data_5XTD # _model_server_result.job_id bfrthBrLMnTVSmxNim3sjA _model_server_result.datetime_utc '2024-11-23 03:57:42' _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 5xtd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"OB","auth_seq_id":401}' # _entry.id 5XTD # _exptl.entry_id 5XTD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 1464.043 _entity.id 51 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CARDIOLIPIN _entity.pdbx_number_of_molecules 5 _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 5XTD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XTD _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 45-meric _pdbx_struct_assembly.oligomeric_count 45 _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 _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 ? 51 GB N N ? 51 OB N N ? 51 RB N N ? 51 SB N N ? 51 TB 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 T SG CYS 94 V CYS 95 1_555 T SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 AA SG CYS 111 c CYS 144 1_555 JA SG CYS 279 l CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf3 BA SG CYS 149 d CYS 149 1_555 CA SG CYS 88 e CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 FA SG CYS 32 h CYS 33 1_555 FA SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 FA SG CYS 42 h CYS 43 1_555 FA SG CYS 55 h CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 QA SG CYS 75 u CYS 78 1_555 QA SG CYS 107 u CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf7 RA SG CYS 69 v CYS 69 1_555 RA SG CYS 80 v CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc1 A NE2 GLN 355 A GLN 381 1_555 TA FE1 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc2 B N CYS 80 B CYS 114 1_555 VA FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc3 B N GLY 120 B GLY 154 1_555 WA FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc4 C SG CYS 32 C CYS 89 1_555 YA FE2 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc5 L NE2 HIS 95 M HIS 124 1_555 BB FE3 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc6 L SG CYS 108 M CYS 137 1_555 BB FE4 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? covale ? covale1 L SG CYS 147 M CYS 176 1_555 CB S3 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc7 L SG CYS 147 M CYS 176 1_555 CB FE1 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc8 L O CYS 150 M CYS 179 1_555 CB FE1 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc9 N SG CYS 141 O CYS 176 1_555 EB FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? metalc ? metalc10 N SG CYS 145 O CYS 180 1_555 EB FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? # _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 5XTD _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 TA 45 SF4 A 1 501 501 SF4 SF4 . UA 46 FMN A 1 502 502 FMN FMN . VA 45 SF4 B 1 301 301 SF4 SF4 . WA 45 SF4 B 1 302 302 SF4 SF4 . XA 47 PLX B 1 303 401 PLX PLX . YA 45 SF4 C 1 301 301 SF4 SF4 . ZA 48 8Q1 E 1 201 201 8Q1 8Q1 . AB 49 NDP J 1 401 401 NDP NDP . BB 45 SF4 M 1 801 801 SF4 SF4 . CB 45 SF4 M 1 802 802 SF4 SF4 . DB 50 FES M 1 803 803 FES FES . EB 50 FES O 1 301 301 FES FES . FB 47 PLX U 1 101 101 PLX PLX . GB 51 CDL V 1 201 201 CDL CDL . HB 52 PEE V 1 202 202 PEE PEE . IB 47 PLX V 1 203 203 PLX PLX . JB 52 PEE W 1 201 201 PEE PEE . KB 47 PLX b 1 201 201 PLX PLX . LB 47 PLX g 1 201 201 PLX PLX . MB 47 PLX g 1 202 202 PLX PLX . NB 47 PLX g 1 203 203 PLX PLX . OB 51 CDL i 1 401 401 CDL CDL . PB 52 PEE l 1 701 701 PEE PEE . QB 52 PEE l 1 702 702 PEE PEE . RB 51 CDL l 1 703 703 CDL CDL . SB 51 CDL l 1 704 704 CDL CDL . TB 51 CDL n 1 101 101 CDL CDL . UB 48 8Q1 p 1 201 201 8Q1 8Q1 . VB 47 PLX r 1 501 501 PLX PLX . WB 47 PLX r 1 502 502 PLX PLX . # 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 . . . OB 51 300.424 206.832 255.665 1 37.07 ? C1 CDL 401 i 1 HETATM 2 O O1 CDL . . . OB 51 300.002 206.034 254.566 1 39.14 ? O1 CDL 401 i 1 HETATM 3 C CA2 CDL . . . OB 51 301.963 206.942 255.622 1 37.45 ? CA2 CDL 401 i 1 HETATM 4 O OA2 CDL . . . OB 51 302.396 206.68 254.294 1 36.16 ? OA2 CDL 401 i 1 HETATM 5 P PA1 CDL . . . OB 51 303.719 205.819 254.099 1 34.56 ? PA1 CDL 401 i 1 HETATM 6 O OA3 CDL . . . OB 51 304.207 205.346 255.45 1 31.56 ? OA3 CDL 401 i 1 HETATM 7 O OA4 CDL . . . OB 51 304.783 206.648 253.452 1 38.3 ? OA4 CDL 401 i 1 HETATM 8 O OA5 CDL . . . OB 51 303.41 204.571 253.154 1 37.73 ? OA5 CDL 401 i 1 HETATM 9 C CA3 CDL . . . OB 51 304.038 204.551 251.841 1 41.26 ? CA3 CDL 401 i 1 HETATM 10 C CA4 CDL . . . OB 51 302.956 204.317 250.814 1 45.08 ? CA4 CDL 401 i 1 HETATM 11 O OA6 CDL . . . OB 51 303.348 204.825 249.552 1 44.32 ? OA6 CDL 401 i 1 HETATM 12 C CA5 CDL . . . OB 51 303.468 203.795 248.536 1 42.64 ? CA5 CDL 401 i 1 HETATM 13 O OA7 CDL . . . OB 51 304.237 202.863 248.728 1 44.4 ? OA7 CDL 401 i 1 HETATM 14 C C11 CDL . . . OB 51 302.63 203.879 247.226 1 37.26 ? C11 CDL 401 i 1 HETATM 15 C C12 CDL . . . OB 51 303.142 202.919 246.155 1 32.35 ? C12 CDL 401 i 1 HETATM 16 C C13 CDL . . . OB 51 303.68 203.657 244.92 1 27.77 ? C13 CDL 401 i 1 HETATM 17 C C14 CDL . . . OB 51 302.642 203.666 243.778 1 24.59 ? C14 CDL 401 i 1 HETATM 18 C C15 CDL . . . OB 51 303.124 204.469 242.598 1 24.18 ? C15 CDL 401 i 1 HETATM 19 C C16 CDL . . . OB 51 303.18 203.611 241.299 1 22.69 ? C16 CDL 401 i 1 HETATM 20 C C17 CDL . . . OB 51 304.356 202.635 241.292 1 20.05 ? C17 CDL 401 i 1 HETATM 21 C C18 CDL . . . OB 51 304.161 201.477 240.294 1 18.52 ? C18 CDL 401 i 1 HETATM 22 C CA6 CDL . . . OB 51 301.701 205.077 251.217 1 48.35 ? CA6 CDL 401 i 1 HETATM 23 O OA8 CDL . . . OB 51 301.285 205.799 250.039 1 51.7 ? OA8 CDL 401 i 1 HETATM 24 C CA7 CDL . . . OB 51 299.994 206.42 250.167 1 52.61 ? CA7 CDL 401 i 1 HETATM 25 O OA9 CDL . . . OB 51 299.724 207.042 251.167 1 54.89 ? OA9 CDL 401 i 1 HETATM 26 C C31 CDL . . . OB 51 298.98 206.278 249.041 1 49.84 ? C31 CDL 401 i 1 HETATM 27 C C32 CDL . . . OB 51 299.617 205.745 247.791 1 46.54 ? C32 CDL 401 i 1 HETATM 28 C C33 CDL . . . OB 51 298.72 205.826 246.59 1 45.63 ? C33 CDL 401 i 1 HETATM 29 C C34 CDL . . . OB 51 297.224 205.747 246.956 1 43.93 ? C34 CDL 401 i 1 HETATM 30 C C35 CDL . . . OB 51 296.494 204.7 246.083 1 43.56 ? C35 CDL 401 i 1 HETATM 31 C C36 CDL . . . OB 51 294.97 204.949 245.994 1 42.83 ? C36 CDL 401 i 1 HETATM 32 C C37 CDL . . . OB 51 294.479 204.944 244.536 1 42.27 ? C37 CDL 401 i 1 HETATM 33 C C38 CDL . . . OB 51 295.46 205.705 243.583 1 39.62 ? C38 CDL 401 i 1 HETATM 34 C CB2 CDL . . . OB 51 299.932 206.156 256.943 1 36.23 ? CB2 CDL 401 i 1 HETATM 35 O OB2 CDL . . . OB 51 298.51 206.117 256.906 1 34.79 ? OB2 CDL 401 i 1 HETATM 36 P PB2 CDL . . . OB 51 297.665 206.975 257.999 1 34.16 ? PB2 CDL 401 i 1 HETATM 37 O OB3 CDL . . . OB 51 297.19 206.076 259.095 1 32.64 ? OB3 CDL 401 i 1 HETATM 38 O OB4 CDL . . . OB 51 298.519 208.054 258.601 1 35.07 ? OB4 CDL 401 i 1 HETATM 39 O OB5 CDL . . . OB 51 296.41 207.64 257.271 1 35.81 ? OB5 CDL 401 i 1 HETATM 40 C CB3 CDL . . . OB 51 296.349 207.584 255.851 1 38.26 ? CB3 CDL 401 i 1 HETATM 41 C CB4 CDL . . . OB 51 296.455 209.003 255.322 1 38.95 ? CB4 CDL 401 i 1 HETATM 42 O OB6 CDL . . . OB 51 295.318 209.723 255.703 1 41.3 ? OB6 CDL 401 i 1 HETATM 43 C CB5 CDL . . . OB 51 295.57 210.775 256.632 1 40.86 ? CB5 CDL 401 i 1 HETATM 44 O OB7 CDL . . . OB 51 296.452 210.66 257.471 1 39.95 ? OB7 CDL 401 i 1 HETATM 45 C C51 CDL . . . OB 51 294.723 212.059 256.556 1 40.95 ? C51 CDL 401 i 1 HETATM 46 C C52 CDL . . . OB 51 293.645 211.96 255.458 1 42.25 ? C52 CDL 401 i 1 HETATM 47 C C53 CDL . . . OB 51 293.334 213.302 254.774 1 41.58 ? C53 CDL 401 i 1 HETATM 48 C C54 CDL . . . OB 51 292.392 213.143 253.561 1 39.46 ? C54 CDL 401 i 1 HETATM 49 C C55 CDL . . . OB 51 292.293 214.412 252.679 1 38.28 ? C55 CDL 401 i 1 HETATM 50 C C56 CDL . . . OB 51 291.073 214.384 251.755 1 38.53 ? C56 CDL 401 i 1 HETATM 51 C C57 CDL . . . OB 51 291.176 215.392 250.6 1 38.05 ? C57 CDL 401 i 1 HETATM 52 C C58 CDL . . . OB 51 289.975 215.34 249.672 1 37.45 ? C58 CDL 401 i 1 HETATM 53 C CB6 CDL . . . OB 51 296.558 208.981 253.791 1 37.78 ? CB6 CDL 401 i 1 HETATM 54 O OB8 CDL . . . OB 51 295.691 207.982 253.275 1 37.26 ? OB8 CDL 401 i 1 HETATM 55 C CB7 CDL . . . OB 51 296.382 207.001 252.466 1 39.69 ? CB7 CDL 401 i 1 HETATM 56 O OB9 CDL . . . OB 51 297.482 206.643 252.794 1 40.27 ? OB9 CDL 401 i 1 HETATM 57 C C71 CDL . . . OB 51 295.712 206.415 251.189 1 39.75 ? C71 CDL 401 i 1 HETATM 58 C C72 CDL . . . OB 51 294.577 207.287 250.634 1 40.74 ? C72 CDL 401 i 1 HETATM 59 C C73 CDL . . . OB 51 294.101 206.824 249.231 1 41.8 ? C73 CDL 401 i 1 HETATM 60 C C74 CDL . . . OB 51 292.691 207.311 248.887 1 42.12 ? C74 CDL 401 i 1 HETATM 61 C C75 CDL . . . OB 51 292.079 206.602 247.645 1 42.16 ? C75 CDL 401 i 1 HETATM 62 C C76 CDL . . . OB 51 292.237 207.407 246.34 1 40.15 ? C76 CDL 401 i 1 HETATM 63 C C77 CDL . . . OB 51 291.319 206.916 245.177 1 39.63 ? C77 CDL 401 i 1 HETATM 64 C C78 CDL . . . OB 51 291.407 207.813 243.934 1 38.95 ? C78 CDL 401 i 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 177 _model_server_stats.query_time_ms 524 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 64 #