data_8ST1 # _model_server_result.job_id EMfpMCvm1VY0wo_ZCGLqyw _model_server_result.datetime_utc '2024-11-27 00:31:24' _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 8st1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":701}' # _entry.id 8ST1 # _exptl.entry_id 8ST1 _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 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 8ST1 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ST1 _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 nonameric _pdbx_struct_assembly.oligomeric_count 9 _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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA _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 L N N ? 6 M N N ? 6 Q N N ? 6 R N N ? 6 V N N ? 6 W N N # _pdbx_entity_branch.entity_id 5 _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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA 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 5 n J NAG 1 H 1 NAG C 701 NAG 5 n J NAG 2 H 2 NAG C 702 NAG 5 n J BMA 3 H 3 BMA C 703 BMA 5 n K NAG 1 I 1 NAG E 701 NAG 5 n K NAG 2 I 2 NAG E 702 NAG 5 n K BMA 3 I 3 BMA E 703 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 135 A CYS 135 1_555 A SG CYS 149 A CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 199 A CYS 199 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 B SG CYS 135 B CYS 135 1_555 B SG CYS 149 B CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 199 B CYS 199 1_555 B SG CYS 200 B CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 C SG CYS 130 C CYS 130 1_555 C SG CYS 144 C CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 D SG CYS 135 D CYS 135 1_555 D SG CYS 149 D CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 D SG CYS 199 D CYS 199 1_555 D SG CYS 200 D CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 E SG CYS 130 E CYS 130 1_555 E SG CYS 144 E CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 F SG CYS 42 F CYS 23 1_555 F SG CYS 112 F CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 F SG CYS 158 F CYS 139 1_555 F SG CYS 218 F CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 G SG CYS 41 G CYS 23 1_555 G SG CYS 115 G CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 G SG CYS 165 G CYS 147 1_555 G SG CYS 220 G CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 H SG CYS 42 J CYS 23 1_555 H SG CYS 112 J CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 H SG CYS 158 J CYS 139 1_555 H SG CYS 218 J CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? disulf ? disulf15 I SG CYS 41 K CYS 23 1_555 I SG CYS 115 K CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 I SG CYS 165 K CYS 147 1_555 I SG CYS 220 K CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 31 A ASN 31 1_555 L C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 A ND2 ASN 148 A ASN 148 1_555 M C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale3 B ND2 ASN 31 B ASN 31 1_555 Q C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale4 B ND2 ASN 148 B ASN 148 1_555 R C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale5 C ND2 ASN 143 C ASN 143 1_555 J C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale6 D ND2 ASN 31 D ASN 31 1_555 V C1 NAG . D NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 D ND2 ASN 148 D ASN 148 1_555 W C1 NAG . D NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale8 E ND2 ASN 143 E ASN 143 1_555 K C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 J O4 NAG . H NAG 1 1_555 J C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale10 J O4 NAG . H NAG 2 1_555 J C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale11 K O4 NAG . I NAG 1 1_555 K C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 K O4 NAG . I NAG 2 1_555 K C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A OD1 ASP 49 A ASP 49 1_555 O CA CA . A CA 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.158 ? metalc ? metalc2 A O VAL 50 A VAL 50 1_555 O CA CA . A CA 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? metalc ? metalc3 D O VAL 50 D VAL 50 1_555 Y CA CA . D CA 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.78 ? # _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 286 n n C1 O1 NAG sing 287 n n C1 O5 NAG sing 288 n n C1 H1 NAG sing 289 n n C2 C3 NAG sing 290 n n C2 N2 NAG sing 291 n n C2 H2 NAG sing 292 n n C3 C4 NAG sing 293 n n C3 O3 NAG sing 294 n n C3 H3 NAG sing 295 n n C4 C5 NAG sing 296 n n C4 O4 NAG sing 297 n n C4 H4 NAG sing 298 n n C5 C6 NAG sing 299 n n C5 O5 NAG sing 300 n n C5 H5 NAG sing 301 n n C6 O6 NAG sing 302 n n C6 H61 NAG sing 303 n n C6 H62 NAG sing 304 n n C7 C8 NAG sing 305 n n C7 N2 NAG sing 306 n n C7 O7 NAG doub 307 n n C8 H81 NAG sing 308 n n C8 H82 NAG sing 309 n n C8 H83 NAG sing 310 n n N2 HN2 NAG sing 311 n n O1 HO1 NAG sing 312 n n O3 HO3 NAG sing 313 n n O4 HO4 NAG sing 314 n n O6 HO6 NAG sing 315 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 8ST1 _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 L 6 NAG A 1 701 701 NAG NAG . M 6 NAG A 1 702 704 NAG NAG . N 7 ACH A 1 703 802 ACH ACH . O 8 CA A 1 704 1 CA CA . P 8 CA A 1 705 4 CA CA . Q 6 NAG B 1 701 701 NAG NAG . R 6 NAG B 1 702 704 NAG NAG . S 7 ACH B 1 703 802 ACH ACH . T 8 CA B 1 704 2 CA CA . U 9 NA C 1 501 707 NA NA . V 6 NAG D 1 701 701 NAG NAG . W 6 NAG D 1 702 704 NAG NAG . X 7 ACH D 1 703 802 ACH ACH . Y 8 CA D 1 704 3 CA CA . Z 10 HOH A 1 801 801 HOH HOH . AA 10 HOH B 1 801 801 HOH HOH . AA 10 HOH B 2 802 801 HOH HOH . BA 10 HOH C 1 801 801 HOH HOH . CA 10 HOH E 1 801 801 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 . . . Q 6 180.323 170.536 226.026 1 79.9 ? C1 NAG 701 B 1 HETATM 2 C C2 NAG . . . Q 6 181.137 170.548 227.316 1 79.9 ? C2 NAG 701 B 1 HETATM 3 C C3 NAG . . . Q 6 180.389 171.312 228.404 1 79.9 ? C3 NAG 701 B 1 HETATM 4 C C4 NAG . . . Q 6 180.01 172.702 227.911 1 79.9 ? C4 NAG 701 B 1 HETATM 5 C C5 NAG . . . Q 6 179.246 172.603 226.595 1 79.9 ? C5 NAG 701 B 1 HETATM 6 C C6 NAG . . . Q 6 178.945 173.95 225.981 1 79.9 ? C6 NAG 701 B 1 HETATM 7 C C7 NAG . . . Q 6 182.677 168.729 227.912 1 79.9 ? C7 NAG 701 B 1 HETATM 8 C C8 NAG . . . Q 6 182.793 167.307 228.372 1 79.9 ? C8 NAG 701 B 1 HETATM 9 N N2 NAG . . . Q 6 181.433 169.194 227.756 1 79.9 ? N2 NAG 701 B 1 HETATM 10 O O3 NAG . . . Q 6 181.212 171.414 229.56 1 79.9 ? O3 NAG 701 B 1 HETATM 11 O O4 NAG . . . Q 6 179.197 173.357 228.877 1 79.9 ? O4 NAG 701 B 1 HETATM 12 O O5 NAG . . . Q 6 180.025 171.877 225.634 1 79.9 ? O5 NAG 701 B 1 HETATM 13 O O6 NAG . . . Q 6 180.137 174.657 225.669 1 79.9 ? O6 NAG 701 B 1 HETATM 14 O O7 NAG . . . Q 6 183.664 169.424 227.693 1 79.9 ? O7 NAG 701 B 1 HETATM 15 H H2 NAG . . . Q 6 181.976 171.015 227.144 1 79.9 ? H2 NAG 701 B 1 HETATM 16 H H3 NAG . . . Q 6 179.576 170.824 228.634 1 79.9 ? H3 NAG 701 B 1 HETATM 17 H H4 NAG . . . Q 6 180.823 173.224 227.77 1 79.9 ? H4 NAG 701 B 1 HETATM 18 H H5 NAG . . . Q 6 178.407 172.128 226.749 1 79.9 ? H5 NAG 701 B 1 HETATM 19 H H61 NAG . . . Q 6 178.416 174.477 226.609 1 79.9 ? H61 NAG 701 B 1 HETATM 20 H H62 NAG . . . Q 6 178.43 173.82 225.162 1 79.9 ? H62 NAG 701 B 1 HETATM 21 H H81 NAG . . . Q 6 183.735 167.069 228.461 1 79.9 ? H81 NAG 701 B 1 HETATM 22 H H82 NAG . . . Q 6 182.369 166.718 227.718 1 79.9 ? H82 NAG 701 B 1 HETATM 23 H H83 NAG . . . Q 6 182.349 167.207 229.235 1 79.9 ? H83 NAG 701 B 1 HETATM 24 H HN2 NAG . . . Q 6 180.735 168.634 227.933 1 79.9 ? HN2 NAG 701 B 1 HETATM 25 H HO3 NAG . . . Q 6 180.776 171.093 230.263 1 79.9 ? HO3 NAG 701 B 1 HETATM 26 H HO4 NAG . . . Q 6 178.382 173.478 228.546 1 79.9 ? HO4 NAG 701 B 1 HETATM 27 H HO6 NAG . . . Q 6 180.756 174.085 225.387 1 79.9 ? HO6 NAG 701 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 148 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #