data_3QNQ # _model_server_result.job_id a5hMm34kDmjfrW0v4OBnog _model_server_result.datetime_utc '2025-03-04 23:23:36' _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 3qnq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":443}' # _entry.id 3QNQ # _exptl.entry_id 3QNQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 468.536 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'nonyl 4-O-alpha-D-glucopyranosyl-beta-D-glucopyranoside' _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 3QNQ _cell.length_a 132.812 _cell.length_b 132.812 _cell.length_c 452.954 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QNQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,M,N,O,P,Q 1 1 C,D,I,J,K,L,R,S,T,U,V,W 2 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 M N N ? 4 O N N ? 4 R N N ? 4 U N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 GLC GLC C1 O1 . O4 HO4 . 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 E NAG 1 E 1 NAG A 500 CBS 2 n E NAG 2 E 2 NAG A 500 CBS 3 n F GLC 1 F 1 GLC A 700 MAL 3 n F GLC 2 F 2 GLC A 700 MAL 2 n G NAG 1 G 1 NAG B 500 CBS 2 n G NAG 2 G 2 NAG B 500 CBS 3 n H GLC 1 H 1 GLC B 700 MAL 3 n H GLC 2 H 2 GLC B 700 MAL 2 n I NAG 1 I 1 NAG C 500 CBS 2 n I NAG 2 I 2 NAG C 500 CBS 3 n J GLC 1 J 1 GLC C 700 MAL 3 n J GLC 2 J 2 GLC C 700 MAL 2 n K NAG 1 K 1 NAG D 500 CBS 2 n K NAG 2 K 2 NAG D 500 CBS 3 n L GLC 1 L 1 GLC D 700 MAL 3 n L GLC 2 L 2 GLC D 700 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 covale ? covale1 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 sing covale ? covale2 F O4 GLC . F GLC 1 1_555 F C1 GLC . F GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 sing covale ? covale3 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 sing covale ? covale4 H O4 GLC . H GLC 1 1_555 H C1 GLC . H GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 sing covale ? covale5 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 sing covale ? covale6 J O4 GLC . J GLC 1 1_555 J C1 GLC . J GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 sing covale ? covale7 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 sing covale ? covale8 L O4 GLC . L GLC 1 1_555 L C1 GLC . L GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.405 sing # _chem_comp.formula 'C21 H40 O11' _chem_comp.formula_weight 468.536 _chem_comp.id ZDM _chem_comp.mon_nstd_flag . _chem_comp.name 'nonyl 4-O-alpha-D-glucopyranosyl-beta-D-glucopyranoside' _chem_comp.type saccharide _chem_comp.pdbx_synonyms nonyl-beta-D-maltoside # 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 ZDM sing 448 n n O1 C9 ZDM sing 449 n n C2 C3 ZDM sing 450 n n C2 O55 ZDM sing 451 n n C3 O7 ZDM sing 452 n n C4 C3 ZDM sing 453 n n C4 C57 ZDM sing 454 n n C5 O3 ZDM sing 455 n n C5 C7 ZDM sing 456 n n O5 C4 ZDM sing 457 n n C6 C1 ZDM sing 458 n n C6 O5 ZDM sing 459 n n O6 C11 ZDM sing 460 n n C7 O4 ZDM sing 461 n n O7 C10 ZDM sing 462 n n C8 O2 ZDM sing 463 n n C8 C7 ZDM sing 464 n n C9 C8 ZDM sing 465 n n C9 C11 ZDM sing 466 n n C10 O1 ZDM sing 467 n n C10 C5 ZDM sing 468 n n O16 C6 ZDM sing 469 n n C18 O16 ZDM sing 470 n n C19 C18 ZDM sing 471 n n C22 C19 ZDM sing 472 n n C25 C22 ZDM sing 473 n n C28 C25 ZDM sing 474 n n C31 C28 ZDM sing 475 n n C34 C31 ZDM sing 476 n n C34 C20 ZDM sing 477 n n O49 C1 ZDM sing 478 n n O61 C57 ZDM sing 479 n n C20 C21 ZDM sing 480 n n C21 H38 ZDM sing 481 n n C1 H1 ZDM sing 482 n n C2 H2 ZDM sing 483 n n O2 HO2 ZDM sing 484 n n C3 H3 ZDM sing 485 n n O3 HO3 ZDM sing 486 n n C4 H4 ZDM sing 487 n n O4 HO4 ZDM sing 488 n n C5 H5 ZDM sing 489 n n C6 H6 ZDM sing 490 n n O6 H101 ZDM sing 491 n n C7 H7 ZDM sing 492 n n C8 H8 ZDM sing 493 n n C9 H9 ZDM sing 494 n n C10 H10 ZDM sing 495 n n C11 H11 ZDM sing 496 n n C11 H16 ZDM sing 497 n n C18 H18 ZDM sing 498 n n C18 H18A ZDM sing 499 n n C19 H19 ZDM sing 500 n n C19 H19A ZDM sing 501 n n C22 H22 ZDM sing 502 n n C22 H20 ZDM sing 503 n n C25 H25 ZDM sing 504 n n C25 H221 ZDM sing 505 n n C28 H28 ZDM sing 506 n n C28 H28A ZDM sing 507 n n C31 H31 ZDM sing 508 n n C31 H26 ZDM sing 509 n n C34 H34 ZDM sing 510 n n C34 H34A ZDM sing 511 n n O49 HO49 ZDM sing 512 n n O55 HO55 ZDM sing 513 n n C57 H57 ZDM sing 514 n n C57 H57A ZDM sing 515 n n O61 HO61 ZDM sing 516 n n C20 H341 ZDM sing 517 n n C20 H35 ZDM sing 518 n n C21 H36 ZDM sing 519 n n C21 H37 ZDM sing 520 n n # _atom_sites.entry_id 3QNQ _atom_sites.fract_transf_matrix[1][1] 0.007529 _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] 0.007529 _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] 0.002208 _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 M 4 ZDM A 1 443 600 ZDM ZDM . N 5 CIT A 1 444 1 CIT CIT . O 4 ZDM A 1 600 600 ZDM ZDM . P 5 CIT B 1 443 800 CIT CIT . Q 5 CIT B 1 800 800 CIT CIT . R 4 ZDM C 1 443 600 ZDM ZDM . S 5 CIT C 1 444 2 CIT CIT . T 5 CIT C 1 445 1 CIT CIT . U 4 ZDM C 1 600 600 ZDM ZDM . V 5 CIT C 1 800 800 CIT CIT . W 5 CIT D 1 800 800 CIT CIT . # 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 ZDM . . . M 4 32.22 80.506 54.526 1 93.64 ? C1 ZDM 443 A 1 HETATM 2 O O1 ZDM . . . M 4 37.28 80.676 56.993 1 95.94 ? O1 ZDM 443 A 1 HETATM 3 C C2 ZDM . . . M 4 33.114 81.046 55.561 1 94.38 ? C2 ZDM 443 A 1 HETATM 4 O O2 ZDM . . . M 4 37.62 78.301 59.762 1 92.3 ? O2 ZDM 443 A 1 HETATM 5 C C3 ZDM . . . M 4 34.458 81.114 55.114 1 91.35 ? C3 ZDM 443 A 1 HETATM 6 O O3 ZDM . . . M 4 34.635 81.821 58.793 1 92.71 ? O3 ZDM 443 A 1 HETATM 7 C C4 ZDM . . . M 4 34.483 81.995 53.927 1 90.63 ? C4 ZDM 443 A 1 HETATM 8 O O4 ZDM . . . M 4 35.02 79.162 60.269 1 80.58 ? O4 ZDM 443 A 1 HETATM 9 C C5 ZDM . . . M 4 35.164 80.576 58.326 1 93.56 ? C5 ZDM 443 A 1 HETATM 10 O O5 ZDM . . . M 4 33.625 81.47 52.828 1 83.58 ? O5 ZDM 443 A 1 HETATM 11 C C6 ZDM . . . M 4 32.299 81.337 53.241 1 83.73 ? C6 ZDM 443 A 1 HETATM 12 O O6 ZDM . . . M 4 40.22 80.488 57.68 1 100.8 ? O6 ZDM 443 A 1 HETATM 13 C C7 ZDM . . . M 4 35.911 79.967 59.412 1 89.6 ? C7 ZDM 443 A 1 HETATM 14 O O7 ZDM . . . M 4 35.402 81.648 56.135 1 99.12 ? O7 ZDM 443 A 1 HETATM 15 C C8 ZDM . . . M 4 36.958 79.229 58.853 1 96.15 ? C8 ZDM 443 A 1 HETATM 16 C C9 ZDM . . . M 4 37.875 80.197 58.224 1 96.28 ? C9 ZDM 443 A 1 HETATM 17 C C10 ZDM . . . M 4 35.881 80.634 56.987 1 98.4 ? C10 ZDM 443 A 1 HETATM 18 C C11 ZDM . . . M 4 39.232 79.61 58.006 1 99.56 ? C11 ZDM 443 A 1 HETATM 19 O O16 ZDM . . . M 4 31.53 80.804 52.158 1 81.72 ? O16 ZDM 443 A 1 HETATM 20 C C18 ZDM . . . M 4 30.651 81.608 51.344 1 76.78 ? C18 ZDM 443 A 1 HETATM 21 C C19 ZDM . . . M 4 29.452 80.949 50.664 1 74 ? C19 ZDM 443 A 1 HETATM 22 C C22 ZDM . . . M 4 28.165 81.763 50.399 1 68.13 ? C22 ZDM 443 A 1 HETATM 23 C C25 ZDM . . . M 4 27.001 81.034 49.654 1 79.98 ? C25 ZDM 443 A 1 HETATM 24 C C28 ZDM . . . M 4 25.851 81.789 49.073 1 82.24 ? C28 ZDM 443 A 1 HETATM 25 C C31 ZDM . . . M 4 25.112 81.231 47.928 1 81.09 ? C31 ZDM 443 A 1 HETATM 26 C C34 ZDM . . . M 4 23.741 81.706 47.556 1 67.08 ? C34 ZDM 443 A 1 HETATM 27 O O49 ZDM . . . M 4 30.932 80.452 55.159 1 90.54 ? O49 ZDM 443 A 1 HETATM 28 O O55 ZDM . . . M 4 32.919 80.197 56.734 1 88.12 ? O55 ZDM 443 A 1 HETATM 29 C C57 ZDM . . . M 4 35.863 82.176 53.451 1 97.55 ? C57 ZDM 443 A 1 HETATM 30 O O61 ZDM . . . M 4 35.966 82.735 52.164 1 106.72 ? O61 ZDM 443 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 30 #