data_4XPT # _model_server_result.job_id rYfl-KGDE22_yShcjMCavQ _model_server_result.datetime_utc '2024-11-01 08:22:52' _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 4xpt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":601}' # _entry.id 4XPT # _exptl.entry_id 4XPT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 486.726 _entity.id 5 _entity.src_method syn _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 4XPT _cell.length_a 96.614 _cell.length_b 139.148 _cell.length_c 166.679 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XPT _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 ? _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 _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 I _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 BGC _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 BGC 1 B 1 BGC M 1 MAL 4 n D GLC 2 B 2 GLC M 1 MAL 4 n E BGC 1 C 1 BGC M 2 MAL 4 n E GLC 2 C 2 GLC M 2 MAL 4 n F BGC 1 D 1 BGC M 3 MAL 4 n F GLC 2 D 2 GLC M 3 MAL 4 n G BGC 1 E 1 BGC M 4 MAL 4 n G GLC 2 E 2 GLC M 4 MAL 4 n H BGC 1 F 1 BGC M 5 MAL 4 n H GLC 2 F 2 GLC M 5 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 A CYS 148 1_555 A SG CYS 133 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 B SG CYS 23 L CYS 23 1_555 B SG CYS 89 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 135 L CYS 135 1_555 B SG CYS 195 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 C SG CYS 146 H CYS 146 1_555 C SG CYS 201 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 117 A ASN 141 1_555 K C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 D O4 BGC . B BGC 1 1_555 D C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 sing covale ? covale3 E O4 BGC . C BGC 1 1_555 E C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 sing covale ? covale4 F O4 BGC . D BGC 1 1_555 F C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 sing covale ? covale5 G O4 BGC . E BGC 1 1_555 G C1 GLC . E GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 sing covale ? covale6 H O4 BGC . F BGC 1 1_555 H C1 GLC . F GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 sing metalc ? metalc1 A O GLY 18 A GLY 42 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc2 A O ALA 20 A ALA 44 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? metalc ? metalc3 A O VAL 21 A VAL 45 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc4 A OD1 ASP 22 A ASP 46 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.634 ? metalc ? metalc5 A OD1 ASN 25 A ASN 49 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc6 A O SER 256 A SER 320 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.78 ? metalc ? metalc7 A OG SER 256 A SER 320 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc8 A OD1 ASN 288 A ASN 352 1_555 N NA NA . A NA 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.063 ? metalc ? metalc9 A O LEU 353 A LEU 417 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc10 A OD1 ASP 356 A ASP 420 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc11 A OD2 ASP 356 A ASP 420 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.973 ? metalc ? metalc12 A OG SER 357 A SER 421 1_555 O NA NA . A NA 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? # _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 549 n n CBA CAB Y01 sing 550 n n CBA CAN Y01 sing 551 n n CAN CAJ Y01 sing 552 n n CAJ CAO Y01 sing 553 n n CAO CBB Y01 sing 554 n n CBB CAC Y01 sing 555 n n CBB CBE Y01 sing 556 n n CBE CAP Y01 sing 557 n n CBE CBI Y01 sing 558 n n CAP CAQ Y01 sing 559 n n CAQ CBG Y01 sing 560 n n CBG CBI Y01 sing 561 n n CBG CBD Y01 sing 562 n n CBI CAE Y01 sing 563 n n CBI CAU Y01 sing 564 n n CAU CAS Y01 sing 565 n n CAS CBF Y01 sing 566 n n CBF CBD Y01 sing 567 n n CBF CBH Y01 sing 568 n n CBD CAK Y01 sing 569 n n CAK CAI Y01 sing 570 n n CAI CAZ Y01 doub 571 n n CAZ CAV Y01 sing 572 n n CAZ CBH Y01 sing 573 n n CAV CBC Y01 sing 574 n n CBH CAD Y01 sing 575 n n CBH CAT Y01 sing 576 n n CAT CAR Y01 sing 577 n n CAR CBC Y01 sing 578 n n CBC OAW Y01 sing 579 n n OAW CAY Y01 sing 580 n n CAY OAG Y01 doub 581 n n CAY CAM Y01 sing 582 n n CAM CAL Y01 sing 583 n n CAL CAX Y01 sing 584 n n CAX OAH Y01 sing 585 n n CAX OAF Y01 doub 586 n n CAA HAA1 Y01 sing 587 n n CAA HAA2 Y01 sing 588 n n CAA HAA3 Y01 sing 589 n n CBA HBA Y01 sing 590 n n CAB HAB1 Y01 sing 591 n n CAB HAB2 Y01 sing 592 n n CAB HAB3 Y01 sing 593 n n CAN HAN1 Y01 sing 594 n n CAN HAN2 Y01 sing 595 n n CAJ HAJ1 Y01 sing 596 n n CAJ HAJ2 Y01 sing 597 n n CAO HAO1 Y01 sing 598 n n CAO HAO2 Y01 sing 599 n n CBB HBB Y01 sing 600 n n CAC HAC1 Y01 sing 601 n n CAC HAC2 Y01 sing 602 n n CAC HAC3 Y01 sing 603 n n CBE HBE Y01 sing 604 n n CAP HAP1 Y01 sing 605 n n CAP HAP2 Y01 sing 606 n n CAQ HAQ1 Y01 sing 607 n n CAQ HAQ2 Y01 sing 608 n n CBG HBG Y01 sing 609 n n CBD HBD Y01 sing 610 n n CAE HAE1 Y01 sing 611 n n CAE HAE2 Y01 sing 612 n n CAE HAE3 Y01 sing 613 n n CAU HAU1 Y01 sing 614 n n CAU HAU2 Y01 sing 615 n n CAS HAS1 Y01 sing 616 n n CAS HAS2 Y01 sing 617 n n CBF HBF Y01 sing 618 n n CAK HAK1 Y01 sing 619 n n CAK HAK2 Y01 sing 620 n n CAI HAI Y01 sing 621 n n CAV HAV1 Y01 sing 622 n n CAV HAV2 Y01 sing 623 n n CBC HBC Y01 sing 624 n n CAD HAD1 Y01 sing 625 n n CAD HAD2 Y01 sing 626 n n CAD HAD3 Y01 sing 627 n n CAT HAT1 Y01 sing 628 n n CAT HAT2 Y01 sing 629 n n CAR HAR1 Y01 sing 630 n n CAR HAR2 Y01 sing 631 n n CAM HAM1 Y01 sing 632 n n CAM HAM2 Y01 sing 633 n n CAL HAL1 Y01 sing 634 n n CAL HAL2 Y01 sing 635 n n OAH HAH Y01 sing 636 n n # _atom_sites.entry_id 4XPT _atom_sites.fract_transf_matrix[1][1] 0.01035 _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] 0.007187 _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] 0.006 _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 5 Y01 A 1 601 1 Y01 CHS . J 6 42J A 1 602 601 42J DCP . K 7 NAG A 1 603 701 NAG NAG . L 8 CLR A 1 609 1 CLR CLR . M 9 CL A 1 610 1 CL CL . N 10 NA A 1 611 1 NA NA . O 10 NA A 1 612 2 NA NA . # 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 . . . I 5 89.96 279.393 40.187 1 99.54 ? CAA Y01 601 A 1 HETATM 2 C CBA Y01 . . . I 5 89.968 277.937 40.672 1 101.71 ? CBA Y01 601 A 1 HETATM 3 C CAB Y01 . . . I 5 89.654 276.959 39.505 1 84.3 ? CAB Y01 601 A 1 HETATM 4 C CAN Y01 . . . I 5 91.307 277.587 41.346 1 103.76 ? CAN Y01 601 A 1 HETATM 5 C CAJ Y01 . . . I 5 91.685 278.626 42.452 1 110.86 ? CAJ Y01 601 A 1 HETATM 6 C CAO Y01 . . . I 5 92.554 278.01 43.601 1 120.27 ? CAO Y01 601 A 1 HETATM 7 C CBB Y01 . . . I 5 92.521 278.932 44.92 1 133.26 ? CBB Y01 601 A 1 HETATM 8 C CAC Y01 . . . I 5 91.11 278.866 45.554 1 139.13 ? CAC Y01 601 A 1 HETATM 9 C CBE Y01 . . . I 5 93.438 278.487 45.821 1 129.25 ? CBE Y01 601 A 1 HETATM 10 C CAP Y01 . . . I 5 94.883 278.151 45.085 1 122.11 ? CAP Y01 601 A 1 HETATM 11 C CAQ Y01 . . . I 5 95.934 279.061 45.797 1 124.81 ? CAQ Y01 601 A 1 HETATM 12 C CBG Y01 . . . I 5 95.281 279.47 47.196 1 125.16 ? CBG Y01 601 A 1 HETATM 13 C CBI Y01 . . . I 5 93.79 279.656 46.911 1 129.91 ? CBI Y01 601 A 1 HETATM 14 C CAE Y01 . . . I 5 93.678 280.953 46.157 1 129.26 ? CAE Y01 601 A 1 HETATM 15 C CAU Y01 . . . I 5 93.013 279.841 48.074 1 131.08 ? CAU Y01 601 A 1 HETATM 16 C CAS Y01 . . . I 5 93.637 281 49.055 1 137.22 ? CAS Y01 601 A 1 HETATM 17 C CBF Y01 . . . I 5 95.099 280.732 49.346 1 132.12 ? CBF Y01 601 A 1 HETATM 18 C CBD Y01 . . . I 5 95.876 280.594 48.081 1 122.08 ? CBD Y01 601 A 1 HETATM 19 C CAK Y01 . . . I 5 97.448 280.312 48.329 1 119.92 ? CAK Y01 601 A 1 HETATM 20 C CAI Y01 . . . I 5 98.054 281.256 49.305 1 119.74 ? CAI Y01 601 A 1 HETATM 21 C CAZ Y01 . . . I 5 97.112 281.788 50.617 1 125.83 ? CAZ Y01 601 A 1 HETATM 22 C CAV Y01 . . . I 5 97.595 281.489 52.008 1 119.99 ? CAV Y01 601 A 1 HETATM 23 C CBH Y01 . . . I 5 95.703 281.908 50.39 1 131.38 ? CBH Y01 601 A 1 HETATM 24 C CAD Y01 . . . I 5 95.418 283.306 49.777 1 113.09 ? CAD Y01 601 A 1 HETATM 25 C CAT Y01 . . . I 5 94.922 281.777 51.685 1 135.29 ? CAT Y01 601 A 1 HETATM 26 C CAR Y01 . . . I 5 95.502 282.688 52.804 1 134.39 ? CAR Y01 601 A 1 HETATM 27 C CBC Y01 . . . I 5 97.013 282.451 53.017 1 121.06 ? CBC Y01 601 A 1 HETATM 28 O OAW Y01 . . . I 5 97.688 283.693 52.909 1 116.65 ? OAW Y01 601 A 1 HETATM 29 C CAY Y01 . . . I 5 98.014 284.296 54.164 1 116.67 ? CAY Y01 601 A 1 HETATM 30 O OAG Y01 . . . I 5 98.666 283.68 54.981 1 118.01 ? OAG Y01 601 A 1 HETATM 31 C CAM Y01 . . . I 5 97.556 285.729 54.468 1 117.25 ? CAM Y01 601 A 1 HETATM 32 C CAL Y01 . . . I 5 98.151 286.724 53.486 1 117.21 ? CAL Y01 601 A 1 HETATM 33 C CAX Y01 . . . I 5 99.056 287.731 54.146 1 123.91 ? CAX Y01 601 A 1 HETATM 34 O OAH Y01 . . . I 5 100.293 287.517 54.198 1 104.58 ? OAH Y01 601 A 1 HETATM 35 O OAF Y01 . . . I 5 98.572 288.787 54.642 1 129.25 1 OAF Y01 601 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 35 #