data_6ROI # _model_server_result.job_id PckAbV8VORNZU8UaL72qZg _model_server_result.datetime_utc '2024-11-21 14:11:55' _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 6roi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1502}' # _entry.id 6ROI # _exptl.entry_id 6ROI _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 967.108 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' _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 6ROI _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ROI _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 3 BMA BMA 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 3 n C NAG 1 B 1 NAG C 1311 NAG 3 n C NAG 2 B 2 NAG C 1312 NAG 4 n D NAG 1 D 1 NAG C 1341 NAG 4 n D NAG 2 D 2 NAG C 1342 NAG 4 n D BMA 3 D 3 BMA C 1343 BMA 4 n D BMA 4 D 4 BMA C 1344 BMA # 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 B SG CYS 80 C CYS 80 1_555 B SG CYS 123 C CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 B SG CYS 176 C CYS 176 1_555 B SG CYS 190 C CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? covale ? covale1 A C SER 559 A SER 559 1_555 A N BFD 560 A BFD 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale2 A C BFD 560 A BFD 560 1_555 A N LYS 561 A LYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 A CZ3 TRP 1028 A TRP 1028 1_555 F C45 2Y5 . A 2Y5 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.496 ? covale ? covale4 B ND2 ASN 199 C ASN 199 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale5 B ND2 ASN 216 C ASN 216 1_555 G C1 NAG . C NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 B ND2 ASN 288 C ASN 288 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale7 C O4 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale9 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale10 D O3 BMA . D BMA 3 1_555 D C1 BMA . D BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A OD2 BFD 560 A BFD 560 1_555 E MG MG . A MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc2 A O THR 562 A THR 562 1_555 E MG MG . A MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc3 A OD1 ASP 954 A ASP 954 1_555 E MG MG . A MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc4 E MG MG . A MG 1501 1_555 H O HOH . A HOH 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.74 ? metalc ? metalc5 E MG MG . A MG 1501 1_555 H O HOH . A HOH 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.805 ? # _chem_comp.formula 'C47 H84 O16 P2' _chem_comp.formula_weight 967.108 _chem_comp.id 2Y5 _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Phosphatidylinositol-4-phosphate;PI4P # _atom_sites.entry_id 6ROI _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 MG A 1 1501 1996 MG MG . F 6 2Y5 A 1 1502 1 2Y5 2Y5 . G 7 NAG C 1 503 1321 NAG NAG . H 8 HOH A 1 1601 2000 HOH HOH . H 8 HOH A 2 1602 1999 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 C C1 2Y5 . . . F 6 142.718 151.314 139.025 1 74.55 ? C1 2Y5 1502 A 1 HETATM 2 O O1 2Y5 . . . F 6 143.037 150.096 139.642 1 74.55 ? O1 2Y5 1502 A 1 HETATM 3 P P1 2Y5 . . . F 6 143.86 150.208 141.055 1 74.55 ? P1 2Y5 1502 A 1 HETATM 4 C C2 2Y5 . . . F 6 141.332 151.747 139.522 1 74.55 ? C2 2Y5 1502 A 1 HETATM 5 O O2 2Y5 . . . F 6 140.732 150.617 140.094 1 74.55 ? O2 2Y5 1502 A 1 HETATM 6 C C3 2Y5 . . . F 6 140.354 152.307 138.468 1 74.55 ? C3 2Y5 1502 A 1 HETATM 7 O O3 2Y5 . . . F 6 139.557 153.282 139.096 1 74.55 ? O3 2Y5 1502 A 1 HETATM 8 C C4 2Y5 . . . F 6 140.981 152.941 137.209 1 74.55 ? C4 2Y5 1502 A 1 HETATM 9 O O4 2Y5 . . . F 6 140.114 152.689 136.132 1 74.55 ? O4 2Y5 1502 A 1 HETATM 10 P P4 2Y5 . . . F 6 138.741 153.584 135.983 1 74.55 ? P4 2Y5 1502 A 1 HETATM 11 C C5 2Y5 . . . F 6 142.386 152.437 136.818 1 74.55 ? C5 2Y5 1502 A 1 HETATM 12 O O5 2Y5 . . . F 6 143.327 153.418 137.166 1 74.55 ? O5 2Y5 1502 A 1 HETATM 13 C C6 2Y5 . . . F 6 142.796 151.136 137.513 1 74.55 ? C6 2Y5 1502 A 1 HETATM 14 O O6 2Y5 . . . F 6 144.122 150.837 137.173 1 74.55 ? O6 2Y5 1502 A 1 HETATM 15 C C7 2Y5 . . . F 6 145.933 148.723 140.564 1 74.55 ? C7 2Y5 1502 A 1 HETATM 16 C C8 2Y5 . . . F 6 147.188 149.189 141.306 1 74.55 ? C8 2Y5 1502 A 1 HETATM 17 C C9 2Y5 . . . F 6 147.16 148.682 142.747 1 74.55 ? C9 2Y5 1502 A 1 HETATM 18 C C10 2Y5 . . . F 6 148.993 149.506 139.772 1 74.55 ? C10 2Y5 1502 A 1 HETATM 19 C C11 2Y5 . . . F 6 148.379 149.079 144.722 1 74.55 ? C11 2Y5 1502 A 1 HETATM 20 O O11 2Y5 . . . F 6 142.897 150.415 142.192 1 74.55 ? O11 2Y5 1502 A 1 HETATM 21 C C12 2Y5 . . . F 6 150.457 149.855 140.055 1 74.55 ? C12 2Y5 1502 A 1 HETATM 22 O O12 2Y5 . . . F 6 144.774 151.39 140.93 1 74.55 ? O12 2Y5 1502 A 1 HETATM 23 C C13 2Y5 . . . F 6 151.411 148.782 139.524 1 74.55 ? C13 2Y5 1502 A 1 HETATM 24 O O13 2Y5 . . . F 6 144.776 148.876 141.333 1 74.55 ? O13 2Y5 1502 A 1 HETATM 25 C C14 2Y5 . . . F 6 151.822 147.846 140.662 1 74.55 ? C14 2Y5 1502 A 1 HETATM 26 C C15 2Y5 . . . F 6 153.026 148.411 141.406 1 74.55 ? C15 2Y5 1502 A 1 HETATM 27 C C16 2Y5 . . . F 6 153.897 147.641 142.029 1 74.55 ? C16 2Y5 1502 A 1 HETATM 28 O O16 2Y5 . . . F 6 148.302 148.654 140.648 1 74.55 ? O16 2Y5 1502 A 1 HETATM 29 C C17 2Y5 . . . F 6 153.794 146.116 142.058 1 74.55 ? C17 2Y5 1502 A 1 HETATM 30 O O17 2Y5 . . . F 6 148.454 149.951 138.812 1 74.55 ? O17 2Y5 1502 A 1 HETATM 31 C C18 2Y5 . . . F 6 154.687 145.53 140.961 1 74.55 ? C18 2Y5 1502 A 1 HETATM 32 O O18 2Y5 . . . F 6 147.703 149.628 143.622 1 74.55 ? O18 2Y5 1502 A 1 HETATM 33 C C19 2Y5 . . . F 6 155.316 144.375 141.087 1 74.55 ? C19 2Y5 1502 A 1 HETATM 34 O O19 2Y5 . . . F 6 149.556 149.18 144.788 1 74.55 ? O19 2Y5 1502 A 1 HETATM 35 C C20 2Y5 . . . F 6 155.208 143.532 142.356 1 74.55 ? C20 2Y5 1502 A 1 HETATM 36 C C21 2Y5 . . . F 6 156.57 142.925 142.69 1 74.55 ? C21 2Y5 1502 A 1 HETATM 37 C C22 2Y5 . . . F 6 156.694 141.818 143.4 1 74.55 ? C22 2Y5 1502 A 1 HETATM 38 C C23 2Y5 . . . F 6 155.486 141.052 143.941 1 74.55 ? C23 2Y5 1502 A 1 HETATM 39 C C24 2Y5 . . . F 6 155.19 141.507 145.37 1 74.55 ? C24 2Y5 1502 A 1 HETATM 40 C C25 2Y5 . . . F 6 154.884 140.659 146.333 1 74.55 ? C25 2Y5 1502 A 1 HETATM 41 C C26 2Y5 . . . F 6 154.807 139.15 146.094 1 74.55 ? C26 2Y5 1502 A 1 HETATM 42 C C27 2Y5 . . . F 6 155.433 138.426 147.288 1 74.55 ? C27 2Y5 1502 A 1 HETATM 43 C C28 2Y5 . . . F 6 154.909 136.996 147.392 1 74.55 ? C28 2Y5 1502 A 1 HETATM 44 C C29 2Y5 . . . F 6 155.398 136.364 148.693 1 74.55 ? C29 2Y5 1502 A 1 HETATM 45 C C30 2Y5 . . . F 6 154.51 136.81 149.854 1 74.55 ? C30 2Y5 1502 A 1 HETATM 46 C C31 2Y5 . . . F 6 147.616 148.366 145.841 1 74.55 ? C31 2Y5 1502 A 1 HETATM 47 C C32 2Y5 . . . F 6 147.752 149.149 147.149 1 74.55 ? C32 2Y5 1502 A 1 HETATM 48 C C33 2Y5 . . . F 6 147.748 148.221 148.363 1 74.55 ? C33 2Y5 1502 A 1 HETATM 49 C C34 2Y5 . . . F 6 149.184 148.028 148.854 1 74.55 ? C34 2Y5 1502 A 1 HETATM 50 C C35 2Y5 . . . F 6 149.225 147.687 150.344 1 74.55 ? C35 2Y5 1502 A 1 HETATM 51 C C36 2Y5 . . . F 6 150.35 146.687 150.626 1 74.55 ? C36 2Y5 1502 A 1 HETATM 52 C C37 2Y5 . . . F 6 149.818 145.527 151.472 1 74.55 ? C37 2Y5 1502 A 1 HETATM 53 C C38 2Y5 . . . F 6 150.879 144.436 151.616 1 74.55 ? C38 2Y5 1502 A 1 HETATM 54 C C39 2Y5 . . . F 6 150.345 143.274 152.454 1 74.55 ? C39 2Y5 1502 A 1 HETATM 55 C C40 2Y5 . . . F 6 149.969 143.764 153.854 1 74.55 ? C40 2Y5 1502 A 1 HETATM 56 C C41 2Y5 . . . F 6 150.35 142.721 154.907 1 74.55 ? C41 2Y5 1502 A 1 HETATM 57 O O41 2Y5 . . . F 6 137.605 152.945 136.742 1 74.55 ? O41 2Y5 1502 A 1 HETATM 58 C C42 2Y5 . . . F 6 149.76 143.102 156.267 1 74.55 ? C42 2Y5 1502 A 1 HETATM 59 O O42 2Y5 . . . F 6 138.998 154.96 136.538 1 74.55 ? O42 2Y5 1502 A 1 HETATM 60 C C43 2Y5 . . . F 6 150.295 142.184 157.371 1 74.55 ? C43 2Y5 1502 A 1 HETATM 61 O O43 2Y5 . . . F 6 138.365 153.682 134.527 1 74.55 ? O43 2Y5 1502 A 1 HETATM 62 C C44 2Y5 . . . F 6 149.397 140.952 157.515 1 74.55 ? C44 2Y5 1502 A 1 HETATM 63 C C45 2Y5 . . . F 6 150.152 139.724 158.035 1 74.55 ? C45 2Y5 1502 A 1 HETATM 64 C C46 2Y5 . . . F 6 149.847 139.626 159.533 1 74.55 ? C46 2Y5 1502 A 1 HETATM 65 C C47 2Y5 . . . F 6 151.023 139.021 160.296 1 74.55 ? C47 2Y5 1502 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 65 #