data_6RQF # _model_server_result.job_id onMQ20dOiH4odORnAaHCgQ _model_server_result.datetime_utc '2025-03-06 08:51:57' _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 6rqf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"MA","auth_seq_id":201}' # _entry.id 6RQF # _exptl.entry_id 6RQF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 749.007 _entity.id 16 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE' _entity.pdbx_number_of_molecules 4 _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 6RQF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RQF _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 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,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA _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 ? 16 Y N N ? 16 AA N N ? 16 LA N N ? 16 MA 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 112 L CYS 112 1_555 D SG CYS 127 L CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? disulf ? disulf2 L SG CYS 112 D CYS 112 1_555 L SG CYS 127 D CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A SG CYS 35 I CYS 35 1_555 S CAB HEC . I HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.76 ? metalc ? metalc1 A NE2 HIS 86 I HIS 86 1_555 Q FE HEM . I HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc2 A NE2 HIS 100 I HIS 100 1_555 R FE HEM . I HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.77 ? metalc ? metalc3 A NE2 HIS 187 I HIS 187 1_555 Q FE HEM . I HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? metalc ? metalc4 A NE2 HIS 202 I HIS 202 1_555 R FE HEM . I HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc5 C N TYR 1 K TYR 1 1_555 Z FE HEC . K HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? covale ? covale2 C SG CYS 21 K CYS 21 1_555 Z CBB HEC . K HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.857 ? covale ? covale3 C SG CYS 21 K CYS 21 1_555 Z CAB HEC . K HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.8 ? covale ? covale4 C SG CYS 24 K CYS 24 1_555 Z CBC HEC . K HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.71 ? metalc ? metalc6 D SG CYS 107 L CYS 107 1_555 BA FE1 FES . L FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc7 D ND1 HIS 109 L HIS 109 1_555 BA FE2 FES . L FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc8 D SG CYS 125 L CYS 125 1_555 BA FE1 FES . L FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc9 I NE2 HIS 86 A HIS 86 1_555 EA FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc10 I NE2 HIS 100 A HIS 100 1_555 FA FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc11 I NE2 HIS 187 A HIS 187 1_555 EA FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc12 I NE2 HIS 202 A HIS 202 1_555 FA FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? metalc ? metalc13 K N TYR 1 C TYR 1 1_555 NA FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc14 K NE2 HIS 25 C HIS 25 1_555 NA FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc15 L SG CYS 107 D CYS 107 1_555 PA FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc16 L ND1 HIS 109 D HIS 109 1_555 PA FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc17 L SG CYS 125 D CYS 125 1_555 PA FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc18 L ND1 HIS 128 D HIS 128 1_555 PA FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? # _chem_comp.formula 'C40 H77 O10 P' _chem_comp.formula_weight 749.007 _chem_comp.id PGV _chem_comp.mon_nstd_flag . _chem_comp.name '(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PHOSPHATIDYLGLYCEROL, 2-VACCENOYL-1-PALMITOYL-SN-GLYCEROL-3-PHOSPHOGLYCEROL' # _atom_sites.entry_id 6RQF _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 Q 9 HEM I 1 301 6 HEM HEM . R 9 HEM I 1 302 7 HEM HEM . S 10 HEC I 1 303 8 HEC HEM . T 11 CLA I 1 304 1 CLA CLA . U 12 BCR I 1 305 2 BCR BCR . V 13 PL9 I 1 306 2 PL9 PL9 . W 14 6PL I 1 307 3 6PL 6PL . X 15 LMG J 1 201 1 LMG LMG . Y 16 PGV J 1 202 2 PGV PGV . Z 10 HEC K 1 301 2 HEC HEM . AA 16 PGV K 1 302 4 PGV PGV . BA 17 FES L 1 201 2 FES FES . CA 18 SQD L 1 202 1 SQD SQD . DA 14 6PL N 1 101 1 6PL 6PL . EA 9 HEM A 1 301 3 HEM HEM . FA 9 HEM A 1 302 4 HEM HEM . GA 10 HEC A 1 303 5 HEC HEM . HA 11 CLA A 1 304 2 CLA CLA . IA 13 PL9 A 1 305 1 PL9 PL9 . JA 13 PL9 A 1 306 3 PL9 PL9 . KA 18 SQD A 1 307 3 SQD SQD . LA 16 PGV A 1 308 3 PGV PGV . MA 16 PGV B 1 201 1 PGV PGV . NA 10 HEC C 1 301 1 HEC HEM . OA 18 SQD C 1 302 2 SQD SQD . PA 17 FES D 1 201 1 FES FES . QA 14 6PL E 1 101 2 6PL 6PL . RA 15 LMG F 1 101 2 LMG LMG . SA 12 BCR H 1 101 1 BCR BCR . # 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 P P PGV . . . MA 16 201.162 150.165 177.822 1 59.43 ? P PGV 201 B 1 HETATM 2 C C01 PGV . . . MA 16 199.662 148.077 173.732 1 59.43 ? C01 PGV 201 B 1 HETATM 3 C C02 PGV . . . MA 16 199.59 147.74 175.218 1 59.43 ? C02 PGV 201 B 1 HETATM 4 C C03 PGV . . . MA 16 200.752 148.406 175.942 1 59.43 ? C03 PGV 201 B 1 HETATM 5 C C04 PGV . . . MA 16 203.586 150.374 178.802 1 59.43 ? C04 PGV 201 B 1 HETATM 6 C C05 PGV . . . MA 16 204.906 149.621 178.843 1 59.43 ? C05 PGV 201 B 1 HETATM 7 C C06 PGV . . . MA 16 205.598 149.907 180.168 1 59.43 ? C06 PGV 201 B 1 HETATM 8 O O01 PGV . . . MA 16 199.566 146.331 175.487 1 59.43 ? O01 PGV 201 B 1 HETATM 9 O O02 PGV . . . MA 16 201.583 145.55 174.625 1 59.43 ? O02 PGV 201 B 1 HETATM 10 O O03 PGV . . . MA 16 198.457 148.728 173.339 1 59.43 ? O03 PGV 201 B 1 HETATM 11 O O04 PGV . . . MA 16 198.032 147.069 171.821 1 59.43 ? O04 PGV 201 B 1 HETATM 12 O O05 PGV . . . MA 16 205.731 150.061 177.763 1 59.43 ? O05 PGV 201 B 1 HETATM 13 O O06 PGV . . . MA 16 205.714 151.323 180.339 1 59.43 ? O06 PGV 201 B 1 HETATM 14 O O11 PGV . . . MA 16 200.308 148.975 177.167 1 59.43 ? O11 PGV 201 B 1 HETATM 15 O O12 PGV . . . MA 16 202.712 149.75 177.87 1 59.43 ? O12 PGV 201 B 1 HETATM 16 O O13 PGV . . . MA 16 200.667 150.437 179.215 1 59.43 ? O13 PGV 201 B 1 HETATM 17 O O14 PGV . . . MA 16 201.012 151.39 176.964 1 59.43 ? O14 PGV 201 B 1 HETATM 18 C C1 PGV . . . MA 16 200.367 145.461 174.634 1 59.43 ? C1 PGV 201 B 1 HETATM 19 C C2 PGV . . . MA 16 199.695 144.409 173.787 1 59.43 ? C2 PGV 201 B 1 HETATM 20 C C3 PGV . . . MA 16 200.163 144.554 172.348 1 59.43 ? C3 PGV 201 B 1 HETATM 21 C C4 PGV . . . MA 16 199.223 143.814 171.407 1 59.43 ? C4 PGV 201 B 1 HETATM 22 C C5 PGV . . . MA 16 199.95 142.685 170.69 1 59.43 ? C5 PGV 201 B 1 HETATM 23 C C6 PGV . . . MA 16 199.04 141.98 169.693 1 59.43 ? C6 PGV 201 B 1 HETATM 24 C C7 PGV . . . MA 16 199.819 140.943 168.893 1 59.43 ? C7 PGV 201 B 1 HETATM 25 C C8 PGV . . . MA 16 200.882 141.607 168.022 1 59.43 ? C8 PGV 201 B 1 HETATM 26 C C9 PGV . . . MA 16 201.262 140.714 166.845 1 59.43 ? C9 PGV 201 B 1 HETATM 27 C C10 PGV . . . MA 16 201.028 141.403 165.503 1 59.43 ? C10 PGV 201 B 1 HETATM 28 C C11 PGV . . . MA 16 199.649 142.014 165.489 1 59.43 ? C11 PGV 201 B 1 HETATM 29 C C12 PGV . . . MA 16 198.648 141.411 164.861 1 59.43 ? C12 PGV 201 B 1 HETATM 30 C C13 PGV . . . MA 16 197.277 142.042 164.874 1 59.43 ? C13 PGV 201 B 1 HETATM 31 C C14 PGV . . . MA 16 197.003 142.666 163.515 1 59.43 ? C14 PGV 201 B 1 HETATM 32 C C15 PGV . . . MA 16 195.508 142.803 163.27 1 59.43 ? C15 PGV 201 B 1 HETATM 33 C C16 PGV . . . MA 16 194.932 141.514 162.698 1 59.43 ? C16 PGV 201 B 1 HETATM 34 C C17 PGV . . . MA 16 195.242 141.392 161.212 1 59.43 ? C17 PGV 201 B 1 HETATM 35 C C18 PGV . . . MA 16 194.56 142.487 160.422 1 59.43 ? C18 PGV 201 B 1 HETATM 36 C C19 PGV . . . MA 16 197.613 148.075 172.358 1 59.43 ? C19 PGV 201 B 1 HETATM 37 C C20 PGV . . . MA 16 196.252 148.614 172.001 1 59.43 ? C20 PGV 201 B 1 HETATM 38 C C21 PGV . . . MA 16 195.785 147.903 170.741 1 59.43 ? C21 PGV 201 B 1 HETATM 39 C C22 PGV . . . MA 16 194.367 148.297 170.37 1 59.43 ? C22 PGV 201 B 1 HETATM 40 C C23 PGV . . . MA 16 194.112 148.035 168.893 1 59.43 ? C23 PGV 201 B 1 HETATM 41 C C24 PGV . . . MA 16 192.723 148.514 168.506 1 59.43 ? C24 PGV 201 B 1 HETATM 42 C C25 PGV . . . MA 16 192.588 148.682 167.001 1 59.43 ? C25 PGV 201 B 1 HETATM 43 C C26 PGV . . . MA 16 191.17 149.1 166.64 1 59.43 ? C26 PGV 201 B 1 HETATM 44 C C27 PGV . . . MA 16 191.095 149.618 165.211 1 59.43 ? C27 PGV 201 B 1 HETATM 45 C C28 PGV . . . MA 16 191.547 148.556 164.217 1 59.43 ? C28 PGV 201 B 1 HETATM 46 C C29 PGV . . . MA 16 191.529 149.092 162.792 1 59.43 ? C29 PGV 201 B 1 HETATM 47 C C30 PGV . . . MA 16 191.718 147.962 161.788 1 59.43 ? C30 PGV 201 B 1 HETATM 48 C C31 PGV . . . MA 16 191.496 148.452 160.363 1 59.43 ? C31 PGV 201 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #