data_6YUP # _model_server_result.job_id XwSRkpRpuhmdsBJMCmqb1g _model_server_result.datetime_utc '2024-11-04 22:33:51' _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 6yup # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":704}' # _entry.id 6YUP # _exptl.entry_id 6YUP _exptl.method 'ELECTRON MICROSCOPY' # _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 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 6YUP _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YUP _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 M N N # 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 242 A CYS 242 1_555 A SG CYS 273 A CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 571 A CYS 571 1_555 A SG CYS 666 A CYS 666 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? disulf ? disulf3 A SG CYS 673 A CYS 673 1_555 A SG CYS 685 A CYS 685 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 B SG CYS 242 C CYS 242 1_555 B SG CYS 273 C CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 571 C CYS 571 1_555 B SG CYS 666 C CYS 666 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? disulf ? disulf6 B SG CYS 673 C CYS 673 1_555 B SG CYS 685 C CYS 685 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 261 A ASN 261 1_555 H C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale2 A ND2 ASN 332 A ASN 332 1_555 E C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.251 ? covale ? covale3 A ND2 ASN 575 A ASN 575 1_555 G C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.253 ? covale ? covale4 B ND2 ASN 332 C ASN 332 1_555 J C1 NAG . C NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.25 ? metalc ? metalc1 A OD1 ASN 214 A ASN 214 1_555 I CA CA . A CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? metalc ? metalc2 A OD2 ASP 284 A ASP 284 1_555 I CA CA . A CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? metalc ? metalc3 A O PHE 318 A PHE 318 1_555 I CA CA . A CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc4 A O LEU 319 A LEU 319 1_555 I CA CA . A CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc5 A OE2 GLU 321 A GLU 321 1_555 I CA CA . A CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.909 ? metalc ? metalc6 B OD1 ASN 214 C ASN 214 1_555 N CA CA . C CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc7 B O PHE 318 C PHE 318 1_555 N CA CA . C CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc8 B O LEU 319 C LEU 319 1_555 N CA CA . C CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc9 B OE2 GLU 321 C GLU 321 1_555 N CA CA . C CA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 6YUP _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 E 3 NAG A 1 701 695 NAG NAG . F 3 NAG A 1 702 696 NAG NAG . G 3 NAG A 1 703 697 NAG NAG . H 3 NAG A 1 704 704 NAG NAG . I 4 CA A 1 705 1 CA CA . J 3 NAG C 1 701 695 NAG NAG . K 3 NAG C 1 702 696 NAG NAG . L 3 NAG C 1 703 697 NAG NAG . M 3 NAG C 1 704 704 NAG NAG . N 4 CA C 1 705 2 CA CA . # 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 . . . M 3 153.164 122.156 70.648 1 72.51 ? C1 NAG 704 C 1 HETATM 2 C C2 NAG . . . M 3 154.366 122.752 71.381 1 72.51 ? C2 NAG 704 C 1 HETATM 3 C C3 NAG . . . M 3 155.63 122.527 70.632 1 72.51 ? C3 NAG 704 C 1 HETATM 4 C C4 NAG . . . M 3 155.864 121.084 70.297 1 72.51 ? C4 NAG 704 C 1 HETATM 5 C C5 NAG . . . M 3 154.661 120.457 69.59 1 72.51 ? C5 NAG 704 C 1 HETATM 6 C C6 NAG . . . M 3 154.878 118.975 69.491 1 72.51 ? C6 NAG 704 C 1 HETATM 7 C C7 NAG . . . M 3 154.803 124.979 72.592 1 72.51 ? C7 NAG 704 C 1 HETATM 8 C C8 NAG . . . M 3 154.582 126.493 72.706 1 72.51 ? C8 NAG 704 C 1 HETATM 9 N N2 NAG . . . M 3 154.163 124.232 71.51 1 72.51 ? N2 NAG 704 C 1 HETATM 10 O O3 NAG . . . M 3 156.751 122.998 71.431 1 72.51 ? O3 NAG 704 C 1 HETATM 11 O O4 NAG . . . M 3 156.997 120.988 69.433 1 72.51 ? O4 NAG 704 C 1 HETATM 12 O O5 NAG . . . M 3 153.404 120.705 70.315 1 72.51 ? O5 NAG 704 C 1 HETATM 13 O O6 NAG . . . M 3 155.602 118.527 70.607 1 72.51 ? O6 NAG 704 C 1 HETATM 14 O O7 NAG . . . M 3 155.492 124.417 73.377 1 72.51 ? O7 NAG 704 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #