data_8BG1 # _model_server_result.job_id bWrKk39x1coKfDb-gCkx-g _model_server_result.datetime_utc '2024-10-25 20:22:19' _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 8bg1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":601}' # _entry.id 8BG1 # _exptl.entry_id 8BG1 _exptl.method 'X-RAY DIFFRACTION' # _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.88 _cell.angle_gamma 90 _cell.entry_id 8BG1 _cell.length_a 345.27 _cell.length_b 54.37 _cell.length_c 214.69 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BG1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # 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 ? trimeric 3 author_defined_assembly 3 ? trimeric 3 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,M 1 1 D,E,F,N 2 1 G,H,I,O 3 1 J,K,L,P 4 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 ? 6 O N N ? 6 P N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 5 2 1 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 4 n M NAG 1 M 1 NAG C 1164 NAG 4 n M NAG 2 M 2 NAG C 1165 NAG 4 n M FUC 3 M 3 FUC C 1166 FUC 5 n N NAG 1 N 1 NAG F 1164 NAG 5 n N NAG 2 N 2 NAG F 1165 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 22 A CYS 22 1_555 A SG CYS 96 A CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 153 A CYS 146 1_555 A SG CYS 209 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 B SG CYS 23 B CYS 23 1_555 B SG CYS 93 B CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 B SG CYS 138 B CYS 138 1_555 B SG CYS 198 B CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 C SG CYS 3 C CYS 336 1_555 C SG CYS 28 C CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 C SG CYS 46 C CYS 379 1_555 C SG CYS 99 C CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 C SG CYS 58 C CYS 391 1_555 C SG CYS 192 C CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 C SG CYS 147 C CYS 480 1_555 C SG CYS 155 C CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 D SG CYS 22 D CYS 22 1_555 D SG CYS 96 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 D SG CYS 153 D CYS 146 1_555 D SG CYS 209 D CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 E SG CYS 23 E CYS 23 1_555 E SG CYS 93 E CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf12 E SG CYS 138 E CYS 138 1_555 E SG CYS 198 E CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf13 F SG CYS 3 F CYS 336 1_555 F SG CYS 28 F CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf14 F SG CYS 46 F CYS 379 1_555 F SG CYS 99 F CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf15 F SG CYS 58 F CYS 391 1_555 F SG CYS 192 F CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf16 F SG CYS 147 F CYS 480 1_555 F SG CYS 155 F CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf17 G SG CYS 22 G CYS 22 1_555 G SG CYS 96 G CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf18 G SG CYS 153 G CYS 146 1_555 G SG CYS 209 G CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf19 H SG CYS 23 H CYS 23 1_555 H SG CYS 93 H CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf20 H SG CYS 138 H CYS 138 1_555 H SG CYS 198 H CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf21 I SG CYS 3 I CYS 336 1_555 I SG CYS 28 I CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf22 I SG CYS 46 I CYS 379 1_555 I SG CYS 99 I CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf23 I SG CYS 58 I CYS 391 1_555 I SG CYS 192 I CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf24 I SG CYS 147 I CYS 480 1_555 I SG CYS 155 I CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf25 J SG CYS 22 J CYS 22 1_555 J SG CYS 96 J CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf26 J SG CYS 153 J CYS 146 1_555 J SG CYS 209 J CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf27 K SG CYS 23 K CYS 23 1_555 K SG CYS 93 K CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf28 K SG CYS 138 K CYS 138 1_555 K SG CYS 198 K CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf29 L SG CYS 3 L CYS 336 1_555 L SG CYS 28 L CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf30 L SG CYS 46 L CYS 379 1_555 L SG CYS 99 L CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf31 L SG CYS 58 L CYS 391 1_555 L SG CYS 192 L CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf32 L SG CYS 147 L CYS 480 1_555 L SG CYS 155 L CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 C ND2 ASN 10 C ASN 343 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale2 F ND2 ASN 10 F ASN 343 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 I ND2 ASN 10 I ASN 343 1_555 O C1 NAG . I NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 L ND2 ASN 10 L ASN 343 1_555 P C1 NAG . L NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale6 M O6 NAG . M NAG 1 1_555 M C1 FUC . M FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? # _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 258 n n C1 O1 NAG sing 259 n n C1 O5 NAG sing 260 n n C1 H1 NAG sing 261 n n C2 C3 NAG sing 262 n n C2 N2 NAG sing 263 n n C2 H2 NAG sing 264 n n C3 C4 NAG sing 265 n n C3 O3 NAG sing 266 n n C3 H3 NAG sing 267 n n C4 C5 NAG sing 268 n n C4 O4 NAG sing 269 n n C4 H4 NAG sing 270 n n C5 C6 NAG sing 271 n n C5 O5 NAG sing 272 n n C5 H5 NAG sing 273 n n C6 O6 NAG sing 274 n n C6 H61 NAG sing 275 n n C6 H62 NAG sing 276 n n C7 C8 NAG sing 277 n n C7 N2 NAG sing 278 n n C7 O7 NAG doub 279 n n C8 H81 NAG sing 280 n n C8 H82 NAG sing 281 n n C8 H83 NAG sing 282 n n N2 HN2 NAG sing 283 n n O1 HO1 NAG sing 284 n n O3 HO3 NAG sing 285 n n O4 HO4 NAG sing 286 n n O6 HO6 NAG sing 287 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 8BG1 _atom_sites.fract_transf_matrix[1][1] 0.002896 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000824 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018392 _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] 0.004843 _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 O 6 NAG I 1 601 1164 NAG NAG . P 6 NAG L 1 601 1164 NAG NAG . # 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 . . . O 6 -3.575 -2.435 94.483 1 126.5 ? C1 NAG 601 I 1 HETATM 2 C C2 NAG . . . O 6 -4.824 -2.733 95.328 1 123.82 ? C2 NAG 601 I 1 HETATM 3 C C3 NAG . . . O 6 -6.093 -2.322 94.582 1 135.57 ? C3 NAG 601 I 1 HETATM 4 C C4 NAG . . . O 6 -6.006 -0.868 94.142 1 136.33 ? C4 NAG 601 I 1 HETATM 5 C C5 NAG . . . O 6 -4.76 -0.672 93.286 1 132.42 ? C5 NAG 601 I 1 HETATM 6 C C6 NAG . . . O 6 -4.553 0.764 92.857 1 130.66 ? C6 NAG 601 I 1 HETATM 7 C C7 NAG . . . O 6 -5.298 -4.568 96.89 1 127.78 ? C7 NAG 601 I 1 HETATM 8 C C8 NAG . . . O 6 -5.296 -6.055 97.092 1 119.03 ? C8 NAG 601 I 1 HETATM 9 N N2 NAG . . . O 6 -4.882 -4.139 95.693 1 116.22 ? N2 NAG 601 I 1 HETATM 10 O O3 NAG . . . O 6 -7.219 -2.507 95.434 1 125.16 ? O3 NAG 601 I 1 HETATM 11 O O4 NAG . . . O 6 -7.166 -0.499 93.404 1 130.41 ? O4 NAG 601 I 1 HETATM 12 O O5 NAG . . . O 6 -3.598 -1.052 94.04 1 137.79 ? O5 NAG 601 I 1 HETATM 13 O O6 NAG . . . O 6 -4.165 1.59 93.947 1 127.76 ? O6 NAG 601 I 1 HETATM 14 O O7 NAG . . . O 6 -5.66 -3.791 97.77 1 126.19 ? O7 NAG 601 I 1 # _model_server_stats.io_time_ms 197 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #