data_5U74 # _model_server_result.job_id NF5EDz8eKPstuMwlzSUNiw _model_server_result.datetime_utc '2024-10-28 02:22:15' _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 5u74 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1301}' # _entry.id 5U74 # _exptl.entry_id 5U74 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 8 _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 5U74 _cell.length_a 174.87 _cell.length_b 222.115 _cell.length_c 107.851 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5U74 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _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,G,H,I,J,K,L,M _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 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 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 MAN NAG C1 O1 . O3 HO3 . sing 4 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 4 3 2 MAN NAG 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 B NAG 1 B 1 NAG B 478 NAG 2 n B NAG 2 B 2 NAG B 479 NAG 3 n C NAG 1 C 1 NAG B 557 NAG 3 n C NAG 2 C 2 NAG B 558 NAG 3 n C MAN 3 C 3 MAN B 559 MAN 4 n D NAG 1 D 1 NAG B 931 NAG 4 n D NAG 2 D 2 NAG B 932 NAG 4 n D MAN 3 D 3 MAN B 933 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 468 A CYS 468 1_555 A SG CYS 479 A CYS 479 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf2 A SG CYS 516 A CYS 516 1_555 A SG CYS 533 A CYS 533 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 909 A CYS 909 1_555 A SG CYS 914 A CYS 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf4 A SG CYS 956 A CYS 956 1_555 A SG CYS 1011 A CYS 1011 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf5 A SG CYS 957 A CYS 957 1_555 A SG CYS 979 A CYS 979 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 A SG CYS 967 A CYS 967 1_555 A SG CYS 976 A CYS 976 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A ND2 ASN 452 A ASN 452 1_555 E C1 NAG . A NAG 1301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 459 A ASN 459 1_555 F C1 NAG . A NAG 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale3 A OH TYR 475 A TYR 475 1_555 K C6 NAG . A NAG 1315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 ? covale ? covale4 A OH TYR 475 A TYR 475 1_555 K C5 NAG . A NAG 1315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale5 A ND2 ASN 478 A ASN 478 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 A ND2 ASN 524 A ASN 524 1_555 G C1 NAG . A NAG 1305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 A ND2 ASN 557 A ASN 557 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 A ND2 ASN 598 A ASN 598 1_555 H C1 NAG . A NAG 1309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 A ND2 ASN 916 A ASN 916 1_555 I C1 NAG . A NAG 1310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.479 ? covale ? covale10 A ND2 ASN 931 A ASN 931 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale11 A ND2 ASN 961 A ASN 961 1_555 J C1 NAG . A NAG 1314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale12 A ND2 ASN 968 A ASN 968 1_555 K C1 NAG . A NAG 1315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale13 A ND2 ASN 1064 A ASN 1064 1_555 L C1 NAG . A NAG 1316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale14 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale15 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale16 C O3 NAG . C NAG 2 1_555 C C1 MAN . C MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale17 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale18 D O4 NAG . D NAG 2 1_555 D C1 MAN . D MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? # _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 284 n n C1 O1 NAG sing 285 n n C1 O5 NAG sing 286 n n C1 H1 NAG sing 287 n n C2 C3 NAG sing 288 n n C2 N2 NAG sing 289 n n C2 H2 NAG sing 290 n n C3 C4 NAG sing 291 n n C3 O3 NAG sing 292 n n C3 H3 NAG sing 293 n n C4 C5 NAG sing 294 n n C4 O4 NAG sing 295 n n C4 H4 NAG sing 296 n n C5 C6 NAG sing 297 n n C5 O5 NAG sing 298 n n C5 H5 NAG sing 299 n n C6 O6 NAG sing 300 n n C6 H61 NAG sing 301 n n C6 H62 NAG sing 302 n n C7 C8 NAG sing 303 n n C7 N2 NAG sing 304 n n C7 O7 NAG doub 305 n n C8 H81 NAG sing 306 n n C8 H82 NAG sing 307 n n C8 H83 NAG sing 308 n n N2 HN2 NAG sing 309 n n O1 HO1 NAG sing 310 n n O3 HO3 NAG sing 311 n n O4 HO4 NAG sing 312 n n O6 HO6 NAG sing 313 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 5U74 _atom_sites.fract_transf_matrix[1][1] 0.005719 _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] 0.004502 _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] 0.009272 _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 5 NAG A 1 1301 452 NAG NAG . F 5 NAG A 1 1302 459 NAG NAG . G 5 NAG A 1 1305 524 NAG NAG . H 5 NAG A 1 1309 598 NAG NAG . I 5 NAG A 1 1310 916 NAG NAG . J 5 NAG A 1 1314 961 NAG NAG . K 5 NAG A 1 1315 968 NAG NAG . L 5 NAG A 1 1316 1064 NAG NAG . M 6 MES A 1 1317 1 MES MES . # 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 . . . E 5 46.88 -1.168 -8.126 1 156.83 ? C1 NAG 1301 A 1 HETATM 2 C C2 NAG . . . E 5 47.997 -2.173 -7.858 1 158.47 ? C2 NAG 1301 A 1 HETATM 3 C C3 NAG . . . E 5 47.892 -3.347 -8.83 1 166.86 ? C3 NAG 1301 A 1 HETATM 4 C C4 NAG . . . E 5 46.491 -3.947 -8.799 1 171.76 ? C4 NAG 1301 A 1 HETATM 5 C C5 NAG . . . E 5 45.442 -2.859 -9.013 1 171.45 ? C5 NAG 1301 A 1 HETATM 6 C C6 NAG . . . E 5 44.023 -3.359 -8.871 1 167.78 ? C6 NAG 1301 A 1 HETATM 7 C C7 NAG . . . E 5 50.243 -1.647 -7.01 1 138.34 ? C7 NAG 1301 A 1 HETATM 8 C C8 NAG . . . E 5 51.533 -0.932 -7.282 1 132.87 ? C8 NAG 1301 A 1 HETATM 9 N N2 NAG . . . E 5 49.304 -1.543 -7.958 1 149.38 ? N2 NAG 1301 A 1 HETATM 10 O O3 NAG . . . E 5 48.857 -4.334 -8.487 1 166.49 ? O3 NAG 1301 A 1 HETATM 11 O O4 NAG . . . E 5 46.359 -4.928 -9.821 1 172.74 ? O4 NAG 1301 A 1 HETATM 12 O O5 NAG . . . E 5 45.613 -1.822 -8.037 1 167.82 ? O5 NAG 1301 A 1 HETATM 13 O O6 NAG . . . E 5 43.11 -2.281 -8.713 1 162.64 ? O6 NAG 1301 A 1 HETATM 14 O O7 NAG . . . E 5 50.059 -2.288 -5.98 1 131.99 ? O7 NAG 1301 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 105 _model_server_stats.create_model_time_ms 60 _model_server_stats.query_time_ms 445 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #