data_6DMB # _model_server_result.job_id Yy4afgtRPOkvkAfewTRH8g _model_server_result.datetime_utc '2024-11-21 14:02:38' _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 6dmb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1809}' # _entry.id 6DMB # _exptl.entry_id 6DMB _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 2 _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 6DMB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DMB _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 I N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 NAG _pdbx_entity_branch_link.comp_id_2 NAG _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 2 n B NAG 1 B 1 NAG A 1805 NAG 2 n B NAG 2 B 2 NAG A 1806 NAG # 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 224 A CYS 203 1_555 A SG CYS 247 A CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 255 A CYS 234 1_555 A SG CYS 348 A CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf3 A SG CYS 317 A CYS 296 1_555 A SG CYS 325 A CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 162 A ASN 141 1_555 G C1 NAG . A NAG 1807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 A ND2 ASN 333 A ASN 312 1_555 C C1 NAG . A NAG 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale3 A ND2 ASN 370 A ASN 349 1_555 D C1 NAG . A NAG 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 A ND2 ASN 435 A ASN 414 1_555 E C1 NAG . A NAG 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale5 A ND2 ASN 896 A ASN 875 1_555 F C1 NAG . A NAG 1804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale6 A ND2 ASN 1021 A ASN 1000 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 404 n n CBA CAB Y01 sing 405 n n CBA CAN Y01 sing 406 n n CAN CAJ Y01 sing 407 n n CAJ CAO Y01 sing 408 n n CAO CBB Y01 sing 409 n n CBB CAC Y01 sing 410 n n CBB CBE Y01 sing 411 n n CBE CAP Y01 sing 412 n n CBE CBI Y01 sing 413 n n CAP CAQ Y01 sing 414 n n CAQ CBG Y01 sing 415 n n CBG CBI Y01 sing 416 n n CBG CBD Y01 sing 417 n n CBI CAE Y01 sing 418 n n CBI CAU Y01 sing 419 n n CAU CAS Y01 sing 420 n n CAS CBF Y01 sing 421 n n CBF CBD Y01 sing 422 n n CBF CBH Y01 sing 423 n n CBD CAK Y01 sing 424 n n CAK CAI Y01 sing 425 n n CAI CAZ Y01 doub 426 n n CAZ CAV Y01 sing 427 n n CAZ CBH Y01 sing 428 n n CAV CBC Y01 sing 429 n n CBH CAD Y01 sing 430 n n CBH CAT Y01 sing 431 n n CAT CAR Y01 sing 432 n n CAR CBC Y01 sing 433 n n CBC OAW Y01 sing 434 n n OAW CAY Y01 sing 435 n n CAY OAG Y01 doub 436 n n CAY CAM Y01 sing 437 n n CAM CAL Y01 sing 438 n n CAL CAX Y01 sing 439 n n CAX OAH Y01 sing 440 n n CAX OAF Y01 doub 441 n n CAA HAA1 Y01 sing 442 n n CAA HAA2 Y01 sing 443 n n CAA HAA3 Y01 sing 444 n n CBA HBA Y01 sing 445 n n CAB HAB1 Y01 sing 446 n n CAB HAB2 Y01 sing 447 n n CAB HAB3 Y01 sing 448 n n CAN HAN1 Y01 sing 449 n n CAN HAN2 Y01 sing 450 n n CAJ HAJ1 Y01 sing 451 n n CAJ HAJ2 Y01 sing 452 n n CAO HAO1 Y01 sing 453 n n CAO HAO2 Y01 sing 454 n n CBB HBB Y01 sing 455 n n CAC HAC1 Y01 sing 456 n n CAC HAC2 Y01 sing 457 n n CAC HAC3 Y01 sing 458 n n CBE HBE Y01 sing 459 n n CAP HAP1 Y01 sing 460 n n CAP HAP2 Y01 sing 461 n n CAQ HAQ1 Y01 sing 462 n n CAQ HAQ2 Y01 sing 463 n n CBG HBG Y01 sing 464 n n CBD HBD Y01 sing 465 n n CAE HAE1 Y01 sing 466 n n CAE HAE2 Y01 sing 467 n n CAE HAE3 Y01 sing 468 n n CAU HAU1 Y01 sing 469 n n CAU HAU2 Y01 sing 470 n n CAS HAS1 Y01 sing 471 n n CAS HAS2 Y01 sing 472 n n CBF HBF Y01 sing 473 n n CAK HAK1 Y01 sing 474 n n CAK HAK2 Y01 sing 475 n n CAI HAI Y01 sing 476 n n CAV HAV1 Y01 sing 477 n n CAV HAV2 Y01 sing 478 n n CBC HBC Y01 sing 479 n n CAD HAD1 Y01 sing 480 n n CAD HAD2 Y01 sing 481 n n CAD HAD3 Y01 sing 482 n n CAT HAT1 Y01 sing 483 n n CAT HAT2 Y01 sing 484 n n CAR HAR1 Y01 sing 485 n n CAR HAR2 Y01 sing 486 n n CAM HAM1 Y01 sing 487 n n CAM HAM2 Y01 sing 488 n n CAL HAL1 Y01 sing 489 n n CAL HAL2 Y01 sing 490 n n OAH HAH Y01 sing 491 n n # _atom_sites.entry_id 6DMB _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 C 3 NAG A 1 1801 1801 NAG NAG . D 3 NAG A 1 1802 1802 NAG NAG . E 3 NAG A 1 1803 1803 NAG NAG . F 3 NAG A 1 1804 1804 NAG NAG . G 3 NAG A 1 1807 1807 NAG NAG . H 4 Y01 A 1 1808 2001 Y01 Y01 . I 4 Y01 A 1 1809 2002 Y01 Y01 . # 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 4 124.27 104.366 118.373 1 82.33 ? CAA Y01 1809 A 1 HETATM 2 C CBA Y01 . . . I 4 122.776 104.355 118.666 1 82.33 ? CBA Y01 1809 A 1 HETATM 3 C CAB Y01 . . . I 4 122.472 104.884 120.058 1 82.33 ? CAB Y01 1809 A 1 HETATM 4 C CAN Y01 . . . I 4 122.023 105.16 117.627 1 82.33 ? CAN Y01 1809 A 1 HETATM 5 C CAJ Y01 . . . I 4 122.297 104.581 116.255 1 82.33 ? CAJ Y01 1809 A 1 HETATM 6 C CAO Y01 . . . I 4 122.228 105.675 115.198 1 82.33 ? CAO Y01 1809 A 1 HETATM 7 C CBB Y01 . . . I 4 122.877 105.26 113.877 1 82.33 ? CBB Y01 1809 A 1 HETATM 8 C CAC Y01 . . . I 4 124.244 104.638 114.161 1 82.33 ? CAC Y01 1809 A 1 HETATM 9 C CBE Y01 . . . I 4 121.969 104.38 112.998 1 82.33 ? CBE Y01 1809 A 1 HETATM 10 C CAP Y01 . . . I 4 120.485 104.741 113.147 1 82.33 ? CAP Y01 1809 A 1 HETATM 11 C CAQ Y01 . . . I 4 119.853 104.703 111.766 1 82.33 ? CAQ Y01 1809 A 1 HETATM 12 C CBG Y01 . . . I 4 120.877 103.932 110.969 1 82.33 ? CBG Y01 1809 A 1 HETATM 13 C CBI Y01 . . . I 4 122.196 104.446 111.488 1 82.33 ? CBI Y01 1809 A 1 HETATM 14 C CAE Y01 . . . I 4 122.452 105.895 111.094 1 82.33 ? CAE Y01 1809 A 1 HETATM 15 C CAU Y01 . . . I 4 123.248 103.516 110.872 1 82.33 ? CAU Y01 1809 A 1 HETATM 16 C CAS Y01 . . . I 4 123.201 103.498 109.334 1 82.33 ? CAS Y01 1809 A 1 HETATM 17 C CBF Y01 . . . I 4 121.811 103.188 108.759 1 82.33 ? CBF Y01 1809 A 1 HETATM 18 C CBD Y01 . . . I 4 120.755 104.041 109.461 1 82.33 ? CBD Y01 1809 A 1 HETATM 19 C CAK Y01 . . . I 4 119.365 103.629 109.027 1 82.33 ? CAK Y01 1809 A 1 HETATM 20 C CAI Y01 . . . I 4 119.317 103.768 107.533 1 82.33 ? CAI Y01 1809 A 1 HETATM 21 C CAZ Y01 . . . I 4 120.303 103.255 106.796 1 82.33 ? CAZ Y01 1809 A 1 HETATM 22 C CAV Y01 . . . I 4 119.91 102.57 105.51 1 82.33 ? CAV Y01 1809 A 1 HETATM 23 C CBH Y01 . . . I 4 121.735 103.409 107.249 1 82.33 ? CBH Y01 1809 A 1 HETATM 24 C CAD Y01 . . . I 4 122.18 104.821 106.908 1 82.33 ? CAD Y01 1809 A 1 HETATM 25 C CAT Y01 . . . I 4 122.644 102.447 106.494 1 82.33 ? CAT Y01 1809 A 1 HETATM 26 C CAR Y01 . . . I 4 121.929 101.166 106.092 1 82.33 ? CAR Y01 1809 A 1 HETATM 27 C CBC Y01 . . . I 4 120.821 101.424 105.073 1 82.33 ? CBC Y01 1809 A 1 HETATM 28 O OAW Y01 . . . I 4 121.377 101.728 103.789 1 82.33 ? OAW Y01 1809 A 1 HETATM 29 C CAY Y01 . . . I 4 120.593 101.21 102.669 1 82.33 ? CAY Y01 1809 A 1 HETATM 30 O OAG Y01 . . . I 4 119.462 101.621 102.457 1 82.33 ? OAG Y01 1809 A 1 HETATM 31 C CAM Y01 . . . I 4 121.177 100.152 101.764 1 82.33 ? CAM Y01 1809 A 1 HETATM 32 C CAL Y01 . . . I 4 120.437 100.164 100.432 1 82.33 ? CAL Y01 1809 A 1 HETATM 33 C CAX Y01 . . . I 4 120.815 101.384 99.628 1 82.33 ? CAX Y01 1809 A 1 HETATM 34 O OAH Y01 . . . I 4 120.059 102.475 99.671 1 82.33 ? OAH Y01 1809 A 1 HETATM 35 O OAF Y01 . . . I 4 121.815 101.386 98.932 1 82.33 ? OAF Y01 1809 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #