? CB2 CDL 101 n 1 HETATM 24 O OB2 CDL . . . VA 31 202.091 144.379 101.955 1 56.39 ? OB2 CDL 101 n 1 HETATM 25 P PB2 CDL . . . VA 31 200.499 144.868 101.753 1 74.54 ? PB2 CDL 101 n 1 HETATM 26 O OB3 CDL . . . VA 31 200.463 146.132 100.916 1 58.37 ? OB3 CDL 101 n 1 HETATM 27 O OB4 CDL . . . VA 31 199.731 143.775 101.047 1 57.78 ? OB4 CDL 101 n 1 HETATM 28 O OB5 CDL . . . VA 31 199.803 145.164 103.249 1 53.22 ? OB5 CDL 101 n 1 HETATM 29 C CB3 CDL . . . VA 31 198.795 144.276 103.713 1 47.68 ? CB3 CDL 101 n 1 HETATM 30 C CB4 CDL . . . VA 31 197.557 145.099 104.092 1 48.88 ? CB4 CDL 101 n 1 HETATM 31 O OB6 CDL . . . VA 31 197.955 146.217 104.848 1 56.22 ? OB6 CDL 101 n 1 HETATM 32 C CB5 CDL . . . VA 31 197.171 147.38 104.611 1 52.18 ? CB5 CDL 101 n 1 HETATM 33 O OB7 CDL . . . VA 31 196.382 147.392 103.728 1 51.02 ? OB7 CDL 101 n 1 HETATM 34 C C51 CDL . . . VA 31 197.348 148.622 105.506 1 50.94 ? C51 CDL 101 n 1 HETATM 35 C C52 CDL . . . VA 31 196.228 148.751 106.553 1 49.59 ? C52 CDL 101 n 1 HETATM 36 C C53 CDL . . . VA 31 196.771 148.721 107.99 1 52.59 ? C53 CDL 101 n 1 HETATM 37 C C54 CDL . . . VA 31 196.003 149.679 108.925 1 51.45 ? C54 CDL 101 n 1 HETATM 38 C C55 CDL . . . VA 31 195.251 148.935 110.04 1 54.69 ? C55 CDL 101 n 1 HETATM 39 C C56 CDL . . . VA 31 194.136 149.801 110.687 1 51.65 ? C56 CDL 101 n 1 HETATM 40 C C57 CDL . . . VA 31 194.535 150.404 112.052 1 49.94 ? C57 CDL 101 n 1 HETATM 41 C C58 CDL . . . VA 31 195.953 149.985 112.516 1 52.4 ? C58 CDL 101 n 1 HETATM 42 C C59 CDL . . . VA 31 196.163 150.182 114.037 1 53.2 ? C59 CDL 101 n 1 HETATM 43 C C60 CDL . . . VA 31 196.59 151.62 114.382 1 54.98 ? C60 CDL 101 n 1 HETATM 44 C CB6 CDL . . . VA 31 196.601 144.242 104.914 1 49.51 ? CB6 CDL 101 n 1 HETATM 45 O OB8 CDL . . . VA 31 197.357 143.484 105.855 1 48.23 ? OB8 CDL 101 n 1 HETATM 46 C CB7 CDL . . . VA 31 196.926 143.642 107.195 1 51.6 ? CB7 CDL 101 n 1 HETATM 47 O OB9 CDL . . . VA 31 195.802 143.943 107.425 1 49.81 ? OB9 CDL 101 n 1 HETATM 48 C C71 CDL . . . VA 31 197.919 143.407 108.358 1 49.15 ? C71 CDL 101 n 1 HETATM 49 C C72 CDL . . . VA 31 198.596 144.701 108.827 1 47.88 ? C72 CDL 101 n 1 HETATM 50 C C73 CDL . . . VA 31 198.777 144.739 110.352 1 49.24 ? C73 CDL 101 n 1 HETATM 51 C C74 CDL . . . VA 31 197.896 145.804 111.023 1 52.52 ? C74 CDL 101 n 1 HETATM 52 C C75 CDL . . . VA 31 198.652 147.142 111.25 1 52.87 ? C75 CDL 101 n 1 HETATM 53 C C76 CDL . . . VA 31 198.778 147.509 112.752 1 54.57 ? C76 CDL 101 n 1 HETATM 54 C C77 CDL . . . VA 31 198.877 146.253 113.668 1 55.28 ? C77 CDL 101 n 1 HETATM 55 C C78 CDL . . . VA 31 200.282 146.074 114.259 1 54.65 ? C78 CDL 101 n 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 49 _model_server_stats.query_time_ms 353 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 55 #