data_8K8E # _model_server_result.job_id S6v51W24nseNiNqOvgYvUA _model_server_result.datetime_utc '2024-11-21 14:04:45' _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 8k8e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":805}' # _entry.id 8K8E # _exptl.entry_id 8K8E _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _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 8K8E _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8K8E _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,O,P,Q _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 ? 8 H N N ? 8 I N N ? 8 J N N ? 8 K N N ? 8 L N N ? 8 M N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 6 oligosaccharide 7 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 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 7 2 1 BMA BMA C1 O1 . O3 HO3 . sing 3 ? 7 3 1 BMA BMA C1 O1 . O6 HO6 . 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 6 n F NAG 1 E 1 NAG E 1 NAG 6 n F NAG 2 E 2 NAG E 2 NAG 7 n G BMA 1 F 1 BMA F 1 BMA 7 n G BMA 2 F 2 BMA F 2 BMA 7 n G BMA 3 F 3 BMA F 3 BMA # 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 50 A CYS 50 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 140 A CYS 140 1_555 A SG CYS 159 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 195 A CYS 195 1_555 A SG CYS 213 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf4 A SG CYS 230 A CYS 230 1_555 A SG CYS 248 A CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 586 A CYS 586 1_555 A SG CYS 620 A CYS 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 45 A ASN 45 1_555 H C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 55 A ASN 55 1_555 F C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 A ND2 ASN 187 A ASN 187 1_555 M C1 NAG . A NAG 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 435 A ASN 435 1_555 I C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale5 A ND2 ASN 506 A ASN 506 1_555 L C1 NAG . A NAG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale6 A ND2 ASN 530 A ASN 530 1_555 K C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 A ND2 ASN 573 A ASN 573 1_555 J C1 NAG . A NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale8 E C BOC 1 G BOC 1 1_555 E N VAL 2 G VAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale9 E C GLY 3 G GLY 3 1_555 E N AIB 4 G AIB 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale10 E C AIB 4 G AIB 4 1_555 E N VAL 5 G VAL 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale11 E C ILE 7 G ILE 7 1_555 E N AIB 8 G AIB 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 E C AIB 8 G AIB 8 1_555 E N PHE 9 G PHE 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale13 E C VAL 10 G VAL 10 1_555 E N AIB 11 G AIB 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale14 E C AIB 11 G AIB 11 1_555 E N GLY 12 G GLY 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale15 E C VAL 15 G VAL 15 1_555 E N15 JUU 16 G JUU 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale16 E C80 JUU 16 G JUU 16 1_555 E N LEU 17 G LEU 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale17 E C LEU 17 G LEU 17 1_555 E N VLM 18 G VLM 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale18 F O4 NAG . E NAG 1 1_555 F C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? covale ? covale19 G O3 BMA . F BMA 1 1_555 G C1 BMA . F BMA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale20 G O6 BMA . F BMA 1 1_555 G C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? # _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 414 n n C1 O1 NAG sing 415 n n C1 O5 NAG sing 416 n n C1 H1 NAG sing 417 n n C2 C3 NAG sing 418 n n C2 N2 NAG sing 419 n n C2 H2 NAG sing 420 n n C3 C4 NAG sing 421 n n C3 O3 NAG sing 422 n n C3 H3 NAG sing 423 n n C4 C5 NAG sing 424 n n C4 O4 NAG sing 425 n n C4 H4 NAG sing 426 n n C5 C6 NAG sing 427 n n C5 O5 NAG sing 428 n n C5 H5 NAG sing 429 n n C6 O6 NAG sing 430 n n C6 H61 NAG sing 431 n n C6 H62 NAG sing 432 n n C7 C8 NAG sing 433 n n C7 N2 NAG sing 434 n n C7 O7 NAG doub 435 n n C8 H81 NAG sing 436 n n C8 H82 NAG sing 437 n n C8 H83 NAG sing 438 n n N2 HN2 NAG sing 439 n n O1 HO1 NAG sing 440 n n O3 HO3 NAG sing 441 n n O4 HO4 NAG sing 442 n n O6 HO6 NAG sing 443 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 8K8E _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 8 NAG A 1 801 801 NAG NAG . I 8 NAG A 1 802 803 NAG NAG . J 8 NAG A 1 803 806 NAG NAG . K 8 NAG A 1 804 808 NAG NAG . L 8 NAG A 1 805 813 NAG NAG . M 8 NAG A 1 806 815 NAG NAG . N 9 PC1 B 1 501 501 PC1 PC1 . O 10 CLR C 1 301 301 CLR CLR . P 10 CLR C 1 302 302 CLR CLR . Q 10 CLR C 1 303 303 CLR CLR . # 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 . . . L 8 132.903 176.745 235.996 1 145.7 ? C1 NAG 805 A 1 HETATM 2 C C2 NAG . . . L 8 132.159 175.799 236.948 1 147.45 ? C2 NAG 805 A 1 HETATM 3 C C3 NAG . . . L 8 130.952 176.509 237.56 1 143.76 ? C3 NAG 805 A 1 HETATM 4 C C4 NAG . . . L 8 131.366 177.837 238.181 1 144.56 ? C4 NAG 805 A 1 HETATM 5 C C5 NAG . . . L 8 132.139 178.676 237.168 1 144.8 ? C5 NAG 805 A 1 HETATM 6 C C6 NAG . . . L 8 132.672 179.966 237.746 1 146.31 ? C6 NAG 805 A 1 HETATM 7 C C7 NAG . . . L 8 131.548 173.422 236.889 1 148.41 ? C7 NAG 805 A 1 HETATM 8 C C8 NAG . . . L 8 131.113 172.276 236.028 1 144.19 ? C8 NAG 805 A 1 HETATM 9 N N2 NAG . . . L 8 131.742 174.586 236.261 1 148.75 ? N2 NAG 805 A 1 HETATM 10 O O3 NAG . . . L 8 130.359 175.677 238.551 1 140.17 ? O3 NAG 805 A 1 HETATM 11 O O4 NAG . . . L 8 130.212 178.557 238.599 1 141.82 ? O4 NAG 805 A 1 HETATM 12 O O5 NAG . . . L 8 133.272 177.936 236.693 1 145.68 ? O5 NAG 805 A 1 HETATM 13 O O6 NAG . . . L 8 133.293 180.761 236.746 1 143.59 ? O6 NAG 805 A 1 HETATM 14 O O7 NAG . . . L 8 131.715 173.3 238.099 1 149.56 ? O7 NAG 805 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #