data_7W72 # _model_server_result.job_id SyQGBbHLXJdZcOjlsMSGYg _model_server_result.datetime_utc '2025-04-01 16:52:37' _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 7w72 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 7W72 # _exptl.entry_id 7W72 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 622.639 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[2-[[(2~{R})-2-hexanoyloxy-3-[(~{E})-hex-3-enoxy]propoxy]-oxidanyl-phosphoryl]oxy-3,4,5,6-tetrakis(oxidanyl)phenyl] (2~{E},4~{E})-hepta-2,4-dienoate' _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 7W72 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7W72 _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 6 _pdbx_entity_branch.type 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 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . 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 6 n F NAG 1 N 1 NAG N 701 NAG 6 n F NAG 2 N 2 NAG N 702 NAG 6 n F BMA 3 N 3 BMA N 703 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 C SG CYS 157 T CYS 182 1_555 D SG CYS 92 K CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 C SG CYS 170 T CYS 195 1_555 C SG CYS 247 T CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 C SG CYS 201 T CYS 226 1_555 C SG CYS 206 T CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf4 D SG CYS 275 K CYS 275 1_555 D SG CYS 280 K CYS 280 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 E SG CYS 259 A CYS 259 1_555 E SG CYS 266 A CYS 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? covale ? covale1 B ND2 ASN 261 S ASN 267 1_555 H C1 NAG . S NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 C ND2 ASN 302 T ASN 327 1_555 I C1 NAG . T NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 E ND2 ASN 203 A ASN 203 1_555 F C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 F O4 NAG . N NAG 1 1_555 F C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 F O4 NAG . N NAG 2 1_555 F C1 BMA . N BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 D O ASP 79 K ASP 79 1_555 J CA CA . K CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc2 D O ILE 82 K ILE 82 1_555 J CA CA . K CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc3 D OD1 ASP 120 K ASP 120 1_555 J CA CA . K CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc4 D OD2 ASP 120 K ASP 120 1_555 J CA CA . K CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? # _chem_comp.formula 'C28 H47 O13 P' _chem_comp.formula_weight 622.639 _chem_comp.id 8JY _chem_comp.mon_nstd_flag . _chem_comp.name '[2-[[(2~{R})-2-hexanoyloxy-3-[(~{E})-hex-3-enoxy]propoxy]-oxidanyl-phosphoryl]oxy-3,4,5,6-tetrakis(oxidanyl)phenyl] (2~{E},4~{E})-hepta-2,4-dienoate' _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 O10 C03 8JY sing 1 n n O09 C02 8JY sing 2 n n C03 C02 8JY doub 3 n y C03 C04 8JY sing 4 n y C02 C01 8JY sing 5 n y O11 C04 8JY sing 6 n n C04 C05 8JY doub 7 n y C01 O08 8JY sing 8 n n C01 C06 8JY doub 9 n y C05 C06 8JY sing 10 n y C05 O12 8JY sing 11 n n O37 C35 8JY doub 12 n n C06 O07 8JY sing 13 n n O12 C35 8JY sing 14 n n C35 C36 8JY sing 15 n n O16 P13 8JY doub 16 n n O07 P13 8JY sing 17 n n C38 C36 8JY sing 18 n n C38 C39 8JY sing 19 n n P13 O15 8JY sing 20 n n P13 O14 8JY sing 21 n n C40 C39 8JY sing 22 n n C40 C41 8JY sing 23 n n C42 C41 8JY sing 24 n n O14 C17 8JY sing 25 n n C17 C18 8JY sing 26 n n C20 C18 8JY sing 27 n n C20 O28 8JY sing 28 n n C18 O19 8JY sing 29 n n O28 C29 8JY sing 30 n n C30 C29 8JY sing 31 n n C30 C31 8JY sing 32 n n O19 C21 8JY sing 33 n n O27 C21 8JY doub 34 n n C31 C32 8JY sing 35 n n C21 C22 8JY sing 36 n n C22 C23 8JY sing 37 n n C32 C33 8JY sing 38 n n C34 C33 8JY sing 39 n n C23 C24 8JY sing 40 n n C24 C25 8JY sing 41 n n C25 C26 8JY sing 42 n n C20 H1 8JY sing 43 n n C20 H2 8JY sing 44 n n C22 H3 8JY sing 45 n n C22 H4 8JY sing 46 n n C17 H5 8JY sing 47 n n C17 H6 8JY sing 48 n n C18 H7 8JY sing 49 n n C23 H8 8JY sing 50 n n C23 H9 8JY sing 51 n n C24 H10 8JY sing 52 n n C24 H11 8JY sing 53 n n C25 H12 8JY sing 54 n n C25 H13 8JY sing 55 n n C26 H14 8JY sing 56 n n C26 H15 8JY sing 57 n n C26 H16 8JY sing 58 n n C29 H17 8JY sing 59 n n C29 H18 8JY sing 60 n n C30 H19 8JY sing 61 n n C30 H20 8JY sing 62 n n C31 H21 8JY sing 63 n n C32 H22 8JY sing 64 n n C33 H23 8JY sing 65 n n C33 H24 8JY sing 66 n n C34 H25 8JY sing 67 n n C34 H26 8JY sing 68 n n C34 H27 8JY sing 69 n n C36 H28 8JY sing 70 n n C38 H29 8JY sing 71 n n C39 H30 8JY sing 72 n n C40 H31 8JY sing 73 n n C41 H32 8JY sing 74 n n C41 H33 8JY sing 75 n n C42 H34 8JY sing 76 n n C42 H35 8JY sing 77 n n C42 H36 8JY sing 78 n n O08 H37 8JY sing 79 n n O09 H38 8JY sing 80 n n O10 H39 8JY sing 81 n n O11 H40 8JY sing 82 n n O15 H41 8JY sing 83 n n C32 H42 8JY sing 84 n n C31 H43 8JY sing 85 n n C40 H45 8JY sing 86 n n C39 H44 8JY sing 87 n n C38 H46 8JY sing 88 n n C36 H47 8JY sing 89 n n # _atom_sites.entry_id 7W72 _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 G 7 8JY U 1 501 501 8JY GPI . H 8 NAG S 1 601 601 NAG NAG . I 8 NAG T 1 601 601 NAG NAG . J 9 CA K 1 401 401 CA CA . # 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 C20 8JY . . . G 7 146.701 163.722 189.364 1 20 ? C20 8JY 501 U 1 HETATM 2 C C21 8JY . . . G 7 147.932 161.53 192.098 1 20 ? C21 8JY 501 U 1 HETATM 3 C C22 8JY . . . G 7 148.418 162.261 193.384 1 20 ? C22 8JY 501 U 1 HETATM 4 C C17 8JY . . . G 7 147.15 161.171 188.816 1 20 ? C17 8JY 501 U 1 HETATM 5 C C18 8JY . . . G 7 147.443 162.374 189.853 1 20 ? C18 8JY 501 U 1 HETATM 6 C C01 8JY . . . G 7 147.348 158.623 184.117 1 20 ? C01 8JY 501 U 1 HETATM 7 C C02 8JY . . . G 7 147.061 158.863 182.775 1 20 ? C02 8JY 501 U 1 HETATM 8 C C03 8JY . . . G 7 146.002 159.744 182.424 1 20 ? C03 8JY 501 U 1 HETATM 9 C C04 8JY . . . G 7 145.243 160.369 183.435 1 20 ? C04 8JY 501 U 1 HETATM 10 C C05 8JY . . . G 7 145.504 160.16 184.819 1 20 ? C05 8JY 501 U 1 HETATM 11 C C06 8JY . . . G 7 146.574 159.268 185.187 1 20 ? C06 8JY 501 U 1 HETATM 12 C C23 8JY . . . G 7 147.481 162.24 194.649 1 20 ? C23 8JY 501 U 1 HETATM 13 C C24 8JY . . . G 7 146.989 163.644 195.193 1 20 ? C24 8JY 501 U 1 HETATM 14 C C25 8JY . . . G 7 147.149 163.9 196.739 1 20 ? C25 8JY 501 U 1 HETATM 15 C C26 8JY . . . G 7 148.576 163.657 197.31 1 20 ? C26 8JY 501 U 1 HETATM 16 C C29 8JY . . . G 7 145.513 164.751 191.25 1 20 ? C29 8JY 501 U 1 HETATM 17 C C30 8JY . . . G 7 145.613 166.291 190.834 1 20 ? C30 8JY 501 U 1 HETATM 18 C C31 8JY . . . G 7 146.027 167.247 192.012 1 20 ? C31 8JY 501 U 1 HETATM 19 C C32 8JY . . . G 7 145.605 166.758 193.455 1 20 ? C32 8JY 501 U 1 HETATM 20 C C33 8JY . . . G 7 145.786 167.783 194.618 1 20 ? C33 8JY 501 U 1 HETATM 21 C C34 8JY . . . G 7 145.635 169.266 194.216 1 20 ? C34 8JY 501 U 1 HETATM 22 C C35 8JY . . . G 7 144.426 162.166 185.9 1 20 ? C35 8JY 501 U 1 HETATM 23 C C36 8JY . . . G 7 143.995 162.981 187.17 1 20 ? C36 8JY 501 U 1 HETATM 24 C C38 8JY . . . G 7 142.551 163.647 187.124 1 20 ? C38 8JY 501 U 1 HETATM 25 C C39 8JY . . . G 7 142.164 164.574 188.338 1 20 ? C39 8JY 501 U 1 HETATM 26 C C40 8JY . . . G 7 141.961 166.093 187.999 1 20 ? C40 8JY 501 U 1 HETATM 27 C C41 8JY . . . G 7 141.174 166.932 189.06 1 20 ? C41 8JY 501 U 1 HETATM 28 C C42 8JY . . . G 7 140.4 168.154 188.491 1 20 ? C42 8JY 501 U 1 HETATM 29 O O07 8JY . . . G 7 146.863 159.018 186.483 1 20 ? O07 8JY 501 U 1 HETATM 30 O O08 8JY . . . G 7 148.388 157.762 184.49 1 20 ? O08 8JY 501 U 1 HETATM 31 O O09 8JY . . . G 7 147.831 158.228 181.785 1 20 ? O09 8JY 501 U 1 HETATM 32 O O10 8JY . . . G 7 145.735 159.967 181.07 1 20 ? O10 8JY 501 U 1 HETATM 33 O O11 8JY . . . G 7 144.2 161.234 183.085 1 20 ? O11 8JY 501 U 1 HETATM 34 O O12 8JY . . . G 7 144.712 160.798 185.842 1 20 ? O12 8JY 501 U 1 HETATM 35 O O14 8JY . . . G 7 148.264 160.322 188.683 1 20 ? O14 8JY 501 U 1 HETATM 36 O O15 8JY . . . G 7 148.737 157.891 187.817 1 20 ? O15 8JY 501 U 1 HETATM 37 O O16 8JY . . . G 7 149.398 159.892 186.315 1 20 ? O16 8JY 501 U 1 HETATM 38 O O19 8JY . . . G 7 147.025 162.001 191.197 1 20 ? O19 8JY 501 U 1 HETATM 39 O O27 8JY . . . G 7 148.402 160.419 191.82 1 20 ? O27 8JY 501 U 1 HETATM 40 O O28 8JY . . . G 7 145.472 163.877 190.091 1 20 ? O28 8JY 501 U 1 HETATM 41 O O37 8JY . . . G 7 144.516 162.788 184.842 1 20 ? O37 8JY 501 U 1 HETATM 42 P P13 8JY . . . G 7 148.464 159.266 187.308 1 20 ? P13 8JY 501 U 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 42 #