data_6WBV # _model_server_result.job_id QshUOAEgHwgTw505DjrXkg _model_server_result.datetime_utc '2025-02-18 13:02:38' _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 6wbv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":702}' # _entry.id 6WBV # _exptl.entry_id 6WBV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 455.457 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE' _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 90 _cell.entry_id 6WBV _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WBV _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 5 E N N ? 5 F 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 A SG CYS 7 B CYS 7 1_555 A SG CYS 23 B CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 10 B CYS 10 1_555 A SG CYS 13 B CYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 A SG CYS 11 B CYS 11 1_555 A SG CYS 19 B CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 14 B CYS 14 1_555 A SG CYS 22 B CYS 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 C SG CYS 23 L CYS 23 1_555 C SG CYS 92 L CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf6 C SG CYS 138 L CYS 138 1_555 C SG CYS 198 L CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf7 C SG CYS 218 L CYS 218 1_555 D SG CYS 133 H CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 D SG CYS 22 H CYS 22 1_555 D SG CYS 95 H CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 D SG CYS 145 H CYS 145 1_555 D SG CYS 200 H CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc1 A O THR 25 B THR 25 1_555 H CO CO . A CO 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.798 ? metalc ? metalc2 B OD1 ASP 39 A ASP 39 1_555 G CO CO . A CO 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc3 B OD2 ASP 39 A ASP 39 1_555 G CO CO . A CO 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc4 B NE2 HIS 43 A HIS 43 1_555 G CO CO . A CO 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc5 B NE2 HIS 507 A HIS 507 1_555 H CO CO . A CO 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc6 H CO CO . A CO 704 1_555 J O HOH . A HOH 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? # _chem_comp.formula 'C19 H36 O10 P -1' _chem_comp.formula_weight 455.457 _chem_comp.id AGA _chem_comp.mon_nstd_flag . _chem_comp.name '(1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PHOSPHATIDYL GLYCEROL' # 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 O1 C1 AGA sing 1 n n O1 HO1 AGA sing 2 n n C1 C2 AGA sing 3 n n C1 H11 AGA sing 4 n n C1 H12 AGA sing 5 n n C2 O2 AGA sing 6 n n C2 C3 AGA sing 7 n n C2 H2 AGA sing 8 n n O2 HO2 AGA sing 9 n n C3 O5 AGA sing 10 n n C3 H31 AGA sing 11 n n C3 H32 AGA sing 12 n n P1 O3 AGA sing 13 n n P1 O4 AGA doub 14 n n P1 O5 AGA sing 15 n n P1 O6 AGA sing 16 n n O6 C4 AGA sing 17 n n C4 C5 AGA sing 18 n n C4 H41 AGA sing 19 n n C4 H42 AGA sing 20 n n C5 C6 AGA sing 21 n n C5 O9 AGA sing 22 n n C5 H5 AGA sing 23 n n C6 O7 AGA sing 24 n n C6 H61 AGA sing 25 n n C6 H62 AGA sing 26 n n O7 C7 AGA sing 27 n n C7 O8 AGA doub 28 n n C7 C8 AGA sing 29 n n C8 C9 AGA sing 30 n n C8 H81 AGA sing 31 n n C8 H82 AGA sing 32 n n C9 C10 AGA sing 33 n n C9 H91 AGA sing 34 n n C9 H92 AGA sing 35 n n C10 C11 AGA sing 36 n n C10 H101 AGA sing 37 n n C10 H102 AGA sing 38 n n C11 H111 AGA sing 39 n n C11 H112 AGA sing 40 n n C11 H113 AGA sing 41 n n O9 C12 AGA sing 42 n n C12 O10 AGA doub 43 n n C12 C13 AGA sing 44 n n C13 C14 AGA sing 45 n n C13 H131 AGA sing 46 n n C13 H132 AGA sing 47 n n C14 C15 AGA sing 48 n n C14 H141 AGA sing 49 n n C14 H142 AGA sing 50 n n C15 C16 AGA sing 51 n n C15 H151 AGA sing 52 n n C15 H152 AGA sing 53 n n C16 C17 AGA sing 54 n n C16 H161 AGA sing 55 n n C16 H162 AGA sing 56 n n C17 C18 AGA sing 57 n n C17 H171 AGA sing 58 n n C17 H172 AGA sing 59 n n C18 C19 AGA sing 60 n n C18 H181 AGA sing 61 n n C18 H182 AGA sing 62 n n C19 H191 AGA sing 63 n n C19 H192 AGA sing 64 n n C19 H193 AGA sing 65 n n # _atom_sites.entry_id 6WBV _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 E 5 AGA A 1 701 601 AGA AGA . F 5 AGA A 1 702 701 AGA AGA . G 6 CO A 1 703 41 CO CO . H 6 CO A 1 704 42 CO CO . I 7 HOH B 1 101 13 HOH HOH . J 7 HOH A 1 801 17 HOH HOH . J 7 HOH A 2 802 9 HOH HOH . J 7 HOH A 3 803 24 HOH HOH . J 7 HOH A 4 804 1 HOH HOH . J 7 HOH A 5 805 3 HOH HOH . J 7 HOH A 6 806 1 HOH HOH . J 7 HOH A 7 807 22 HOH HOH . J 7 HOH A 8 808 28 HOH HOH . J 7 HOH A 9 809 8 HOH HOH . J 7 HOH A 10 810 27 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 O O1 AGA . . . F 5 119.244 156.629 97.9 1 61.87 ? O1 AGA 702 A 1 HETATM 2 C C1 AGA . . . F 5 119.707 156.594 99.221 1 61.87 ? C1 AGA 702 A 1 HETATM 3 C C2 AGA . . . F 5 119.6 155.173 99.767 1 61.87 ? C2 AGA 702 A 1 HETATM 4 O O2 AGA . . . F 5 118.672 154.446 99.011 1 61.87 ? O2 AGA 702 A 1 HETATM 5 C C3 AGA . . . F 5 119.136 155.23 101.219 1 61.87 ? C3 AGA 702 A 1 HETATM 6 P P1 AGA . . . F 5 117.761 153.948 103.025 1 61.87 ? P1 AGA 702 A 1 HETATM 7 O O3 AGA . . . F 5 118.462 154.895 103.964 1 61.87 ? O3 AGA 702 A 1 HETATM 8 O O4 AGA . . . F 5 116.308 154.339 102.898 1 61.87 ? O4 AGA 702 A 1 HETATM 9 O O5 AGA . . . F 5 118.49 154.037 101.553 1 61.87 ? O5 AGA 702 A 1 HETATM 10 O O6 AGA . . . F 5 117.876 152.413 103.614 1 61.87 ? O6 AGA 702 A 1 HETATM 11 C C4 AGA . . . F 5 118.12 152.241 104.98 1 61.87 ? C4 AGA 702 A 1 HETATM 12 C C5 AGA . . . F 5 116.912 151.572 105.651 1 61.87 ? C5 AGA 702 A 1 HETATM 13 C C6 AGA . . . F 5 117.027 150.043 105.548 1 61.87 ? C6 AGA 702 A 1 HETATM 14 O O7 AGA . . . F 5 116.674 149.391 106.734 1 61.87 ? O7 AGA 702 A 1 HETATM 15 C C7 AGA . . . F 5 115.614 148.485 106.643 1 61.87 ? C7 AGA 702 A 1 HETATM 16 O O8 AGA . . . F 5 114.744 148.659 105.858 1 61.87 ? O8 AGA 702 A 1 HETATM 17 C C8 AGA . . . F 5 115.585 147.27 107.568 1 61.87 ? C8 AGA 702 A 1 HETATM 18 C C9 AGA . . . F 5 114.665 147.555 108.754 1 61.87 ? C9 AGA 702 A 1 HETATM 19 C C10 AGA . . . F 5 115.492 147.881 109.995 1 61.87 ? C10 AGA 702 A 1 HETATM 20 C C11 AGA . . . F 5 115.292 146.784 111.038 1 61.87 ? C11 AGA 702 A 1 HETATM 21 O O9 AGA . . . F 5 116.719 152.051 106.967 1 61.87 ? O9 AGA 702 A 1 HETATM 22 C C12 AGA . . . F 5 117.601 151.691 108.002 1 61.87 ? C12 AGA 702 A 1 HETATM 23 O O10 AGA . . . F 5 118.775 151.709 107.86 1 61.87 ? O10 AGA 702 A 1 HETATM 24 C C13 AGA . . . F 5 117.025 151.262 109.35 1 61.87 ? C13 AGA 702 A 1 HETATM 25 C C14 AGA . . . F 5 117.942 151.735 110.476 1 61.87 ? C14 AGA 702 A 1 HETATM 26 C C15 AGA . . . F 5 117.363 151.285 111.816 1 61.87 ? C15 AGA 702 A 1 HETATM 27 C C16 AGA . . . F 5 118.222 151.822 112.958 1 61.87 ? C16 AGA 702 A 1 HETATM 28 C C17 AGA . . . F 5 117.417 151.788 114.255 1 61.87 ? C17 AGA 702 A 1 HETATM 29 C C18 AGA . . . F 5 117.786 150.553 115.074 1 61.87 ? C18 AGA 702 A 1 HETATM 30 C C19 AGA . . . F 5 118.751 150.952 116.187 1 61.87 ? C19 AGA 702 A 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 664 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 30 #