data_8AGB # _model_server_result.job_id R0HTRn815BiREdHNJHfgvg _model_server_result.datetime_utc '2024-11-04 22:47:20' _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 8agb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":804}' # _entry.id 8AGB # _exptl.entry_id 8AGB _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 452.459 _entity.id 16 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'phosphono [(3~{R},6~{E},10~{E})-3,7,11,15-tetramethylhexadeca-6,10,14-trienyl] hydrogen phosphate' _entity.pdbx_number_of_molecules 1 _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 8AGB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8AGB _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 16 _struct_asym.id P _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 9 oligosaccharide 10 oligosaccharide 11 oligosaccharide 12 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 9 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 9 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 9 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 9 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 9 6 5 MAN MAN C1 O1 . O2 HO2 . sing 6 ? 9 7 3 MAN BMA C1 O1 . O6 HO6 . sing 7 ? 10 2 1 NAG NAG C1 O1 . O4 HO4 . sing 8 ? 10 3 2 BMA NAG C1 O1 . O4 HO4 . sing 9 ? 11 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 12 2 1 NAG NDG C1 O1 . O4 HO4 . sing 11 ? 12 3 2 BMA NAG C1 O1 . O4 HO4 . sing 12 ? 12 4 3 MAN BMA C1 O1 . O3 HO3 . sing 13 ? 12 5 4 MAN MAN C1 O1 . O2 HO2 . sing 14 ? 12 6 5 MAN MAN C1 O1 . O2 HO2 . sing 15 ? 12 7 6 GLC MAN C1 O1 . O3 HO3 . sing 16 ? 12 8 7 GLC GLC C1 O1 . O3 HO3 . sing 17 ? 12 9 8 GLC GLC C1 O1 . O2 HO2 . sing 18 ? 12 10 3 MAN BMA C1 O1 . O6 HO6 . sing 19 ? 12 11 10 MAN MAN C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 9 n I NAG 1 I 1 NAG A 801 NAG 9 n I NAG 2 I 2 NAG A 802 NAG 9 n I BMA 3 I 3 BMA A 803 BMA 9 n I MAN 4 I 4 MAN A 804 MAN 9 n I MAN 5 I 5 MAN A 805 MAN 9 n I MAN 6 I 6 MAN A 806 MAN 9 n I MAN 7 I 7 MAN A 807 MAN 10 n J NAG 1 J 1 NAG E 501 NAG 10 n J NAG 2 J 2 NAG E 502 NAG 10 n J BMA 3 J 3 BMA E 503 BMA 11 n K NAG 1 K 1 NAG E 504 NAG 11 n K NAG 2 K 2 NAG E 505 NAG 12 n L NDG 1 L 1 NDG J 537 NDG 12 n L NAG 2 L 2 NAG J 538 NAG 12 n L BMA 3 L 3 BMA J 539 BMA 12 n L MAN 4 L 4 MAN J 542 MAN 12 n L MAN 5 L 5 MAN J 543 MAN 12 n L MAN 6 L 6 MAN J 544 MAN 12 n L GLC 7 L 7 GLC J 545 GLC 12 n L GLC 8 L 8 GLC J 546 GLC 12 n L GLC 9 L 9 GLC J 547 GLC 12 n L MAN 10 L 10 MAN J 540 MAN 12 n L MAN 11 L 11 MAN J 541 MAN # 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 A ND2 ASN 539 A ASN 539 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 P O3B ELU . A ELU 804 1_555 L C1 NDG . L NDG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale3 E ND2 ASN 336 E ASN 336 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 E ND2 ASN 400 E ASN 400 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale5 G ND2 ASN 60 G ASN 60 1_555 U C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 G ND2 ASN 332 G ASN 332 1_555 T C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale8 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 I O3 BMA . I BMA 3 1_555 I C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 I O6 BMA . I BMA 3 1_555 I C1 MAN . I MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 I O2 MAN . I MAN 4 1_555 I C1 MAN . I MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale12 I O2 MAN . I MAN 5 1_555 I C1 MAN . I MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale13 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale14 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale15 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale16 L O4 NDG . L NDG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale17 L O4 NAG . L NAG 2 1_555 L C1 BMA . L BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 L O3 BMA . L BMA 3 1_555 L C1 MAN . L MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale19 L O6 BMA . L BMA 3 1_555 L C1 MAN . L MAN 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale20 L O2 MAN . L MAN 4 1_555 L C1 MAN . L MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale21 L O2 MAN . L MAN 5 1_555 L C1 MAN . L MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale22 L O3 MAN . L MAN 6 1_555 L C1 GLC . L GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale23 L O3 GLC . L GLC 7 1_555 L C1 GLC . L GLC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale24 L O2 GLC . L GLC 8 1_555 L C1 GLC . L GLC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale25 L O3 MAN . L MAN 10 1_555 L C1 MAN . L MAN 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A OD2 ASP 166 A ASP 166 1_555 O MN MN . A MN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc2 O MN MN . A MN 803 1_555 P O1B ELU . A ELU 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? # _chem_comp.formula 'C20 H38 O7 P2' _chem_comp.formula_weight 452.459 _chem_comp.id ELU _chem_comp.mon_nstd_flag . _chem_comp.name 'phosphono [(3~{R},6~{E},10~{E})-3,7,11,15-tetramethylhexadeca-6,10,14-trienyl] hydrogen phosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C9 C11 ELU sing 238 n n C9 C8 ELU sing 239 n n C14 C13 ELU sing 240 n n C10 C8 ELU sing 241 n n C11 C12 ELU sing 242 n n C8 C7 ELU doub 243 e n C20 C18 ELU sing 244 n n C7 C6 ELU sing 245 n n C13 C12 ELU doub 246 e n C13 C15 ELU sing 247 n n C16 C15 ELU sing 248 n n C16 C17 ELU sing 249 n n C6 C5 ELU sing 250 n n C18 C17 ELU doub 251 n n C18 C19 ELU sing 252 n n C5 C3 ELU sing 253 n n C2 C3 ELU sing 254 n n C2 C1 ELU sing 255 n n C3 C4 ELU sing 256 n n C1 O1 ELU sing 257 n n O1 PA ELU sing 258 n n O2B PB ELU doub 259 n n PA O2A ELU doub 260 n n PA O3A ELU sing 261 n n PA O1A ELU sing 262 n n O3A PB ELU sing 263 n n PB O3B ELU sing 264 n n PB O1B ELU sing 265 n n O1A H1 ELU sing 266 n n O1B H2 ELU sing 267 n n O3B H3 ELU sing 268 n n C1 H4 ELU sing 269 n n C1 H5 ELU sing 270 n n C2 H6 ELU sing 271 n n C2 H7 ELU sing 272 n n C3 H8 ELU sing 273 n n C4 H9 ELU sing 274 n n C4 H10 ELU sing 275 n n C4 H11 ELU sing 276 n n C5 H12 ELU sing 277 n n C5 H13 ELU sing 278 n n C6 H14 ELU sing 279 n n C6 H15 ELU sing 280 n n C7 H16 ELU sing 281 n n C10 H17 ELU sing 282 n n C10 H18 ELU sing 283 n n C10 H19 ELU sing 284 n n C9 H20 ELU sing 285 n n C9 H21 ELU sing 286 n n C11 H22 ELU sing 287 n n C11 H23 ELU sing 288 n n C12 H24 ELU sing 289 n n C14 H25 ELU sing 290 n n C14 H26 ELU sing 291 n n C14 H27 ELU sing 292 n n C15 H28 ELU sing 293 n n C15 H29 ELU sing 294 n n C16 H30 ELU sing 295 n n C16 H31 ELU sing 296 n n C17 H32 ELU sing 297 n n C20 H33 ELU sing 298 n n C20 H34 ELU sing 299 n n C20 H35 ELU sing 300 n n C19 H36 ELU sing 301 n n C19 H37 ELU sing 302 n n C19 H38 ELU sing 303 n n # _atom_sites.entry_id 8AGB _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 M 13 CPL A 1 801 809 CPL CPL . N 14 PTY A 1 802 901 PTY PTY . O 15 MN A 1 803 1 MN MN . P 16 ELU A 1 804 1002 ELU L01 . Q 13 CPL B 1 101 101 CPL CPL . R 13 CPL E 1 501 506 CPL CPL . S 14 PTY F 1 301 810 PTY PTY . T 17 NAG G 1 501 503 NAG NAG . U 17 NAG G 1 502 504 NAG NAG . V 13 CPL G 1 503 302 CPL CPL . # 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 O2A ELU . . . P 16 157.528 154.882 156.511 1 68.82 ? O2A ELU 804 A 1 HETATM 2 P PA ELU . . . P 16 158.397 153.789 155.935 1 68.82 ? PA ELU 804 A 1 HETATM 3 O O1A ELU . . . P 16 159.848 154.076 156.242 1 68.82 ? O1A ELU 804 A 1 HETATM 4 O O3A ELU . . . P 16 158.184 153.717 154.3 1 68.82 ? O3A ELU 804 A 1 HETATM 5 P PB ELU . . . P 16 158.904 152.583 153.35 1 68.82 ? PB ELU 804 A 1 HETATM 6 O O2B ELU . . . P 16 158.984 151.28 154.105 1 68.82 ? O2B ELU 804 A 1 HETATM 7 O O1B ELU . . . P 16 160.296 153.049 152.998 1 68.82 ? O1B ELU 804 A 1 HETATM 8 O O3B ELU . . . P 16 158.096 152.388 152.09 1 68.82 ? O3B ELU 804 A 1 HETATM 9 O O1 ELU . . . P 16 157.969 152.344 156.605 1 68.82 ? O1 ELU 804 A 1 HETATM 10 C C1 ELU . . . P 16 158.913 151.66 157.383 1 68.82 ? C1 ELU 804 A 1 HETATM 11 C C2 ELU . . . P 16 158.693 151.999 158.852 1 68.82 ? C2 ELU 804 A 1 HETATM 12 C C3 ELU . . . P 16 158.06 150.797 159.554 1 68.82 ? C3 ELU 804 A 1 HETATM 13 C C4 ELU . . . P 16 156.647 151.174 159.989 1 68.82 ? C4 ELU 804 A 1 HETATM 14 C C5 ELU . . . P 16 158.932 150.385 160.743 1 68.82 ? C5 ELU 804 A 1 HETATM 15 C C6 ELU . . . P 16 158.1 150.195 162.011 1 68.82 ? C6 ELU 804 A 1 HETATM 16 C C7 ELU . . . P 16 158.985 150.389 163.242 1 68.82 ? C7 ELU 804 A 1 HETATM 17 C C8 ELU . . . P 16 158.589 149.937 164.416 1 68.82 ? C8 ELU 804 A 1 HETATM 18 C C10 ELU . . . P 16 159.479 150.13 165.639 1 68.82 ? C10 ELU 804 A 1 HETATM 19 C C9 ELU . . . P 16 157.249 149.208 164.543 1 68.82 ? C9 ELU 804 A 1 HETATM 20 C C11 ELU . . . P 16 157.017 148.749 165.988 1 68.82 ? C11 ELU 804 A 1 HETATM 21 C C12 ELU . . . P 16 155.505 148.691 166.215 1 68.82 ? C12 ELU 804 A 1 HETATM 22 C C13 ELU . . . P 16 154.972 148.387 167.387 1 68.82 ? C13 ELU 804 A 1 HETATM 23 C C14 ELU . . . P 16 153.446 148.352 167.518 1 68.82 ? C14 ELU 804 A 1 HETATM 24 C C15 ELU . . . P 16 155.844 148.093 168.61 1 68.82 ? C15 ELU 804 A 1 HETATM 25 C C16 ELU . . . P 16 154.983 147.38 169.653 1 68.82 ? C16 ELU 804 A 1 HETATM 26 C C17 ELU . . . P 16 155.521 147.614 171.061 1 68.82 ? C17 ELU 804 A 1 HETATM 27 C C18 ELU . . . P 16 154.797 147.268 172.1 1 68.82 ? C18 ELU 804 A 1 HETATM 28 C C20 ELU . . . P 16 153.426 146.634 171.906 1 68.82 ? C20 ELU 804 A 1 HETATM 29 C C19 ELU . . . P 16 155.32 147.499 173.51 1 68.82 ? C19 ELU 804 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 29 #