data_8AGB # _model_server_result.job_id 3jzjnqx1x4PDmTlqpfmWxw _model_server_result.datetime_utc '2024-11-04 22:48:54' _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 8agb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":502}' # _entry.id 8AGB # _exptl.entry_id 8AGB _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 17 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 8AGB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8AGB _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 PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_and_software_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,R,S,T,U,V _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 ? _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 ? 17 T N N ? 17 U N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 9 oligosaccharide 10 oligosaccharide 11 oligosaccharide 12 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 ? 9 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 9 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 9 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 9 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 9 6 5 MAN MAN C1 O1 . O2 HO2 . sing 6 ? 9 7 3 MAN BMA C1 O1 . O6 HO6 . sing 7 ? 10 2 1 NAG NAG C1 O1 . O4 HO4 . sing 8 ? 10 3 2 BMA NAG C1 O1 . O4 HO4 . sing 9 ? 11 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 12 2 1 NAG NDG C1 O1 . O4 HO4 . sing 11 ? 12 3 2 BMA NAG C1 O1 . O4 HO4 . sing 12 ? 12 4 3 MAN BMA C1 O1 . O3 HO3 . sing 13 ? 12 5 4 MAN MAN C1 O1 . O2 HO2 . sing 14 ? 12 6 5 MAN MAN C1 O1 . O2 HO2 . sing 15 ? 12 7 6 GLC MAN C1 O1 . O3 HO3 . sing 16 ? 12 8 7 GLC GLC C1 O1 . O3 HO3 . sing 17 ? 12 9 8 GLC GLC C1 O1 . O2 HO2 . sing 18 ? 12 10 3 MAN BMA C1 O1 . O6 HO6 . sing 19 ? 12 11 10 MAN MAN C1 O1 . O3 HO3 . 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 9 n I NAG 1 I 1 NAG A 801 NAG 9 n I NAG 2 I 2 NAG A 802 NAG 9 n I BMA 3 I 3 BMA A 803 BMA 9 n I MAN 4 I 4 MAN A 804 MAN 9 n I MAN 5 I 5 MAN A 805 MAN 9 n I MAN 6 I 6 MAN A 806 MAN 9 n I MAN 7 I 7 MAN A 807 MAN 10 n J NAG 1 J 1 NAG E 501 NAG 10 n J NAG 2 J 2 NAG E 502 NAG 10 n J BMA 3 J 3 BMA E 503 BMA 11 n K NAG 1 K 1 NAG E 504 NAG 11 n K NAG 2 K 2 NAG E 505 NAG 12 n L NDG 1 L 1 NDG J 537 NDG 12 n L NAG 2 L 2 NAG J 538 NAG 12 n L BMA 3 L 3 BMA J 539 BMA 12 n L MAN 4 L 4 MAN J 542 MAN 12 n L MAN 5 L 5 MAN J 543 MAN 12 n L MAN 6 L 6 MAN J 544 MAN 12 n L GLC 7 L 7 GLC J 545 GLC 12 n L GLC 8 L 8 GLC J 546 GLC 12 n L GLC 9 L 9 GLC J 547 GLC 12 n L MAN 10 L 10 MAN J 540 MAN 12 n L MAN 11 L 11 MAN J 541 MAN # 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 A ND2 ASN 539 A ASN 539 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 P O3B ELU . A ELU 804 1_555 L C1 NDG . L NDG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale3 E ND2 ASN 336 E ASN 336 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 E ND2 ASN 400 E ASN 400 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale5 G ND2 ASN 60 G ASN 60 1_555 U C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 G ND2 ASN 332 G ASN 332 1_555 T C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale8 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 I O3 BMA . I BMA 3 1_555 I C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 I O6 BMA . I BMA 3 1_555 I C1 MAN . I MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 I O2 MAN . I MAN 4 1_555 I C1 MAN . I MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale12 I O2 MAN . I MAN 5 1_555 I C1 MAN . I MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale13 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale14 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale15 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale16 L O4 NDG . L NDG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale17 L O4 NAG . L NAG 2 1_555 L C1 BMA . L BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 L O3 BMA . L BMA 3 1_555 L C1 MAN . L MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale19 L O6 BMA . L BMA 3 1_555 L C1 MAN . L MAN 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale20 L O2 MAN . L MAN 4 1_555 L C1 MAN . L MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale21 L O2 MAN . L MAN 5 1_555 L C1 MAN . L MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale22 L O3 MAN . L MAN 6 1_555 L C1 GLC . L GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale23 L O3 GLC . L GLC 7 1_555 L C1 GLC . L GLC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale24 L O2 GLC . L GLC 8 1_555 L C1 GLC . L GLC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale25 L O3 MAN . L MAN 10 1_555 L C1 MAN . L MAN 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A OD2 ASP 166 A ASP 166 1_555 O MN MN . A MN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc2 O MN MN . A MN 803 1_555 P O1B ELU . A ELU 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 NAG sing 504 n n C1 O1 NAG sing 505 n n C1 O5 NAG sing 506 n n C1 H1 NAG sing 507 n n C2 C3 NAG sing 508 n n C2 N2 NAG sing 509 n n C2 H2 NAG sing 510 n n C3 C4 NAG sing 511 n n C3 O3 NAG sing 512 n n C3 H3 NAG sing 513 n n C4 C5 NAG sing 514 n n C4 O4 NAG sing 515 n n C4 H4 NAG sing 516 n n C5 C6 NAG sing 517 n n C5 O5 NAG sing 518 n n C5 H5 NAG sing 519 n n C6 O6 NAG sing 520 n n C6 H61 NAG sing 521 n n C6 H62 NAG sing 522 n n C7 C8 NAG sing 523 n n C7 N2 NAG sing 524 n n C7 O7 NAG doub 525 n n C8 H81 NAG sing 526 n n C8 H82 NAG sing 527 n n C8 H83 NAG sing 528 n n N2 HN2 NAG sing 529 n n O1 HO1 NAG sing 530 n n O3 HO3 NAG sing 531 n n O4 HO4 NAG sing 532 n n O6 HO6 NAG sing 533 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 NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8AGB _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 M 13 CPL A 1 801 809 CPL CPL . N 14 PTY A 1 802 901 PTY PTY . O 15 MN A 1 803 1 MN MN . P 16 ELU A 1 804 1002 ELU L01 . Q 13 CPL B 1 101 101 CPL CPL . R 13 CPL E 1 501 506 CPL CPL . S 14 PTY F 1 301 810 PTY PTY . T 17 NAG G 1 501 503 NAG NAG . U 17 NAG G 1 502 504 NAG NAG . V 13 CPL G 1 503 302 CPL CPL . # 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 NAG . . . U 17 146.122 151.345 73.05 1 101.94 ? C1 NAG 502 G 1 HETATM 2 C C2 NAG . . . U 17 147.061 150.237 72.635 1 101.94 ? C2 NAG 502 G 1 HETATM 3 C C3 NAG . . . U 17 147.198 150.169 71.109 1 101.94 ? C3 NAG 502 G 1 HETATM 4 C C4 NAG . . . U 17 145.918 150.506 70.338 1 101.94 ? C4 NAG 502 G 1 HETATM 5 C C5 NAG . . . U 17 144.886 151.368 71.077 1 101.94 ? C5 NAG 502 G 1 HETATM 6 C C6 NAG . . . U 17 143.47 151.124 70.609 1 101.94 ? C6 NAG 502 G 1 HETATM 7 C C7 NAG . . . U 17 149.249 149.407 73.38 1 101.94 ? C7 NAG 502 G 1 HETATM 8 C C8 NAG . . . U 17 150.546 149.759 74.042 1 101.94 ? C8 NAG 502 G 1 HETATM 9 N N2 NAG . . . U 17 148.365 150.403 73.256 1 101.94 ? N2 NAG 502 G 1 HETATM 10 O O3 NAG . . . U 17 147.652 148.871 70.738 1 101.94 ? O3 NAG 502 G 1 HETATM 11 O O4 NAG . . . U 17 146.256 151.151 69.115 1 101.94 ? O4 NAG 502 G 1 HETATM 12 O O5 NAG . . . U 17 144.896 151.137 72.488 1 101.94 ? O5 NAG 502 G 1 HETATM 13 O O6 NAG . . . U 17 142.654 152.27 70.807 1 101.94 ? O6 NAG 502 G 1 HETATM 14 O O7 NAG . . . U 17 149.011 148.273 72.976 1 101.94 ? O7 NAG 502 G 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #