data_4XP9 # _model_server_result.job_id fV0Z9J4PjAgXHuWVrwWb-A _model_server_result.datetime_utc '2024-11-27 22:19:11' _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 4xp9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":701}' # _entry.id 4XP9 # _exptl.entry_id 4XP9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 486.726 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'CHOLESTEROL HEMISUCCINATE' _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 4XP9 _cell.length_a 97.348 _cell.length_b 140.748 _cell.length_c 166.76 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XP9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 x,y,z _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 GLC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 4 n D GLC 1 A 1 GLC C 603 MAL 4 n D GLC 2 A 2 GLC C 603 MAL # 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 124 C CYS 148 1_555 A SG CYS 133 C CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf2 B SG CYS 23 L CYS 23 1_555 B SG CYS 89 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? disulf ? disulf3 B SG CYS 135 L CYS 135 1_555 B SG CYS 195 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf4 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf5 C SG CYS 146 H CYS 146 1_555 C SG CYS 201 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 A ND2 ASN 117 C ASN 141 1_555 F C1 NAG . C NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale2 D O4 GLC . A GLC 1 1_555 D C1 GLC . A GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.404 sing metalc ? metalc1 A O GLY 18 C GLY 42 1_555 M NA NA . C NA 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc2 A O ALA 20 C ALA 44 1_555 L NA NA . C NA 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc3 A O VAL 21 C VAL 45 1_555 M NA NA . C NA 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc4 A OD1 ASN 25 C ASN 49 1_555 L NA NA . C NA 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc5 A O SER 255 C SER 320 1_555 L NA NA . C NA 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc6 A OG SER 255 C SER 320 1_555 L NA NA . C NA 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc7 A OD1 ASN 287 C ASN 352 1_555 L NA NA . C NA 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.772 ? metalc ? metalc8 A O LEU 352 C LEU 417 1_555 M NA NA . C NA 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc9 A OD2 ASP 355 C ASP 420 1_555 M NA NA . C NA 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.923 ? metalc ? metalc10 A OG SER 356 C SER 421 1_555 M NA NA . C NA 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc11 L NA NA . C NA 709 1_555 O O HOH . C HOH 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? # _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 586 n n CBA CAB Y01 sing 587 n n CBA CAN Y01 sing 588 n n CAN CAJ Y01 sing 589 n n CAJ CAO Y01 sing 590 n n CAO CBB Y01 sing 591 n n CBB CAC Y01 sing 592 n n CBB CBE Y01 sing 593 n n CBE CAP Y01 sing 594 n n CBE CBI Y01 sing 595 n n CAP CAQ Y01 sing 596 n n CAQ CBG Y01 sing 597 n n CBG CBI Y01 sing 598 n n CBG CBD Y01 sing 599 n n CBI CAE Y01 sing 600 n n CBI CAU Y01 sing 601 n n CAU CAS Y01 sing 602 n n CAS CBF Y01 sing 603 n n CBF CBD Y01 sing 604 n n CBF CBH Y01 sing 605 n n CBD CAK Y01 sing 606 n n CAK CAI Y01 sing 607 n n CAI CAZ Y01 doub 608 n n CAZ CAV Y01 sing 609 n n CAZ CBH Y01 sing 610 n n CAV CBC Y01 sing 611 n n CBH CAD Y01 sing 612 n n CBH CAT Y01 sing 613 n n CAT CAR Y01 sing 614 n n CAR CBC Y01 sing 615 n n CBC OAW Y01 sing 616 n n OAW CAY Y01 sing 617 n n CAY OAG Y01 doub 618 n n CAY CAM Y01 sing 619 n n CAM CAL Y01 sing 620 n n CAL CAX Y01 sing 621 n n CAX OAH Y01 sing 622 n n CAX OAF Y01 doub 623 n n CAA HAA1 Y01 sing 624 n n CAA HAA2 Y01 sing 625 n n CAA HAA3 Y01 sing 626 n n CBA HBA Y01 sing 627 n n CAB HAB1 Y01 sing 628 n n CAB HAB2 Y01 sing 629 n n CAB HAB3 Y01 sing 630 n n CAN HAN1 Y01 sing 631 n n CAN HAN2 Y01 sing 632 n n CAJ HAJ1 Y01 sing 633 n n CAJ HAJ2 Y01 sing 634 n n CAO HAO1 Y01 sing 635 n n CAO HAO2 Y01 sing 636 n n CBB HBB Y01 sing 637 n n CAC HAC1 Y01 sing 638 n n CAC HAC2 Y01 sing 639 n n CAC HAC3 Y01 sing 640 n n CBE HBE Y01 sing 641 n n CAP HAP1 Y01 sing 642 n n CAP HAP2 Y01 sing 643 n n CAQ HAQ1 Y01 sing 644 n n CAQ HAQ2 Y01 sing 645 n n CBG HBG Y01 sing 646 n n CBD HBD Y01 sing 647 n n CAE HAE1 Y01 sing 648 n n CAE HAE2 Y01 sing 649 n n CAE HAE3 Y01 sing 650 n n CAU HAU1 Y01 sing 651 n n CAU HAU2 Y01 sing 652 n n CAS HAS1 Y01 sing 653 n n CAS HAS2 Y01 sing 654 n n CBF HBF Y01 sing 655 n n CAK HAK1 Y01 sing 656 n n CAK HAK2 Y01 sing 657 n n CAI HAI Y01 sing 658 n n CAV HAV1 Y01 sing 659 n n CAV HAV2 Y01 sing 660 n n CBC HBC Y01 sing 661 n n CAD HAD1 Y01 sing 662 n n CAD HAD2 Y01 sing 663 n n CAD HAD3 Y01 sing 664 n n CAT HAT1 Y01 sing 665 n n CAT HAT2 Y01 sing 666 n n CAR HAR1 Y01 sing 667 n n CAR HAR2 Y01 sing 668 n n CAM HAM1 Y01 sing 669 n n CAM HAM2 Y01 sing 670 n n CAL HAL1 Y01 sing 671 n n CAL HAL2 Y01 sing 672 n n OAH HAH Y01 sing 673 n n # _atom_sites.entry_id 4XP9 _atom_sites.fract_transf_matrix[1][1] 0.010272 _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] 0.007105 _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] 0.005997 _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 Y01 C 1 701 601 Y01 Y01 . F 6 NAG C 1 702 602 NAG NAG . G 7 MPO C 1 704 604 MPO MPO . H 8 CLR C 1 705 605 CLR CLR . I 9 1WE C 1 706 606 1WE 1WE . J 10 P4G C 1 707 607 P4G P4G . K 10 P4G C 1 708 608 P4G P4G . L 11 NA C 1 709 609 NA NA . M 11 NA C 1 710 610 NA NA . N 12 CL C 1 711 611 CL CL . O 13 HOH C 1 801 701 HOH HOH . O 13 HOH C 2 802 702 HOH HOH . O 13 HOH C 3 803 703 HOH HOH . O 13 HOH C 4 804 704 HOH HOH . O 13 HOH C 5 805 705 HOH HOH . O 13 HOH C 6 806 706 HOH HOH . O 13 HOH C 7 807 707 HOH HOH . O 13 HOH C 8 808 708 HOH HOH . O 13 HOH C 9 809 709 HOH HOH . O 13 HOH C 10 810 710 HOH HOH . O 13 HOH C 11 811 711 HOH HOH . O 13 HOH C 12 812 712 HOH HOH . O 13 HOH C 13 813 713 HOH HOH . O 13 HOH C 14 814 714 HOH HOH . O 13 HOH C 15 815 715 HOH HOH . O 13 HOH C 16 816 716 HOH HOH . P 13 HOH L 1 301 301 HOH HOH . P 13 HOH L 2 302 302 HOH HOH . P 13 HOH L 3 303 303 HOH HOH . P 13 HOH L 4 304 304 HOH HOH . P 13 HOH L 5 305 305 HOH HOH . P 13 HOH L 6 306 306 HOH HOH . P 13 HOH L 7 307 307 HOH HOH . P 13 HOH L 8 308 308 HOH HOH . P 13 HOH L 9 309 309 HOH HOH . Q 13 HOH H 1 301 301 HOH HOH . Q 13 HOH H 2 302 302 HOH HOH . Q 13 HOH H 3 303 303 HOH HOH . Q 13 HOH H 4 304 304 HOH HOH . Q 13 HOH H 5 305 305 HOH HOH . Q 13 HOH H 6 306 306 HOH HOH . Q 13 HOH H 7 307 307 HOH HOH . Q 13 HOH H 8 308 308 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 CAA Y01 . . . E 5 -137.97 -139.226 206.717 1 84.96 ? CAA Y01 701 C 1 HETATM 2 C CBA Y01 . . . E 5 -138.354 -140.693 206.474 1 83.49 ? CBA Y01 701 C 1 HETATM 3 C CAB Y01 . . . E 5 -137.224 -141.46 205.737 1 75.9 ? CAB Y01 701 C 1 HETATM 4 C CAN Y01 . . . E 5 -138.672 -141.38 207.81 1 89.73 ? CAN Y01 701 C 1 HETATM 5 C CAJ Y01 . . . E 5 -140.053 -140.938 208.381 1 82.22 ? CAJ Y01 701 C 1 HETATM 6 C CAO Y01 . . . E 5 -140.049 -140.979 209.94 1 87.51 ? CAO Y01 701 C 1 HETATM 7 C CBB Y01 . . . E 5 -141.234 -141.884 210.552 1 91.29 ? CBB Y01 701 C 1 HETATM 8 C CAC Y01 . . . E 5 -141.151 -143.301 209.933 1 86.82 ? CAC Y01 701 C 1 HETATM 9 C CBE Y01 . . . E 5 -141.063 -141.924 211.905 1 89.59 ? CBE Y01 701 C 1 HETATM 10 C CAP Y01 . . . E 5 -140.802 -140.386 212.483 1 86.49 ? CAP Y01 701 C 1 HETATM 11 C CAQ Y01 . . . E 5 -141.836 -140.217 213.642 1 91.63 ? CAQ Y01 701 C 1 HETATM 12 C CBG Y01 . . . E 5 -142.159 -141.727 214.061 1 95.45 ? CBG Y01 701 C 1 HETATM 13 C CBI Y01 . . . E 5 -142.405 -142.393 212.707 1 89.2 ? CBI Y01 701 C 1 HETATM 14 C CAE Y01 . . . E 5 -143.516 -141.605 212.073 1 90.93 ? CAE Y01 701 C 1 HETATM 15 C CAU Y01 . . . E 5 -142.846 -143.731 212.753 1 87.78 ? CAU Y01 701 C 1 HETATM 16 C CAS Y01 . . . E 5 -144.022 -143.967 213.882 1 91.66 ? CAS Y01 701 C 1 HETATM 17 C CBF Y01 . . . E 5 -143.507 -143.522 215.236 1 98.63 ? CBF Y01 701 C 1 HETATM 18 C CBD Y01 . . . E 5 -143.146 -142.073 215.208 1 95.09 ? CBD Y01 701 C 1 HETATM 19 C CAK Y01 . . . E 5 -142.48 -141.578 216.597 1 97.01 ? CAK Y01 701 C 1 HETATM 20 C CAI Y01 . . . E 5 -143.329 -141.913 217.77 1 104.45 ? CAI Y01 701 C 1 HETATM 21 C CAZ Y01 . . . E 5 -144.149 -143.403 217.755 1 105.88 ? CAZ Y01 701 C 1 HETATM 22 C CAV Y01 . . . E 5 -144.852 -143.819 219.015 1 107.52 ? CAV Y01 701 C 1 HETATM 23 C CBH Y01 . . . E 5 -144.586 -143.907 216.481 1 103.41 ? CBH Y01 701 C 1 HETATM 24 C CAD Y01 . . . E 5 -145.951 -143.255 216.134 1 100.3 ? CAD Y01 701 C 1 HETATM 25 C CAT Y01 . . . E 5 -144.769 -145.415 216.531 1 95.18 ? CAT Y01 701 C 1 HETATM 26 C CAR Y01 . . . E 5 -145.639 -145.844 217.753 1 98.92 ? CAR Y01 701 C 1 HETATM 27 C CBC Y01 . . . E 5 -145.064 -145.317 219.093 1 107.76 ? CBC Y01 701 C 1 HETATM 28 O OAW Y01 . . . E 5 -145.948 -145.542 220.198 1 113.27 ? OAW Y01 701 C 1 HETATM 29 C CAY Y01 . . . E 5 -146.298 -146.886 220.582 1 110.82 ? CAY Y01 701 C 1 HETATM 30 O OAG Y01 . . . E 5 -145.441 -147.713 220.846 1 109.17 ? OAG Y01 701 C 1 HETATM 31 C CAM Y01 . . . E 5 -147.789 -147.258 220.676 1 102.74 ? CAM Y01 701 C 1 HETATM 32 C CAL Y01 . . . E 5 -148.091 -148.349 221.689 1 107.56 ? CAL Y01 701 C 1 HETATM 33 C CAX Y01 . . . E 5 -148.41 -149.673 221.023 1 111.92 ? CAX Y01 701 C 1 HETATM 34 O OAH Y01 . . . E 5 -147.457 -150.399 220.614 1 117.22 ? OAH Y01 701 C 1 HETATM 35 O OAF Y01 . . . E 5 -149.619 -150.05 220.872 1 96.12 -1 OAF Y01 701 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #