data_8GVX # _model_server_result.job_id cfGCGhgXO8qNm3XM5BMcVQ _model_server_result.datetime_utc '2025-07-03 14:41:47' _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 8gvx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":802}' # _entry.id 8GVX # _exptl.entry_id 8GVX _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 486.726 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CHOLESTEROL HEMISUCCINATE' _entity.pdbx_number_of_molecules 4 _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 8GVX _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GVX _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _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 ? 4 J N N ? 4 S N N ? 4 X N N ? 4 CA 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 553 B CYS 553 1_555 A SG CYS 558 B CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 F SG CYS 553 A CYS 553 1_555 F SG CYS 558 A CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 G SG CYS 553 C CYS 553 1_555 G SG CYS 558 C CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 H SG CYS 553 D CYS 553 1_555 H SG CYS 558 D CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc1 A ND1 HIS 172 B HIS 172 1_555 K ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc2 A SG CYS 176 B CYS 176 1_555 K ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc3 A SG CYS 178 B CYS 178 1_555 K ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc4 A SG CYS 181 B CYS 181 1_555 K ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc5 A OE2 GLU 418 B GLU 418 1_555 L CA CA . B CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? metalc ? metalc6 A OE1 GLU 421 B GLU 421 1_555 L CA CA . B CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? metalc ? metalc7 A OD1 ASN 436 B ASN 436 1_555 L CA CA . B CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc8 A OD2 ASP 439 B ASP 439 1_555 L CA CA . B CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc9 F ND1 HIS 172 A HIS 172 1_555 T ZN ZN . A ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc10 F SG CYS 176 A CYS 176 1_555 T ZN ZN . A ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc11 F SG CYS 178 A CYS 178 1_555 T ZN ZN . A ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc12 F SG CYS 181 A CYS 181 1_555 T ZN ZN . A ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc13 F OE2 GLU 418 A GLU 418 1_555 U CA CA . A CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? metalc ? metalc14 F OE1 GLU 421 A GLU 421 1_555 U CA CA . A CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? metalc ? metalc15 F OD1 ASN 436 A ASN 436 1_555 U CA CA . A CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc16 F OD2 ASP 439 A ASP 439 1_555 U CA CA . A CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc17 G ND1 HIS 172 C HIS 172 1_555 Y ZN ZN . C ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc18 G SG CYS 176 C CYS 176 1_555 Y ZN ZN . C ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc19 G SG CYS 178 C CYS 178 1_555 Y ZN ZN . C ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc20 G SG CYS 181 C CYS 181 1_555 Y ZN ZN . C ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc21 G OE2 GLU 418 C GLU 418 1_555 Z CA CA . C CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? metalc ? metalc22 G OE1 GLU 421 C GLU 421 1_555 Z CA CA . C CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? metalc ? metalc23 G OD1 ASN 436 C ASN 436 1_555 Z CA CA . C CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc24 G OD2 ASP 439 C ASP 439 1_555 Z CA CA . C CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc25 H ND1 HIS 172 D HIS 172 1_555 DA ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc26 H SG CYS 176 D CYS 176 1_555 DA ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc27 H SG CYS 178 D CYS 178 1_555 DA ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc28 H SG CYS 181 D CYS 181 1_555 DA ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc29 H OE2 GLU 418 D GLU 418 1_555 EA CA CA . D CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? metalc ? metalc30 H OE1 GLU 421 D GLU 421 1_555 EA CA CA . D CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? metalc ? metalc31 H OD1 ASN 436 D ASN 436 1_555 EA CA CA . D CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc32 H OD2 ASP 439 D ASP 439 1_555 EA CA CA . D CA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? # _chem_comp.formula 'C31 H50 O4' _chem_comp.formula_weight 486.726 _chem_comp.id Y01 _chem_comp.mon_nstd_flag . _chem_comp.name 'CHOLESTEROL HEMISUCCINATE' _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 CAA CBA Y01 sing 553 n n CBA CAB Y01 sing 554 n n CBA CAN Y01 sing 555 n n CAN CAJ Y01 sing 556 n n CAJ CAO Y01 sing 557 n n CAO CBB Y01 sing 558 n n CBB CAC Y01 sing 559 n n CBB CBE Y01 sing 560 n n CBE CAP Y01 sing 561 n n CBE CBI Y01 sing 562 n n CAP CAQ Y01 sing 563 n n CAQ CBG Y01 sing 564 n n CBG CBI Y01 sing 565 n n CBG CBD Y01 sing 566 n n CBI CAE Y01 sing 567 n n CBI CAU Y01 sing 568 n n CAU CAS Y01 sing 569 n n CAS CBF Y01 sing 570 n n CBF CBD Y01 sing 571 n n CBF CBH Y01 sing 572 n n CBD CAK Y01 sing 573 n n CAK CAI Y01 sing 574 n n CAI CAZ Y01 doub 575 n n CAZ CAV Y01 sing 576 n n CAZ CBH Y01 sing 577 n n CAV CBC Y01 sing 578 n n CBH CAD Y01 sing 579 n n CBH CAT Y01 sing 580 n n CAT CAR Y01 sing 581 n n CAR CBC Y01 sing 582 n n CBC OAW Y01 sing 583 n n OAW CAY Y01 sing 584 n n CAY OAG Y01 doub 585 n n CAY CAM Y01 sing 586 n n CAM CAL Y01 sing 587 n n CAL CAX Y01 sing 588 n n CAX OAH Y01 sing 589 n n CAX OAF Y01 doub 590 n n CAA HAA1 Y01 sing 591 n n CAA HAA2 Y01 sing 592 n n CAA HAA3 Y01 sing 593 n n CBA HBA Y01 sing 594 n n CAB HAB1 Y01 sing 595 n n CAB HAB2 Y01 sing 596 n n CAB HAB3 Y01 sing 597 n n CAN HAN1 Y01 sing 598 n n CAN HAN2 Y01 sing 599 n n CAJ HAJ1 Y01 sing 600 n n CAJ HAJ2 Y01 sing 601 n n CAO HAO1 Y01 sing 602 n n CAO HAO2 Y01 sing 603 n n CBB HBB Y01 sing 604 n n CAC HAC1 Y01 sing 605 n n CAC HAC2 Y01 sing 606 n n CAC HAC3 Y01 sing 607 n n CBE HBE Y01 sing 608 n n CAP HAP1 Y01 sing 609 n n CAP HAP2 Y01 sing 610 n n CAQ HAQ1 Y01 sing 611 n n CAQ HAQ2 Y01 sing 612 n n CBG HBG Y01 sing 613 n n CBD HBD Y01 sing 614 n n CAE HAE1 Y01 sing 615 n n CAE HAE2 Y01 sing 616 n n CAE HAE3 Y01 sing 617 n n CAU HAU1 Y01 sing 618 n n CAU HAU2 Y01 sing 619 n n CAS HAS1 Y01 sing 620 n n CAS HAS2 Y01 sing 621 n n CBF HBF Y01 sing 622 n n CAK HAK1 Y01 sing 623 n n CAK HAK2 Y01 sing 624 n n CAI HAI Y01 sing 625 n n CAV HAV1 Y01 sing 626 n n CAV HAV2 Y01 sing 627 n n CBC HBC Y01 sing 628 n n CAD HAD1 Y01 sing 629 n n CAD HAD2 Y01 sing 630 n n CAD HAD3 Y01 sing 631 n n CAT HAT1 Y01 sing 632 n n CAT HAT2 Y01 sing 633 n n CAR HAR1 Y01 sing 634 n n CAR HAR2 Y01 sing 635 n n CAM HAM1 Y01 sing 636 n n CAM HAM2 Y01 sing 637 n n CAL HAL1 Y01 sing 638 n n CAL HAL2 Y01 sing 639 n n OAH HAH Y01 sing 640 n n # _atom_sites.entry_id 8GVX _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 I 3 PTY B 1 801 801 PTY PTY . J 4 Y01 B 1 802 803 Y01 Y01 . K 5 ZN B 1 803 804 ZN ZN . L 6 CA B 1 804 805 CA CA . M 7 YZY B 1 805 806 YZY YZY . N 8 GTP F 1 401 401 GTP GTP . O 8 GTP E 1 401 401 GTP GTP . P 8 GTP G 1 401 401 GTP GTP . Q 8 GTP H 1 401 401 GTP GTP . R 3 PTY A 1 801 801 PTY PTY . S 4 Y01 A 1 802 803 Y01 Y01 . T 5 ZN A 1 803 804 ZN ZN . U 6 CA A 1 804 805 CA CA . V 7 YZY A 1 805 806 YZY YZY . W 3 PTY C 1 801 801 PTY PTY . X 4 Y01 C 1 802 803 Y01 Y01 . Y 5 ZN C 1 803 804 ZN ZN . Z 6 CA C 1 804 805 CA CA . AA 7 YZY C 1 805 806 YZY YZY . BA 3 PTY D 1 801 801 PTY PTY . CA 4 Y01 D 1 802 803 Y01 Y01 . DA 5 ZN D 1 803 804 ZN ZN . EA 6 CA D 1 804 805 CA CA . FA 7 YZY D 1 805 806 YZY YZY . # 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 CAA Y01 . . . CA 4 166.759 199.627 201.581 1 161.56 ? CAA Y01 802 D 1 HETATM 2 C CBA Y01 . . . CA 4 166.448 198.34 200.832 1 161.56 ? CBA Y01 802 D 1 HETATM 3 C CAB Y01 . . . CA 4 167.226 198.282 199.527 1 161.56 ? CAB Y01 802 D 1 HETATM 4 C CAN Y01 . . . CA 4 164.945 198.186 200.592 1 161.56 ? CAN Y01 802 D 1 HETATM 5 C CAJ Y01 . . . CA 4 164.303 199.259 199.747 1 161.56 ? CAJ Y01 802 D 1 HETATM 6 C CAO Y01 . . . CA 4 162.808 199.089 199.618 1 161.56 ? CAO Y01 802 D 1 HETATM 7 C CBB Y01 . . . CA 4 162.091 200.152 198.77 1 161.56 ? CBB Y01 802 D 1 HETATM 8 C CAC Y01 . . . CA 4 162.416 201.552 199.284 1 161.56 ? CAC Y01 802 D 1 HETATM 9 C CBE Y01 . . . CA 4 162.42 199.96 197.278 1 161.56 ? CBE Y01 802 D 1 HETATM 10 C CAP Y01 . . . CA 4 162.181 198.502 196.8 1 161.56 ? CAP Y01 802 D 1 HETATM 11 C CAQ Y01 . . . CA 4 161.777 198.579 195.315 1 161.56 ? CAQ Y01 802 D 1 HETATM 12 C CBG Y01 . . . CA 4 162.087 200.024 194.936 1 161.56 ? CBG Y01 802 D 1 HETATM 13 C CBI Y01 . . . CA 4 161.689 200.815 196.199 1 161.56 ? CBI Y01 802 D 1 HETATM 14 C CAE Y01 . . . CA 4 160.17 200.786 196.441 1 161.56 ? CAE Y01 802 D 1 HETATM 15 C CAU Y01 . . . CA 4 162.186 202.251 196.003 1 161.56 ? CAU Y01 802 D 1 HETATM 16 C CAS Y01 . . . CA 4 161.612 202.869 194.723 1 161.56 ? CAS Y01 802 D 1 HETATM 17 C CBF Y01 . . . CA 4 161.945 202.048 193.467 1 161.56 ? CBF Y01 802 D 1 HETATM 18 C CBD Y01 . . . CA 4 161.536 200.573 193.626 1 161.56 ? CBD Y01 802 D 1 HETATM 19 C CAK Y01 . . . CA 4 162.058 199.759 192.446 1 161.56 ? CAK Y01 802 D 1 HETATM 20 C CAI Y01 . . . CA 4 161.908 200.466 191.136 1 161.56 ? CAI Y01 802 D 1 HETATM 21 C CAZ Y01 . . . CA 4 161.562 201.737 190.991 1 161.56 ? CAZ Y01 802 D 1 HETATM 22 C CAV Y01 . . . CA 4 161.361 202.332 189.612 1 161.56 ? CAV Y01 802 D 1 HETATM 23 C CBH Y01 . . . CA 4 161.383 202.692 192.167 1 161.56 ? CBH Y01 802 D 1 HETATM 24 C CAD Y01 . . . CA 4 159.883 203.017 192.288 1 161.56 ? CAD Y01 802 D 1 HETATM 25 C CAT Y01 . . . CA 4 162.177 203.986 191.874 1 161.56 ? CAT Y01 802 D 1 HETATM 26 C CAR Y01 . . . CA 4 161.933 204.564 190.479 1 161.56 ? CAR Y01 802 D 1 HETATM 27 C CBC Y01 . . . CA 4 162.239 203.546 189.416 1 161.56 ? CBC Y01 802 D 1 HETATM 28 O OAW Y01 . . . CA 4 161.974 204.123 188.102 1 161.56 ? OAW Y01 802 D 1 HETATM 29 C CAY Y01 . . . CA 4 162.467 203.523 187.02 1 161.56 ? CAY Y01 802 D 1 HETATM 30 O OAG Y01 . . . CA 4 162.972 202.438 187.026 1 161.56 ? OAG Y01 802 D 1 HETATM 31 C CAM Y01 . . . CA 4 162.364 204.398 185.799 1 161.56 ? CAM Y01 802 D 1 HETATM 32 C CAL Y01 . . . CA 4 161.511 203.903 184.648 1 161.56 ? CAL Y01 802 D 1 HETATM 33 C CAX Y01 . . . CA 4 160.023 203.828 184.941 1 161.56 ? CAX Y01 802 D 1 HETATM 34 O OAH Y01 . . . CA 4 159.249 204.509 184.24 1 161.56 ? OAH Y01 802 D 1 HETATM 35 O OAF Y01 . . . CA 4 159.643 203.09 185.868 1 161.56 ? OAF Y01 802 D 1 # _model_server_stats.io_time_ms 121 _model_server_stats.parse_time_ms 169 _model_server_stats.create_model_time_ms 101 _model_server_stats.query_time_ms 368 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 35 #