data_7BO4 # _model_server_result.job_id tLhlWn5vunppxXZ-lbbk4A _model_server_result.datetime_utc '2024-10-11 00:25:14' _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 7bo4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":605}' # _entry.id 7BO4 # _exptl.entry_id 7BO4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.27 _entity.id 8 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'N-acetyl-alpha-neuraminic acid' _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 7BO4 _cell.length_a 155.3 _cell.length_b 155.3 _cell.length_c 128.06 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BO4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _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,J,K,L,M,N,O,P _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 8 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 FUC NAG C1 O1 . O6 HO6 . sing 2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 1 FUC NAG C1 O1 . O6 HO6 . 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 530 NAG 2 n B FUC 2 B 2 FUC A 531 FUC 3 n C NAG 1 C 1 NAG A 533 NAG 3 n C NAG 2 C 2 NAG A 546 NAG 3 n C FUC 3 C 3 FUC A 534 FUC 3 n D NAG 1 D 1 NAG A 535 NAG 3 n D NAG 2 D 2 NAG A 536 NAG 3 n D FUC 3 D 3 FUC A 537 FUC 2 n E NAG 1 E 1 NAG A 539 NAG 2 n E FUC 2 E 2 FUC A 540 FUC 3 n F NAG 1 F 1 NAG A 541 NAG 3 n F NAG 2 F 2 NAG A 542 NAG 3 n F FUC 3 F 3 FUC A 543 FUC # 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 65 A CYS 65 1_555 A SG CYS 92 A CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 A SG CYS 252 A CYS 252 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 400 A CYS 400 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 A ND2 ASN 57 A ASN 57 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale2 A ND2 ASN 106 A ASN 106 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 A ND2 ASN 241 A ASN 241 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale4 A ND2 ASN 256 A ASN 256 1_555 G C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale5 A ND2 ASN 341 A ASN 341 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale6 A ND2 ASN 485 A ASN 485 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale7 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale8 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale9 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale10 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale11 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale12 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale14 F O6 NAG . F NAG 1 1_555 F C1 FUC . F FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _chem_comp.formula 'C11 H19 N O9' _chem_comp.formula_weight 309.27 _chem_comp.id SIA _chem_comp.mon_nstd_flag . _chem_comp.name 'N-acetyl-alpha-neuraminic acid' _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms 'N-acetylneuraminic acid;sialic acid;alpha-sialic acid;O-SIALIC ACID' # 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 SIA sing 437 n n C1 O1A SIA doub 438 n n C1 O1B SIA sing 439 n n C2 C3 SIA sing 440 n n C2 O2 SIA sing 441 n n C2 O6 SIA sing 442 n n C3 C4 SIA sing 443 n n C3 H32 SIA sing 444 n n C3 H31 SIA sing 445 n n C4 C5 SIA sing 446 n n C4 O4 SIA sing 447 n n C4 H4 SIA sing 448 n n C5 C6 SIA sing 449 n n C5 N5 SIA sing 450 n n C5 H5 SIA sing 451 n n C6 C7 SIA sing 452 n n C6 O6 SIA sing 453 n n C6 H6 SIA sing 454 n n C7 C8 SIA sing 455 n n C7 O7 SIA sing 456 n n C7 H7 SIA sing 457 n n C8 C9 SIA sing 458 n n C8 O8 SIA sing 459 n n C8 H8 SIA sing 460 n n C9 O9 SIA sing 461 n n C9 H92 SIA sing 462 n n C9 H91 SIA sing 463 n n C10 C11 SIA sing 464 n n C10 N5 SIA sing 465 n n C10 O10 SIA doub 466 n n C11 H111 SIA sing 467 n n C11 H113 SIA sing 468 n n C11 H112 SIA sing 469 n n N5 HN5 SIA sing 470 n n O1B HO1B SIA sing 471 n n O2 HO2 SIA sing 472 n n O4 HO4 SIA sing 473 n n O7 HO7 SIA sing 474 n n O8 HO8 SIA sing 475 n n O9 HO9 SIA sing 476 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version SIA DNeup5Aca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 SIA 'N-acetyl-a-D-neuraminic acid' 'COMMON NAME' GMML 1 SIA a-D-Neup5Ac 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 SIA Neu5Ac 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 7BO4 _atom_sites.fract_transf_matrix[1][1] 0.006439 _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] 0.006439 _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] 0.007809 _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 G 4 NAG A 1 601 532 NAG NAG . H 5 MES A 1 602 538 MES MES . I 6 MOH A 1 603 544 MOH MOH . J 7 A87 A 1 604 545 A87 A87 . K 8 SIA A 1 605 547 SIA SIA . L 9 SO4 A 1 606 1 SO4 SO4 . M 9 SO4 A 1 607 2 SO4 SO4 . N 9 SO4 A 1 608 3 SO4 SO4 . O 9 SO4 A 1 609 4 SO4 SO4 . P 10 HOH A 1 701 46 HOH HOH . P 10 HOH A 2 702 51 HOH HOH . P 10 HOH A 3 703 1 HOH HOH . P 10 HOH A 4 704 12 HOH HOH . P 10 HOH A 5 705 63 HOH HOH . P 10 HOH A 6 706 62 HOH HOH . P 10 HOH A 7 707 60 HOH HOH . P 10 HOH A 8 708 75 HOH HOH . P 10 HOH A 9 709 45 HOH HOH . P 10 HOH A 10 710 32 HOH HOH . P 10 HOH A 11 711 54 HOH HOH . P 10 HOH A 12 712 88 HOH HOH . P 10 HOH A 13 713 3 HOH HOH . P 10 HOH A 14 714 70 HOH HOH . P 10 HOH A 15 715 2 HOH HOH . P 10 HOH A 16 716 19 HOH HOH . P 10 HOH A 17 717 39 HOH HOH . P 10 HOH A 18 718 50 HOH HOH . P 10 HOH A 19 719 11 HOH HOH . P 10 HOH A 20 720 56 HOH HOH . P 10 HOH A 21 721 24 HOH HOH . P 10 HOH A 22 722 29 HOH HOH . P 10 HOH A 23 723 14 HOH HOH . P 10 HOH A 24 724 52 HOH HOH . P 10 HOH A 25 725 25 HOH HOH . P 10 HOH A 26 726 16 HOH HOH . P 10 HOH A 27 727 18 HOH HOH . P 10 HOH A 28 728 36 HOH HOH . P 10 HOH A 29 729 89 HOH HOH . P 10 HOH A 30 730 28 HOH HOH . P 10 HOH A 31 731 73 HOH HOH . P 10 HOH A 32 732 22 HOH HOH . P 10 HOH A 33 733 92 HOH HOH . P 10 HOH A 34 734 13 HOH HOH . P 10 HOH A 35 735 72 HOH HOH . P 10 HOH A 36 736 93 HOH HOH . P 10 HOH A 37 737 40 HOH HOH . P 10 HOH A 38 738 78 HOH HOH . P 10 HOH A 39 739 41 HOH HOH . P 10 HOH A 40 740 20 HOH HOH . P 10 HOH A 41 741 7 HOH HOH . P 10 HOH A 42 742 31 HOH HOH . P 10 HOH A 43 743 58 HOH HOH . P 10 HOH A 44 744 42 HOH HOH . P 10 HOH A 45 745 95 HOH HOH . P 10 HOH A 46 746 23 HOH HOH . P 10 HOH A 47 747 76 HOH HOH . P 10 HOH A 48 748 38 HOH HOH . P 10 HOH A 49 749 68 HOH HOH . P 10 HOH A 50 750 37 HOH HOH . P 10 HOH A 51 751 71 HOH HOH . P 10 HOH A 52 752 30 HOH HOH . P 10 HOH A 53 753 34 HOH HOH . P 10 HOH A 54 754 47 HOH HOH . P 10 HOH A 55 755 27 HOH HOH . P 10 HOH A 56 756 26 HOH HOH . P 10 HOH A 57 757 21 HOH HOH . P 10 HOH A 58 758 33 HOH HOH . P 10 HOH A 59 759 69 HOH HOH . P 10 HOH A 60 760 77 HOH HOH . P 10 HOH A 61 761 17 HOH HOH . P 10 HOH A 62 762 6 HOH HOH . P 10 HOH A 63 763 61 HOH HOH . P 10 HOH A 64 764 15 HOH HOH . P 10 HOH A 65 765 4 HOH HOH . P 10 HOH A 66 766 57 HOH HOH . P 10 HOH A 67 767 91 HOH HOH . P 10 HOH A 68 768 90 HOH HOH . P 10 HOH A 69 769 74 HOH HOH . P 10 HOH A 70 770 94 HOH HOH . P 10 HOH A 71 771 87 HOH HOH . P 10 HOH A 72 772 43 HOH HOH . P 10 HOH A 73 773 59 HOH HOH . P 10 HOH A 74 774 8 HOH HOH . P 10 HOH A 75 775 96 HOH HOH . P 10 HOH A 76 776 9 HOH HOH . P 10 HOH A 77 777 80 HOH HOH . P 10 HOH A 78 778 66 HOH HOH . P 10 HOH A 79 779 79 HOH HOH . P 10 HOH A 80 780 44 HOH HOH . P 10 HOH A 81 781 84 HOH HOH . P 10 HOH A 82 782 53 HOH HOH . P 10 HOH A 83 783 81 HOH HOH . P 10 HOH A 84 784 64 HOH HOH . P 10 HOH A 85 785 49 HOH HOH . P 10 HOH A 86 786 48 HOH HOH . P 10 HOH A 87 787 83 HOH HOH . P 10 HOH A 88 788 86 HOH HOH . P 10 HOH A 89 789 35 HOH HOH . P 10 HOH A 90 790 55 HOH HOH . P 10 HOH A 91 791 85 HOH HOH . P 10 HOH A 92 792 5 HOH HOH . P 10 HOH A 93 793 82 HOH HOH . P 10 HOH A 94 794 65 HOH HOH . P 10 HOH A 95 795 67 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 C1 SIA . . . K 8 39.412 46.204 49.64 1 91.22 ? C1 SIA 605 A 1 HETATM 2 C C2 SIA . . . K 8 38.81 47.58 50.188 1 89.49 ? C2 SIA 605 A 1 HETATM 3 C C3 SIA . . . K 8 39.479 48.87 49.642 1 80.83 ? C3 SIA 605 A 1 HETATM 4 C C4 SIA . . . K 8 38.719 49.813 48.679 1 87.06 ? C4 SIA 605 A 1 HETATM 5 C C5 SIA . . . K 8 37.189 49.701 48.812 1 81.5 ? C5 SIA 605 A 1 HETATM 6 C C6 SIA . . . K 8 36.818 48.201 48.788 1 82.05 ? C6 SIA 605 A 1 HETATM 7 C C7 SIA . . . K 8 35.286 47.93 48.791 1 84.1 ? C7 SIA 605 A 1 HETATM 8 C C8 SIA . . . K 8 34.917 46.51 49.313 1 72.76 ? C8 SIA 605 A 1 HETATM 9 C C9 SIA . . . K 8 33.415 46.274 49.17 1 69.32 ? C9 SIA 605 A 1 HETATM 10 C C10 SIA . . . K 8 36.183 51.768 47.798 1 76.36 ? C10 SIA 605 A 1 HETATM 11 C C11 SIA . . . K 8 35.396 52.315 46.608 1 70.88 ? C11 SIA 605 A 1 HETATM 12 N N5 SIA . . . K 8 36.457 50.431 47.768 1 75.76 ? N5 SIA 605 A 1 HETATM 13 O O1A SIA . . . K 8 38.618 45.251 49.419 1 87.14 ? O1A SIA 605 A 1 HETATM 14 O O1B SIA . . . K 8 40.671 46.241 49.495 1 97.04 ? O1B SIA 605 A 1 HETATM 15 O O2 SIA . . . K 8 38.945 47.522 51.566 1 86.1 ? O2 SIA 605 A 1 HETATM 16 O O4 SIA . . . K 8 39.084 51.202 48.859 1 81.29 ? O4 SIA 605 A 1 HETATM 17 O O6 SIA . . . K 8 37.347 47.591 49.961 1 88.52 ? O6 SIA 605 A 1 HETATM 18 O O7 SIA . . . K 8 34.605 48.963 49.502 1 80.93 ? O7 SIA 605 A 1 HETATM 19 O O8 SIA . . . K 8 35.697 45.488 48.679 1 77.73 ? O8 SIA 605 A 1 HETATM 20 O O9 SIA . . . K 8 32.947 46.663 47.87 1 70.38 ? O9 SIA 605 A 1 HETATM 21 O O10 SIA . . . K 8 36.531 52.525 48.704 1 85.45 ? O10 SIA 605 A 1 # _model_server_stats.io_time_ms 182 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #