data_7BO3 # _model_server_result.job_id R4JD9bk-D-pYmc_SZGYwdw _model_server_result.datetime_utc '2024-11-24 06:01:38' _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 7bo3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":611}' # _entry.id 7BO3 # _exptl.entry_id 7BO3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.27 _entity.id 9 _entity.src_method syn _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 7BO3 _cell.length_a 154.51 _cell.length_b 154.51 _cell.length_c 127.6 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BO3 _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,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 9 _struct_asym.id O _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 601 NAG 2 n B FUC 2 B 2 FUC A 602 FUC 3 n C NAG 1 C 1 NAG A 605 NAG 3 n C NAG 2 C 2 NAG A 604 NAG 3 n C FUC 3 C 3 FUC A 606 FUC 2 n D NAG 1 D 1 NAG A 607 NAG 2 n D FUC 2 D 2 FUC A 609 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf2 A SG CYS 252 A CYS 252 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf3 A SG CYS 400 A CYS 400 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? covale ? covale1 A ND2 ASN 57 A ASN 57 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 A ND2 ASN 106 A ASN 106 1_555 E C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale3 A ND2 ASN 241 A ASN 241 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale4 A ND2 ASN 256 A ASN 256 1_555 F C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale5 A ND2 ASN 341 A ASN 341 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 A ND2 ASN 485 A ASN 485 1_555 G C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 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 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale10 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 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 435 n n C1 O1A SIA doub 436 n n C1 O1B SIA sing 437 n n C2 C3 SIA sing 438 n n C2 O2 SIA sing 439 n n C2 O6 SIA sing 440 n n C3 C4 SIA sing 441 n n C3 H32 SIA sing 442 n n C3 H31 SIA sing 443 n n C4 C5 SIA sing 444 n n C4 O4 SIA sing 445 n n C4 H4 SIA sing 446 n n C5 C6 SIA sing 447 n n C5 N5 SIA sing 448 n n C5 H5 SIA sing 449 n n C6 C7 SIA sing 450 n n C6 O6 SIA sing 451 n n C6 H6 SIA sing 452 n n C7 C8 SIA sing 453 n n C7 O7 SIA sing 454 n n C7 H7 SIA sing 455 n n C8 C9 SIA sing 456 n n C8 O8 SIA sing 457 n n C8 H8 SIA sing 458 n n C9 O9 SIA sing 459 n n C9 H92 SIA sing 460 n n C9 H91 SIA sing 461 n n C10 C11 SIA sing 462 n n C10 N5 SIA sing 463 n n C10 O10 SIA doub 464 n n C11 H111 SIA sing 465 n n C11 H113 SIA sing 466 n n C11 H112 SIA sing 467 n n N5 HN5 SIA sing 468 n n O1B HO1B SIA sing 469 n n O2 HO2 SIA sing 470 n n O4 HO4 SIA sing 471 n n O7 HO7 SIA sing 472 n n O8 HO8 SIA sing 473 n n O9 HO9 SIA sing 474 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 7BO3 _atom_sites.fract_transf_matrix[1][1] 0.006472 _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] 0.006472 _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] 0.007837 _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 4 NAG A 1 601 603 NAG NAG . F 4 NAG A 1 602 610 NAG NAG . G 4 NAG A 1 603 611 NAG NAG . H 5 MES A 1 604 619 MES MES . I 6 SO4 A 1 605 620 SO4 SO4 . J 6 SO4 A 1 606 621 SO4 SO4 . K 6 SO4 A 1 607 622 SO4 SO4 . L 7 GOL A 1 608 624 GOL GOL . M 7 GOL A 1 609 625 GOL GOL . N 8 IA4 A 1 610 626 IA4 IA4 . O 9 SIA A 1 611 627 SIA SIA . P 6 SO4 A 1 612 1 SO4 SO4 . Q 10 HOH A 1 701 84 HOH HOH . Q 10 HOH A 2 702 45 HOH HOH . Q 10 HOH A 3 703 92 HOH HOH . Q 10 HOH A 4 704 67 HOH HOH . Q 10 HOH A 5 705 53 HOH HOH . Q 10 HOH A 6 706 3 HOH HOH . Q 10 HOH A 7 707 23 HOH HOH . Q 10 HOH A 8 708 9 HOH HOH . Q 10 HOH A 9 709 97 HOH HOH . Q 10 HOH A 10 710 91 HOH HOH . Q 10 HOH A 11 711 65 HOH HOH . Q 10 HOH A 12 712 18 HOH HOH . Q 10 HOH A 13 713 26 HOH HOH . Q 10 HOH A 14 714 93 HOH HOH . Q 10 HOH A 15 715 94 HOH HOH . Q 10 HOH A 16 716 74 HOH HOH . Q 10 HOH A 17 717 13 HOH HOH . Q 10 HOH A 18 718 69 HOH HOH . Q 10 HOH A 19 719 85 HOH HOH . Q 10 HOH A 20 720 52 HOH HOH . Q 10 HOH A 21 721 12 HOH HOH . Q 10 HOH A 22 722 14 HOH HOH . Q 10 HOH A 23 723 6 HOH HOH . Q 10 HOH A 24 724 16 HOH HOH . Q 10 HOH A 25 725 47 HOH HOH . Q 10 HOH A 26 726 41 HOH HOH . Q 10 HOH A 27 727 20 HOH HOH . Q 10 HOH A 28 728 54 HOH HOH . Q 10 HOH A 29 729 87 HOH HOH . Q 10 HOH A 30 730 10 HOH HOH . Q 10 HOH A 31 731 17 HOH HOH . Q 10 HOH A 32 732 8 HOH HOH . Q 10 HOH A 33 733 34 HOH HOH . Q 10 HOH A 34 734 7 HOH HOH . Q 10 HOH A 35 735 78 HOH HOH . Q 10 HOH A 36 736 4 HOH HOH . Q 10 HOH A 37 737 49 HOH HOH . Q 10 HOH A 38 738 42 HOH HOH . Q 10 HOH A 39 739 64 HOH HOH . Q 10 HOH A 40 740 57 HOH HOH . Q 10 HOH A 41 741 46 HOH HOH . Q 10 HOH A 42 742 51 HOH HOH . Q 10 HOH A 43 743 111 HOH HOH . Q 10 HOH A 44 744 33 HOH HOH . Q 10 HOH A 45 745 48 HOH HOH . Q 10 HOH A 46 746 38 HOH HOH . Q 10 HOH A 47 747 27 HOH HOH . Q 10 HOH A 48 748 62 HOH HOH . Q 10 HOH A 49 749 103 HOH HOH . Q 10 HOH A 50 750 22 HOH HOH . Q 10 HOH A 51 751 61 HOH HOH . Q 10 HOH A 52 752 15 HOH HOH . Q 10 HOH A 53 753 73 HOH HOH . Q 10 HOH A 54 754 70 HOH HOH . Q 10 HOH A 55 755 109 HOH HOH . Q 10 HOH A 56 756 36 HOH HOH . Q 10 HOH A 57 757 89 HOH HOH . Q 10 HOH A 58 758 79 HOH HOH . Q 10 HOH A 59 759 106 HOH HOH . Q 10 HOH A 60 760 90 HOH HOH . Q 10 HOH A 61 761 55 HOH HOH . Q 10 HOH A 62 762 37 HOH HOH . Q 10 HOH A 63 763 35 HOH HOH . Q 10 HOH A 64 764 11 HOH HOH . Q 10 HOH A 65 765 5 HOH HOH . Q 10 HOH A 66 766 56 HOH HOH . Q 10 HOH A 67 767 30 HOH HOH . Q 10 HOH A 68 768 50 HOH HOH . Q 10 HOH A 69 769 72 HOH HOH . Q 10 HOH A 70 770 82 HOH HOH . Q 10 HOH A 71 771 19 HOH HOH . Q 10 HOH A 72 772 44 HOH HOH . Q 10 HOH A 73 773 68 HOH HOH . Q 10 HOH A 74 774 66 HOH HOH . Q 10 HOH A 75 775 117 HOH HOH . Q 10 HOH A 76 776 21 HOH HOH . Q 10 HOH A 77 777 24 HOH HOH . Q 10 HOH A 78 778 39 HOH HOH . Q 10 HOH A 79 779 71 HOH HOH . Q 10 HOH A 80 780 31 HOH HOH . Q 10 HOH A 81 781 60 HOH HOH . Q 10 HOH A 82 782 25 HOH HOH . Q 10 HOH A 83 783 114 HOH HOH . Q 10 HOH A 84 784 81 HOH HOH . Q 10 HOH A 85 785 95 HOH HOH . Q 10 HOH A 86 786 59 HOH HOH . Q 10 HOH A 87 787 43 HOH HOH . Q 10 HOH A 88 788 112 HOH HOH . Q 10 HOH A 89 789 104 HOH HOH . Q 10 HOH A 90 790 119 HOH HOH . Q 10 HOH A 91 791 108 HOH HOH . Q 10 HOH A 92 792 88 HOH HOH . Q 10 HOH A 93 793 83 HOH HOH . Q 10 HOH A 94 794 63 HOH HOH . Q 10 HOH A 95 795 40 HOH HOH . Q 10 HOH A 96 796 80 HOH HOH . Q 10 HOH A 97 797 58 HOH HOH . Q 10 HOH A 98 798 115 HOH HOH . Q 10 HOH A 99 799 86 HOH HOH . Q 10 HOH A 100 800 118 HOH HOH . Q 10 HOH A 101 801 32 HOH HOH . Q 10 HOH A 102 802 2 HOH HOH . Q 10 HOH A 103 803 102 HOH HOH . Q 10 HOH A 104 804 116 HOH HOH . Q 10 HOH A 105 805 1 HOH HOH . Q 10 HOH A 106 806 29 HOH HOH . Q 10 HOH A 107 807 99 HOH HOH . Q 10 HOH A 108 808 105 HOH HOH . Q 10 HOH A 109 809 76 HOH HOH . Q 10 HOH A 110 810 107 HOH HOH . Q 10 HOH A 111 811 101 HOH HOH . Q 10 HOH A 112 812 75 HOH HOH . Q 10 HOH A 113 813 98 HOH HOH . Q 10 HOH A 114 814 28 HOH HOH . Q 10 HOH A 115 815 77 HOH HOH . Q 10 HOH A 116 816 96 HOH HOH . Q 10 HOH A 117 817 113 HOH HOH . Q 10 HOH A 118 818 100 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 . . . O 9 39.576 46.128 49.581 1 95.7 ? C1 SIA 611 A 1 HETATM 2 C C2 SIA . . . O 9 38.809 47.505 49.76 1 93.53 ? C2 SIA 611 A 1 HETATM 3 C C3 SIA . . . O 9 39.396 48.644 48.9 1 85.37 ? C3 SIA 611 A 1 HETATM 4 C C4 SIA . . . O 9 38.579 49.945 48.815 1 91.41 ? C4 SIA 611 A 1 HETATM 5 C C5 SIA . . . O 9 37.096 49.707 49.168 1 85.02 ? C5 SIA 611 A 1 HETATM 6 C C6 SIA . . . O 9 36.662 48.289 48.671 1 83.98 ? C6 SIA 611 A 1 HETATM 7 C C7 SIA . . . O 9 35.167 47.864 48.855 1 79.45 ? C7 SIA 611 A 1 HETATM 8 C C8 SIA . . . O 9 34.948 46.32 48.964 1 70.12 ? C8 SIA 611 A 1 HETATM 9 C C9 SIA . . . O 9 33.461 45.93 48.935 1 66.01 ? C9 SIA 611 A 1 HETATM 10 C C10 SIA . . . O 9 35.964 51.335 47.509 1 76.64 ? C10 SIA 611 A 1 HETATM 11 C C11 SIA . . . O 9 35.161 52.636 47.501 1 69.54 ? C11 SIA 611 A 1 HETATM 12 N N5 SIA . . . O 9 36.295 50.877 48.746 1 85.6 ? N5 SIA 611 A 1 HETATM 13 O O1A SIA . . . O 9 38.784 45.148 49.475 1 94.93 ? O1A SIA 611 A 1 HETATM 14 O O1B SIA . . . O 9 40.832 46.151 49.552 1 94.63 ? O1B SIA 611 A 1 HETATM 15 O O2 SIA . . . O 9 38.863 47.809 51.114 1 92.59 ? O2 SIA 611 A 1 HETATM 16 O O4 SIA . . . O 9 39.08 50.985 49.686 1 92.52 ? O4 SIA 611 A 1 HETATM 17 O O6 SIA . . . O 9 37.387 47.292 49.4 1 90.38 ? O6 SIA 611 A 1 HETATM 18 O O7 SIA . . . O 9 34.592 48.549 49.964 1 77.86 ? O7 SIA 611 A 1 HETATM 19 O O8 SIA . . . O 9 35.696 45.581 47.988 1 72.29 ? O8 SIA 611 A 1 HETATM 20 O O9 SIA . . . O 9 32.779 46.477 47.798 1 59.72 ? O9 SIA 611 A 1 HETATM 21 O O10 SIA . . . O 9 36.253 50.771 46.462 1 81.98 ? O10 SIA 611 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 521 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #