data_8S0M # _model_server_result.job_id gRlCbGpHY4pn997dHlo18g _model_server_result.datetime_utc '2024-11-27 12:03:31' _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 8s0m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":402}' # _entry.id 8S0M # _exptl.entry_id 8S0M _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 4 _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 120 _cell.entry_id 8S0M _cell.length_a 201.87 _cell.length_b 201.87 _cell.length_c 210.3 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8S0M _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G,H,I,J,K,N 1 1 B,E,F,L,M 2 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 H N N ? 5 I N N ? 5 J N N ? 5 M N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 4 n G NAG 1 F 1 NAG A 529 NAG 4 n G NAG 2 F 2 NAG A 530 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 27 B CYS 133 1_555 A SG CYS 42 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 66 B CYS 172 1_555 A SG CYS 125 B CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 79 B CYS 185 1_555 A SG CYS 135 B CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 A SG CYS 138 B CYS 244 1_555 A SG CYS 259 B CYS 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 A SG CYS 175 B CYS 281 1_555 A SG CYS 191 B CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 A SG CYS 304 B CYS 410 1_555 A SG CYS 320 B CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 A SG CYS 331 B CYS 437 1_555 A SG CYS 359 B CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 27 E CYS 133 1_555 B SG CYS 42 E CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf9 B SG CYS 66 E CYS 172 1_555 B SG CYS 125 E CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 B SG CYS 79 E CYS 185 1_555 B SG CYS 135 E CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf11 B SG CYS 138 E CYS 244 1_555 B SG CYS 259 E CYS 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf12 B SG CYS 175 E CYS 281 1_555 B SG CYS 191 E CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf13 B SG CYS 304 E CYS 410 1_555 B SG CYS 320 E CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 B SG CYS 331 E CYS 437 1_555 B SG CYS 359 E CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf15 C SG CYS 24 U CYS 22 1_555 C SG CYS 98 U CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf16 C SG CYS 52 U CYS 50 1_555 C SG CYS 108 U CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf17 D SG CYS 21 A CYS 21 1_555 D SG CYS 46 A CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf18 D SG CYS 64 A CYS 64 1_555 D SG CYS 117 A CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf19 D SG CYS 76 A CYS 76 1_555 D SG CYS 297 A CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf20 D SG CYS 160 A CYS 160 1_555 D SG CYS 240 A CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf21 D SG CYS 168 A CYS 168 1_555 D SG CYS 189 A CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf22 D SG CYS 170 A CYS 170 1_555 D SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf23 D SG CYS 179 A CYS 179 1_555 D SG CYS 210 A CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf24 D SG CYS 198 A CYS 198 1_555 D SG CYS 212 A CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf25 D SG CYS 214 A CYS 214 1_555 D SG CYS 227 A CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf26 D SG CYS 250 A CYS 250 1_555 D SG CYS 261 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf27 D SG CYS 274 A CYS 274 1_555 D SG CYS 280 A CYS 280 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf28 D SG CYS 313 A CYS 313 1_555 D SG CYS 366 A CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf29 E SG CYS 21 D CYS 21 1_555 E SG CYS 46 D CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf30 E SG CYS 64 D CYS 64 1_555 E SG CYS 117 D CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf31 E SG CYS 76 D CYS 76 1_555 E SG CYS 297 D CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf32 E SG CYS 160 D CYS 160 1_555 E SG CYS 240 D CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf33 E SG CYS 168 D CYS 168 1_555 E SG CYS 189 D CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf34 E SG CYS 170 D CYS 170 1_555 E SG CYS 259 D CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf35 E SG CYS 179 D CYS 179 1_555 E SG CYS 210 D CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf36 E SG CYS 198 D CYS 198 1_555 E SG CYS 212 D CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf37 E SG CYS 214 D CYS 214 1_555 E SG CYS 227 D CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf38 E SG CYS 250 D CYS 250 1_555 E SG CYS 261 D CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf39 E SG CYS 274 D CYS 274 1_555 E SG CYS 280 D CYS 280 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf40 E SG CYS 313 D CYS 313 1_555 E SG CYS 366 D CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf41 F SG CYS 24 V CYS 22 1_555 F SG CYS 98 V CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf42 F SG CYS 52 V CYS 50 1_555 F SG CYS 108 V CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 107 B ASN 213 1_555 H C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 D ND2 ASN 29 A ASN 29 1_555 G C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 D ND2 ASN 127 A ASN 127 1_555 I C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 D ND2 ASN 148 A ASN 148 1_555 J C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 E ND2 ASN 29 D ASN 29 1_555 M C1 NAG . D NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 G O4 NAG . F NAG 1 1_555 G C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 8S0M _atom_sites.fract_transf_matrix[1][1] 0.004954 _atom_sites.fract_transf_matrix[1][2] 0.00286 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00572 _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] 0.004755 _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 NAG B 1 601 713 NAG NAG . I 5 NAG A 1 401 627 NAG NAG . J 5 NAG A 1 402 648 NAG NAG . K 6 PO4 A 1 403 501 PO4 PO4 . L 6 PO4 D 1 501 501 PO4 PO4 . M 5 NAG D 1 502 529 NAG NAG . N 7 HOH U 1 201 2 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 . . . J 5 51.913 92.104 5.349 1 292.83 ? C1 NAG 402 A 1 HETATM 2 C C2 NAG . . . J 5 51.791 93.602 5.625 1 303.59 ? C2 NAG 402 A 1 HETATM 3 C C3 NAG . . . J 5 53.161 94.183 5.961 1 285.33 ? C3 NAG 402 A 1 HETATM 4 C C4 NAG . . . J 5 53.796 93.411 7.111 1 287.2 ? C4 NAG 402 A 1 HETATM 5 C C5 NAG . . . J 5 53.825 91.915 6.8 1 300.9 ? C5 NAG 402 A 1 HETATM 6 C C6 NAG . . . J 5 54.314 91.079 7.96 1 274.9 ? C6 NAG 402 A 1 HETATM 7 C C7 NAG . . . J 5 50.13 95.089 4.591 1 276.94 ? C7 NAG 402 A 1 HETATM 8 C C8 NAG . . . J 5 49.662 95.728 3.317 1 203.83 ? C8 NAG 402 A 1 HETATM 9 N N2 NAG . . . J 5 51.204 94.298 4.49 1 307.57 ? N2 NAG 402 A 1 HETATM 10 O O3 NAG . . . J 5 53.027 95.557 6.305 1 293.2 ? O3 NAG 402 A 1 HETATM 11 O O4 NAG . . . J 5 55.125 93.871 7.327 1 264.96 ? O4 NAG 402 A 1 HETATM 12 O O5 NAG . . . J 5 52.503 91.452 6.485 1 309.88 ? O5 NAG 402 A 1 HETATM 13 O O6 NAG . . . J 5 54.349 89.697 7.63 1 211.59 ? O6 NAG 402 A 1 HETATM 14 O O7 NAG . . . J 5 49.561 95.282 5.662 1 236.06 ? O7 NAG 402 A 1 # _model_server_stats.io_time_ms 160 _model_server_stats.parse_time_ms 41 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 793 _model_server_stats.encode_time_ms 20 _model_server_stats.element_count 14 #