data_3D2D # _model_server_result.job_id uWLIknj2KkrH8VpEmQ5_pw _model_server_result.datetime_utc '2024-11-23 16:51:45' _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 3d2d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":607}' # _entry.id 3D2D # _exptl.entry_id 3D2D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 100.62 _cell.angle_gamma 90 _cell.entry_id 3D2D _cell.length_a 98.938 _cell.length_b 93.649 _cell.length_c 63.155 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3D2D _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type 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 ? 2 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN MAN C1 O1 . O3 HO3 . sing 4 ? 2 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 5 MAN MAN C1 O1 . O2 HO2 . 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 NAG 2 B 2 NAG A 602 NAG 2 n B MAN 3 B 3 MAN A 603 MAN 2 n B MAN 4 B 4 MAN A 604 MAN 2 n B MAN 5 B 5 MAN A 605 MAN 2 n B MAN 6 B 6 MAN A 606 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 disulf ? disulf1 A SG CYS 30 A CYS 30 1_555 A SG CYS 89 A CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 38 A ASN 38 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND1 HIS 104 A HIS 104 1_555 D C8M FAD . A FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale3 A SG CYS 166 A CYS 166 1_555 D C6 FAD . A FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.759 ? covale ? covale4 A ND2 ASN 471 A ASN 471 1_555 C C1 NAG . A NAG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 B O4 NAG . B NAG 2 1_555 B C1 MAN . B MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 B O3 MAN . B MAN 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale8 B O2 MAN . B MAN 4 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale9 B O2 MAN . B MAN 5 1_555 B C1 MAN . B MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? # _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 352 n n C1 O1 NAG sing 353 n n C1 O5 NAG sing 354 n n C1 H1 NAG sing 355 n n C2 C3 NAG sing 356 n n C2 N2 NAG sing 357 n n C2 H2 NAG sing 358 n n C3 C4 NAG sing 359 n n C3 O3 NAG sing 360 n n C3 H3 NAG sing 361 n n C4 C5 NAG sing 362 n n C4 O4 NAG sing 363 n n C4 H4 NAG sing 364 n n C5 C6 NAG sing 365 n n C5 O5 NAG sing 366 n n C5 H5 NAG sing 367 n n C6 O6 NAG sing 368 n n C6 H61 NAG sing 369 n n C6 H62 NAG sing 370 n n C7 C8 NAG sing 371 n n C7 N2 NAG sing 372 n n C7 O7 NAG doub 373 n n C8 H81 NAG sing 374 n n C8 H82 NAG sing 375 n n C8 H83 NAG sing 376 n n N2 HN2 NAG sing 377 n n O1 HO1 NAG sing 378 n n O3 HO3 NAG sing 379 n n O4 HO4 NAG sing 380 n n O6 HO6 NAG sing 381 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 3D2D _atom_sites.fract_transf_matrix[1][1] 0.010107 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001895 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010678 _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] 0.01611 _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 1 607 607 NAG NAG . D 4 FAD A 1 600 600 FAD FAD . E 5 REN A 1 801 801 REN REN . F 6 HOH A 1 901 901 HOH HOH . F 6 HOH A 2 902 902 HOH HOH . F 6 HOH A 3 903 903 HOH HOH . F 6 HOH A 4 904 904 HOH HOH . F 6 HOH A 5 905 905 HOH HOH . F 6 HOH A 6 906 906 HOH HOH . F 6 HOH A 7 907 907 HOH HOH . F 6 HOH A 8 908 908 HOH HOH . F 6 HOH A 9 909 909 HOH HOH . F 6 HOH A 10 910 910 HOH HOH . F 6 HOH A 11 911 911 HOH HOH . F 6 HOH A 12 912 912 HOH HOH . F 6 HOH A 13 913 913 HOH HOH . F 6 HOH A 14 914 914 HOH HOH . F 6 HOH A 15 915 915 HOH HOH . F 6 HOH A 16 916 916 HOH HOH . F 6 HOH A 17 917 917 HOH HOH . F 6 HOH A 18 918 918 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 NAG . . . C 3 8.275 33.916 -8.122 1 70.5 ? C1 NAG 607 A 1 HETATM 2 C C2 NAG . . . C 3 8.931 32.672 -8.714 1 70.5 ? C2 NAG 607 A 1 HETATM 3 C C3 NAG . . . C 3 8.007 31.46 -8.661 1 70.5 ? C3 NAG 607 A 1 HETATM 4 C C4 NAG . . . C 3 7.396 31.299 -7.277 1 70.5 ? C4 NAG 607 A 1 HETATM 5 C C5 NAG . . . C 3 6.806 32.605 -6.766 1 70.5 ? C5 NAG 607 A 1 HETATM 6 C C6 NAG . . . C 3 6.411 32.44 -5.308 1 70.5 ? C6 NAG 607 A 1 HETATM 7 C C7 NAG . . . C 3 10.614 33.081 -10.424 1 70.5 ? C7 NAG 607 A 1 HETATM 8 C C8 NAG . . . C 3 10.926 34.198 -11.379 1 70.5 ? C8 NAG 607 A 1 HETATM 9 N N2 NAG . . . C 3 9.334 32.936 -10.084 1 70.5 ? N2 NAG 607 A 1 HETATM 10 O O3 NAG . . . C 3 8.74 30.295 -8.978 1 70.5 ? O3 NAG 607 A 1 HETATM 11 O O4 NAG . . . C 3 6.383 30.318 -7.317 1 70.5 ? O4 NAG 607 A 1 HETATM 12 O O5 NAG . . . C 3 7.734 33.666 -6.842 1 70.5 ? O5 NAG 607 A 1 HETATM 13 O O6 NAG . . . C 3 7.563 32.106 -4.567 1 70.5 ? O6 NAG 607 A 1 HETATM 14 O O7 NAG . . . C 3 11.512 32.355 -9.993 1 70.5 ? O7 NAG 607 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 346 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 14 #