data_8CBD # _model_server_result.job_id K4MU1CDUJydgIfW8WD7Kqw _model_server_result.datetime_utc '2024-11-16 16:56:00' _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 8cbd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":601}' # _entry.id 8CBD # _exptl.entry_id 8CBD _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 115.58 _cell.angle_gamma 90 _cell.entry_id 8CBD _cell.length_a 242.046 _cell.length_b 139.369 _cell.length_c 168.528 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CBD _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 ? pentameric 5 author_defined_assembly 1 ? pentameric 5 author_defined_assembly 2 ? pentameric 5 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,P 1 1 F,G,M,N,O 2 1 H,I,J,K,L 3 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 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id P _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 10 R CYS 336 1_555 A SG CYS 35 R CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 53 R CYS 379 1_555 A SG CYS 106 R CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 65 R CYS 391 1_555 A SG CYS 199 R CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 154 R CYS 480 1_555 A SG CYS 162 R CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 B SG CYS 22 H CYS 22 1_555 B SG CYS 97 H CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 144 H CYS 144 1_555 B SG CYS 200 H CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 C SG CYS 23 L CYS 23 1_555 C SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf8 C SG CYS 134 L CYS 134 1_555 C SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 D SG CYS 22 E CYS 22 1_555 D SG CYS 96 E CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf10 D SG CYS 148 E CYS 148 1_555 D SG CYS 204 E CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 E SG CYS 23 F CYS 23 1_555 E SG CYS 88 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf12 E SG CYS 135 F CYS 135 1_555 E SG CYS 195 F CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 F SG CYS 22 G CYS 22 1_555 F SG CYS 96 G CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 F SG CYS 148 G CYS 148 1_555 F SG CYS 204 G CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 G SG CYS 23 I CYS 23 1_555 G SG CYS 88 I CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf16 G SG CYS 135 I CYS 135 1_555 G SG CYS 195 I CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf17 H SG CYS 22 J CYS 22 1_555 H SG CYS 96 J CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf18 H SG CYS 148 J CYS 148 1_555 H SG CYS 204 J CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf19 I SG CYS 23 K CYS 23 1_555 I SG CYS 88 K CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf20 I SG CYS 135 K CYS 135 1_555 I SG CYS 195 K CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf21 J SG CYS 10 X CYS 336 1_555 J SG CYS 35 X CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf22 J SG CYS 53 X CYS 379 1_555 J SG CYS 106 X CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf23 J SG CYS 65 X CYS 391 1_555 J SG CYS 199 X CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf24 J SG CYS 154 X CYS 480 1_555 J SG CYS 162 X CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf25 K SG CYS 22 A CYS 22 1_555 K SG CYS 97 A CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf26 K SG CYS 144 A CYS 144 1_555 K SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf27 L SG CYS 23 B CYS 23 1_555 L SG CYS 88 B CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf28 L SG CYS 134 B CYS 134 1_555 L SG CYS 194 B CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf29 M SG CYS 10 Y CYS 336 1_555 M SG CYS 35 Y CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf30 M SG CYS 53 Y CYS 379 1_555 M SG CYS 106 Y CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf31 M SG CYS 65 Y CYS 391 1_555 M SG CYS 199 Y CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf32 M SG CYS 154 Y CYS 480 1_555 M SG CYS 162 Y CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf33 N SG CYS 22 C CYS 22 1_555 N SG CYS 97 C CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf34 N SG CYS 144 C CYS 144 1_555 N SG CYS 200 C CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf35 O SG CYS 23 D CYS 23 1_555 O SG CYS 88 D CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf36 O SG CYS 134 D CYS 134 1_555 O SG CYS 194 D CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 17 R ASN 343 1_555 P C1 NAG . R NAG 601 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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 8CBD _atom_sites.fract_transf_matrix[1][1] 0.004131 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001978 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007175 _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] 0.006579 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id P _pdbx_nonpoly_scheme.entity_id 6 _pdbx_nonpoly_scheme.mon_id NAG _pdbx_nonpoly_scheme.pdb_strand_id R _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 601 _pdbx_nonpoly_scheme.auth_seq_num 601 _pdbx_nonpoly_scheme.pdb_mon_id NAG _pdbx_nonpoly_scheme.auth_mon_id NAG _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . P 6 22.327 -76.998 17.84 1 214.45 ? C1 NAG 601 R 1 HETATM 2 C C2 NAG . . . P 6 23.331 -77.711 18.764 1 233.15 ? C2 NAG 601 R 1 HETATM 3 C C3 NAG . . . P 6 24.614 -76.889 18.904 1 223.63 ? C3 NAG 601 R 1 HETATM 4 C C4 NAG . . . P 6 25.192 -76.567 17.534 1 219.13 ? C4 NAG 601 R 1 HETATM 5 C C5 NAG . . . P 6 24.15 -75.838 16.699 1 198.9 ? C5 NAG 601 R 1 HETATM 6 C C6 NAG . . . P 6 24.621 -75.565 15.29 1 159.42 ? C6 NAG 601 R 1 HETATM 7 C C7 NAG . . . P 6 22.714 -79.179 20.635 1 204.36 ? C7 NAG 601 R 1 HETATM 8 C C8 NAG . . . P 6 22.084 -79.254 21.992 1 152.19 ? C8 NAG 601 R 1 HETATM 9 N N2 NAG . . . P 6 22.748 -77.967 20.072 1 216.25 ? N2 NAG 601 R 1 HETATM 10 O O3 NAG . . . P 6 25.571 -77.611 19.673 1 212.92 ? O3 NAG 601 R 1 HETATM 11 O O4 NAG . . . P 6 26.357 -75.758 17.657 1 179.78 ? O4 NAG 601 R 1 HETATM 12 O O5 NAG . . . P 6 22.972 -76.651 16.59 1 232.22 ? O5 NAG 601 R 1 HETATM 13 O O6 NAG . . . P 6 23.579 -75.043 14.478 1 181.44 ? O6 NAG 601 R 1 HETATM 14 O O7 NAG . . . P 6 23.169 -80.171 20.074 1 211.42 ? O7 NAG 601 R 1 # _model_server_stats.io_time_ms 158 _model_server_stats.parse_time_ms 45 _model_server_stats.create_model_time_ms 140 _model_server_stats.query_time_ms 695 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #