data_8IX1 # _model_server_result.job_id NaVdw4oZ-5EEsxJI1sovCg _model_server_result.datetime_utc '2025-09-07 02:03:43' _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 8ix1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"OA","auth_seq_id":319}' # _entry.id 8IX1 # _exptl.entry_id 8IX1 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 600.87 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL _entity.pdbx_number_of_molecules 3 _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 8IX1 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8IX1 _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,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,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB _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 ? 6 T N N ? 6 OA N N ? 6 GB 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 metalc ? metalc1 A OE2 GLU 52 G GLU 65 1_555 E MG CLA . G CLA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc2 A O HIS 107 G HIS 120 1_555 H MG CHL . G CHL 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? metalc ? metalc3 A OE2 GLU 126 G GLU 139 1_555 K MG CHL . G CHL 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? metalc ? metalc4 A OE2 GLU 167 G GLU 180 1_555 L MG CLA . G CLA 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.553 ? metalc ? metalc5 B OE1 GLU 52 N GLU 65 1_555 Y MG CLA . N CLA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc6 B OD1 ASN 170 N ASN 183 1_555 IA MG CLA . N CLA 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? metalc ? metalc7 HA MG CLA . N CLA 312 1_555 PA O4 LHG . N LHG 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc8 C OE1 GLU 52 Y GLU 65 1_555 SA MG CLA . Y CLA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc9 C OE2 GLU 126 Y GLU 139 1_555 YA MG CHL . Y CHL 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc10 AB MG CLA . Y CLA 610 1_555 HB O4 LHG . Y LHG 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? # _chem_comp.formula 'C40 H56 O4' _chem_comp.formula_weight 600.87 _chem_comp.id NEX _chem_comp.mon_nstd_flag . _chem_comp.name (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "(3S,5R,6R,3'S,5'R,6'S)-5',6'-EPOXY-6,7-DIDEHYDRO- 5,6,5',6'-TETRAHYDRO-BETA,BETA-CAROTENE-3,5,3'-TRIOL;9'-CIS-NEOXANTHIN" # 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 C1 C2 NEX sing 746 n n C1 C6 NEX sing 747 n n C1 C16 NEX sing 748 n n C1 C17 NEX sing 749 n n C2 C3 NEX sing 750 n n C2 H21 NEX sing 751 n n C2 H22 NEX sing 752 n n C3 C4 NEX sing 753 n n C3 O3 NEX sing 754 n n C3 H3 NEX sing 755 n n C4 C5 NEX sing 756 n n C4 H41 NEX sing 757 n n C4 H42 NEX sing 758 n n C5 C6 NEX sing 759 n n C5 C18 NEX sing 760 n n C5 O4 NEX sing 761 n n C6 C7 NEX doub 762 n n C7 C8 NEX doub 763 n n C8 C9 NEX sing 764 n n C8 H8 NEX sing 765 n n C9 C10 NEX doub 766 e n C9 C19 NEX sing 767 n n C10 C11 NEX sing 768 n n C10 H10 NEX sing 769 n n C11 C12 NEX doub 770 e n C11 H11 NEX sing 771 n n C12 C13 NEX sing 772 n n C12 H12 NEX sing 773 n n C13 C14 NEX doub 774 e n C13 C20 NEX sing 775 n n C14 C15 NEX sing 776 n n C14 H14 NEX sing 777 n n C15 C35 NEX doub 778 e n C15 H15 NEX sing 779 n n C16 H161 NEX sing 780 n n C16 H162 NEX sing 781 n n C16 H163 NEX sing 782 n n C17 H171 NEX sing 783 n n C17 H172 NEX sing 784 n n C17 H173 NEX sing 785 n n C18 H181 NEX sing 786 n n C18 H182 NEX sing 787 n n C18 H183 NEX sing 788 n n C19 H191 NEX sing 789 n n C19 H192 NEX sing 790 n n C19 H193 NEX sing 791 n n C20 H201 NEX sing 792 n n C20 H202 NEX sing 793 n n C20 H203 NEX sing 794 n n O3 HO3 NEX sing 795 n n O4 HO4 NEX sing 796 n n C21 C22 NEX sing 797 n n C21 C26 NEX sing 798 n n C21 C36 NEX sing 799 n n C21 C37 NEX sing 800 n n C22 C23 NEX sing 801 n n C22 H221 NEX sing 802 n n C22 H222 NEX sing 803 n n C23 C24 NEX sing 804 n n C23 O23 NEX sing 805 n n C23 H23 NEX sing 806 n n C24 C25 NEX sing 807 n n C24 H241 NEX sing 808 n n C24 H242 NEX sing 809 n n C25 C26 NEX sing 810 n n C25 C38 NEX sing 811 n n C25 O24 NEX sing 812 n n C26 C27 NEX sing 813 n n C26 O24 NEX sing 814 n n C27 C28 NEX doub 815 e n C27 H27 NEX sing 816 n n C28 C29 NEX sing 817 n n C28 H28 NEX sing 818 n n C29 C30 NEX doub 819 z n C29 C39 NEX sing 820 n n C30 C31 NEX sing 821 n n C30 H30 NEX sing 822 n n C31 C32 NEX doub 823 e n C31 H31 NEX sing 824 n n C32 C33 NEX sing 825 n n C32 H32 NEX sing 826 n n C33 C34 NEX doub 827 e n C33 C40 NEX sing 828 n n C34 C35 NEX sing 829 n n C34 H34 NEX sing 830 n n C35 H35 NEX sing 831 n n C36 H361 NEX sing 832 n n C36 H362 NEX sing 833 n n C36 H363 NEX sing 834 n n C37 H371 NEX sing 835 n n C37 H372 NEX sing 836 n n C37 H373 NEX sing 837 n n C38 H381 NEX sing 838 n n C38 H382 NEX sing 839 n n C38 H383 NEX sing 840 n n C39 H391 NEX sing 841 n n C39 H392 NEX sing 842 n n C39 H393 NEX sing 843 n n C40 H401 NEX sing 844 n n C40 H402 NEX sing 845 n n C40 H403 NEX sing 846 n n O23 H1 NEX sing 847 n n # _atom_sites.entry_id 8IX1 _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 D 2 CHL G 1 601 601 CHL CHL . E 3 CLA G 1 602 602 CLA CLA . F 3 CLA G 1 603 603 CLA CLA . G 3 CLA G 1 604 604 CLA CLA . H 2 CHL G 1 605 605 CHL CHL . I 2 CHL G 1 606 606 CHL CHL . J 2 CHL G 1 607 608 CHL CHL . K 2 CHL G 1 608 609 CHL CHL . L 3 CLA G 1 609 610 CLA CLA . M 3 CLA G 1 610 611 CLA CLA . N 3 CLA G 1 611 612 CLA CLA . O 3 CLA G 1 612 613 CLA CLA . P 3 CLA G 1 613 614 CLA CLA . Q 4 LUT G 1 614 1620 LUT LUT . R 4 LUT G 1 615 1621 LUT LUT . S 5 XAT G 1 616 1622 XAT XAT . T 6 NEX G 1 617 1623 NEX NEX . U 7 LHG G 1 618 2630 LHG LHG . V 2 CHL G 1 619 607 CHL CHL . W 2 CHL N 1 301 607 CHL CHL . X 2 CHL N 1 302 601 CHL CHL . Y 3 CLA N 1 303 602 CLA CLA . Z 3 CLA N 1 304 603 CLA CLA . AA 3 CLA N 1 305 604 CLA CLA . BA 2 CHL N 1 306 605 CHL CHL . CA 2 CHL N 1 307 606 CHL CHL . DA 2 CHL N 1 308 607 CHL CHL . EA 2 CHL N 1 309 608 CHL CHL . FA 2 CHL N 1 310 609 CHL CHL . GA 3 CLA N 1 311 610 CLA CLA . HA 3 CLA N 1 312 611 CLA CLA . IA 3 CLA N 1 313 612 CLA CLA . JA 3 CLA N 1 314 613 CLA CLA . KA 3 CLA N 1 315 614 CLA CLA . LA 4 LUT N 1 316 1620 LUT LUT . MA 4 LUT N 1 317 1621 LUT LUT . NA 5 XAT N 1 318 1622 XAT XAT . OA 6 NEX N 1 319 1623 NEX NEX . PA 7 LHG N 1 320 2630 LHG LHG . QA 5 XAT N 1 321 1622 XAT XAT . RA 2 CHL Y 1 601 601 CHL CHL . SA 3 CLA Y 1 602 602 CLA CLA . TA 3 CLA Y 1 603 603 CLA CLA . UA 3 CLA Y 1 604 604 CLA CLA . VA 2 CHL Y 1 605 605 CHL CHL . WA 2 CHL Y 1 606 606 CHL CHL . XA 2 CHL Y 1 607 608 CHL CHL . YA 2 CHL Y 1 608 609 CHL CHL . ZA 3 CLA Y 1 609 610 CLA CLA . AB 3 CLA Y 1 610 611 CLA CLA . BB 3 CLA Y 1 611 612 CLA CLA . CB 3 CLA Y 1 612 613 CLA CLA . DB 3 CLA Y 1 613 614 CLA CLA . EB 4 LUT Y 1 614 1620 LUT LUT . FB 4 LUT Y 1 615 1621 LUT LUT . GB 6 NEX Y 1 616 1623 NEX NEX . HB 7 LHG Y 1 617 2630 LHG LHG . # 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 NEX . . . OA 6 121.093 102.769 76.02 1 23.12 ? C1 NEX 319 N 1 HETATM 2 C C2 NEX . . . OA 6 122.286 102.23 76.805 1 22.58 ? C2 NEX 319 N 1 HETATM 3 C C3 NEX . . . OA 6 123.519 102.2 75.916 1 23.03 ? C3 NEX 319 N 1 HETATM 4 C C4 NEX . . . OA 6 123.892 103.637 75.599 1 22.45 ? C4 NEX 319 N 1 HETATM 5 C C5 NEX . . . OA 6 122.826 104.33 74.78 1 24.76 ? C5 NEX 319 N 1 HETATM 6 C C6 NEX . . . OA 6 121.47 104.14 75.418 1 22.52 ? C6 NEX 319 N 1 HETATM 7 C C7 NEX . . . OA 6 120.66 105.115 75.486 1 21.68 ? C7 NEX 319 N 1 HETATM 8 C C8 NEX . . . OA 6 119.853 106.089 75.554 1 24.74 ? C8 NEX 319 N 1 HETATM 9 C C9 NEX . . . OA 6 119.288 106.478 76.859 1 20.4 ? C9 NEX 319 N 1 HETATM 10 C C10 NEX . . . OA 6 118.052 107.03 76.918 1 22.4 ? C10 NEX 319 N 1 HETATM 11 C C11 NEX . . . OA 6 117.52 107.41 78.218 1 20.11 ? C11 NEX 319 N 1 HETATM 12 C C12 NEX . . . OA 6 116.35 108.026 78.35 1 21.87 ? C12 NEX 319 N 1 HETATM 13 C C13 NEX . . . OA 6 115.944 108.379 79.719 1 22.62 ? C13 NEX 319 N 1 HETATM 14 C C14 NEX . . . OA 6 115.099 109.406 79.944 1 21.8 ? C14 NEX 319 N 1 HETATM 15 C C15 NEX . . . OA 6 114.698 109.752 81.307 1 25.47 ? C15 NEX 319 N 1 HETATM 16 C C16 NEX . . . OA 6 119.856 102.824 76.93 1 19.79 ? C16 NEX 319 N 1 HETATM 17 C C17 NEX . . . OA 6 120.732 101.795 74.896 1 19.9 ? C17 NEX 319 N 1 HETATM 18 C C18 NEX . . . OA 6 123.218 105.787 74.665 1 21.48 ? C18 NEX 319 N 1 HETATM 19 C C19 NEX . . . OA 6 120.119 106.344 78.086 1 23.75 ? C19 NEX 319 N 1 HETATM 20 C C20 NEX . . . OA 6 116.469 107.522 80.832 1 20.05 ? C20 NEX 319 N 1 HETATM 21 O O3 NEX . . . OA 6 124.606 101.59 76.621 1 26.35 ? O3 NEX 319 N 1 HETATM 22 O O4 NEX . . . OA 6 122.821 103.798 73.441 1 28.18 ? O4 NEX 319 N 1 HETATM 23 C C21 NEX . . . OA 6 108.361 118.296 85.163 1 25.18 ? C21 NEX 319 N 1 HETATM 24 C C22 NEX . . . OA 6 107.095 119.126 85.253 1 20.22 ? C22 NEX 319 N 1 HETATM 25 C C23 NEX . . . OA 6 105.907 118.422 84.643 1 25.13 ? C23 NEX 319 N 1 HETATM 26 C C24 NEX . . . OA 6 105.553 117.303 85.599 1 20.01 ? C24 NEX 319 N 1 HETATM 27 C C25 NEX . . . OA 6 106.707 116.306 85.754 1 25.28 ? C25 NEX 319 N 1 HETATM 28 C C26 NEX . . . OA 6 108.156 116.818 85.555 1 23.1 ? C26 NEX 319 N 1 HETATM 29 C C27 NEX . . . OA 6 109.145 116.182 86.532 1 21.9 ? C27 NEX 319 N 1 HETATM 30 C C28 NEX . . . OA 6 110.134 115.397 86.1 1 24.41 ? C28 NEX 319 N 1 HETATM 31 C C29 NEX . . . OA 6 111.061 114.762 87.06 1 23.32 ? C29 NEX 319 N 1 HETATM 32 C C30 NEX . . . OA 6 112.028 113.923 86.652 1 19.99 ? C30 NEX 319 N 1 HETATM 33 C C31 NEX . . . OA 6 112.31 113.66 85.242 1 22.65 ? C31 NEX 319 N 1 HETATM 34 C C32 NEX . . . OA 6 113.003 112.583 84.87 1 18.47 ? C32 NEX 319 N 1 HETATM 35 C C33 NEX . . . OA 6 113.318 112.341 83.445 1 23.86 ? C33 NEX 319 N 1 HETATM 36 C C34 NEX . . . OA 6 113.694 111.121 83.025 1 21.06 ? C34 NEX 319 N 1 HETATM 37 C C35 NEX . . . OA 6 114.031 110.862 81.621 1 23.57 ? C35 NEX 319 N 1 HETATM 38 C C36 NEX . . . OA 6 109.418 118.947 86.047 1 20.06 ? C36 NEX 319 N 1 HETATM 39 C C37 NEX . . . OA 6 108.855 118.347 83.724 1 23.4 ? C37 NEX 319 N 1 HETATM 40 C C38 NEX . . . OA 6 106.561 115.298 86.905 1 22.05 ? C38 NEX 319 N 1 HETATM 41 C C39 NEX . . . OA 6 110.861 114.982 88.529 1 22.19 ? C39 NEX 319 N 1 HETATM 42 C C40 NEX . . . OA 6 113.28 113.489 82.48 1 20.53 ? C40 NEX 319 N 1 HETATM 43 O O23 NEX . . . OA 6 104.813 119.337 84.523 1 26.81 ? O23 NEX 319 N 1 HETATM 44 O O24 NEX . . . OA 6 107.493 115.975 84.607 1 28.3 ? O24 NEX 319 N 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 370 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #