data_8EPM # _model_server_result.job_id VcFlDCPhzcugP1EgqAohHQ _model_server_result.datetime_utc '2024-11-04 23:00:11' _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 8epm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1202}' # _entry.id 8EPM # _exptl.entry_id 8EPM _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 8EPM _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8EPM _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 6 I N N ? 6 J N N ? 6 K N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 3 NAG 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 3 n C NAG 1 B 1 NAG C 1102 NAG 3 n C NAG 2 B 2 NAG C 1103 NAG 3 n D NAG 1 D 1 NAG C 1105 NAG 3 n D NAG 2 D 2 NAG C 1106 NAG 4 n E NAG 1 E 1 NAG C 1107 NAG 4 n E NAG 2 E 2 NAG C 1108 NAG 4 n E NAG 3 E 3 NAG C 1109 NAG 4 n E NAG 4 E 4 NAG C 1110 NAG 3 n F NAG 1 F 1 NAG C 1111 NAG 3 n F NAG 2 F 2 NAG C 1112 NAG 3 n G NAG 1 G 1 NAG C 1114 NAG 3 n G NAG 2 G 2 NAG C 1115 NAG # 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 251 A CYS 251 1_555 A SG CYS 273 A CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 268 A CYS 268 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 1318 A CYS 1318 1_555 A SG CYS 1329 A CYS 1329 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 1678 A CYS 1678 1_555 A SG CYS 1694 A CYS 1694 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 303 C CYS 303 1_555 B SG CYS 1044 C CYS 1044 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 404 C CYS 404 1_555 B SG CYS 1071 C CYS 1071 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 667 C CYS 667 1_555 B SG CYS 697 C CYS 697 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 B SG CYS 904 C CYS 904 1_555 B SG CYS 974 C CYS 974 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 B SG CYS 996 C CYS 996 1_555 B SG CYS 1026 C CYS 1026 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 B SG CYS 999 C CYS 999 1_555 B SG CYS 1024 C CYS 1024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 B ND2 ASN 92 C ASN 92 1_555 I C1 NAG . C NAG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 B ND2 ASN 184 C ASN 184 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 B ND2 ASN 348 C ASN 348 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale4 B ND2 ASN 468 C ASN 468 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale5 B ND2 ASN 613 C ASN 613 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 B ND2 ASN 781 C ASN 781 1_555 J C1 NAG . C NAG 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 B ND2 ASN 895 C ASN 895 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale8 C O4 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale11 E O4 NAG . E NAG 2 1_555 E C1 NAG . E NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale12 E O4 NAG . E NAG 3 1_555 E C1 NAG . E NAG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale13 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale14 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A OD2 ASP 116 A ASP 116 1_555 L CA CA . C CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? metalc ? metalc2 A OE1 GLU 309 A GLU 309 1_555 H CA CA . A CA 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc3 A OE2 GLU 309 A GLU 309 1_555 H CA CA . A CA 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc4 A OE1 GLU 657 A GLU 657 1_555 H CA CA . A CA 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc5 A OE1 GLU 1372 A GLU 1372 1_555 H CA CA . A CA 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc6 A OE2 GLU 1372 A GLU 1372 1_555 H CA CA . A CA 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc7 B OG SER 261 C SER 261 1_555 L CA CA . C CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc8 B OG SER 263 C SER 263 1_555 L CA CA . C CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc9 B OG1 THR 331 C THR 331 1_555 L CA CA . C CA 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? # _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_ _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 8EPM _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 H 5 CA A 1 2401 2 CA CA . I 6 NAG C 1 1201 1101 NAG NAG . J 6 NAG C 1 1202 1113 NAG NAG . K 6 NAG C 1 1203 1116 NAG NAG . L 5 CA C 1 1204 1 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 . . . J 6 195.86 114.841 186.768 1 117.08 ? C1 NAG 1202 C 1 HETATM 2 C C2 NAG . . . J 6 197.193 114.899 185.998 1 118.34 ? C2 NAG 1202 C 1 HETATM 3 C C3 NAG . . . J 6 197.35 113.678 185.101 1 117.61 ? C3 NAG 1202 C 1 HETATM 4 C C4 NAG . . . J 6 196.851 112.438 185.824 1 117.39 ? C4 NAG 1202 C 1 HETATM 5 C C5 NAG . . . J 6 195.34 112.535 185.979 1 118.36 ? C5 NAG 1202 C 1 HETATM 6 C C6 NAG . . . J 6 194.817 111.807 187.197 1 116.67 ? C6 NAG 1202 C 1 HETATM 7 C C7 NAG . . . J 6 198.351 116.937 185.269 1 117.22 ? C7 NAG 1202 C 1 HETATM 8 C C8 NAG . . . J 6 198.286 118.154 184.397 1 115.31 ? C8 NAG 1202 C 1 HETATM 9 N N2 NAG . . . J 6 197.292 116.122 185.218 1 118.84 ? N2 NAG 1202 C 1 HETATM 10 O O3 NAG . . . J 6 198.72 113.52 184.749 1 116.97 ? O3 NAG 1202 C 1 HETATM 11 O O4 NAG . . . J 6 197.177 111.271 185.078 1 114.95 ? O4 NAG 1202 C 1 HETATM 12 O O5 NAG . . . J 6 194.93 113.909 186.098 1 117.44 ? O5 NAG 1202 C 1 HETATM 13 O O6 NAG . . . J 6 195.359 110.497 187.289 1 115.72 ? O6 NAG 1202 C 1 HETATM 14 O O7 NAG . . . J 6 199.317 116.703 185.988 1 116.27 ? O7 NAG 1202 C 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #