data_7YCN # _model_server_result.job_id w76S0AjHJ36cnahwjFxZqA _model_server_result.datetime_utc '2024-12-04 22:40:07' _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 7ycn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":601}' # _entry.id 7YCN # _exptl.entry_id 7YCN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _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 96.16 _cell.angle_gamma 90 _cell.entry_id 7YCN _cell.length_a 193.019 _cell.length_b 225.15 _cell.length_c 95.52 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YCN _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _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 PISA trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 PISA trimeric 3 author_and_software_defined_assembly 3 PISA trimeric 3 author_and_software_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 2 1 G,H,I,N 3 1 J,K,L 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 ? 4 M N N ? 4 N N 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 4 J CYS 336 1_555 A SG CYS 29 J CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 A SG CYS 47 J CYS 379 1_555 A SG CYS 100 J CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? disulf ? disulf3 A SG CYS 59 J CYS 391 1_555 A SG CYS 193 J CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf4 A SG CYS 148 J CYS 480 1_555 A SG CYS 156 J CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf5 B SG CYS 22 K CYS 22 1_555 B SG CYS 95 K CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf6 B SG CYS 148 K CYS 140 1_555 B SG CYS 204 K CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.965 ? disulf ? disulf7 C SG CYS 23 L CYS 23 1_555 C SG CYS 92 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf8 C SG CYS 139 L CYS 134 1_555 C SG CYS 198 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf9 D SG CYS 4 A CYS 336 1_555 D SG CYS 29 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf10 D SG CYS 47 A CYS 379 1_555 D SG CYS 100 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf11 D SG CYS 59 A CYS 391 1_555 D SG CYS 193 A CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf12 D SG CYS 148 A CYS 480 1_555 D SG CYS 156 A CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf13 E SG CYS 22 E CYS 22 1_555 E SG CYS 95 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf14 F SG CYS 23 F CYS 23 1_555 F SG CYS 92 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf15 F SG CYS 139 F CYS 134 1_555 F SG CYS 198 F CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf16 G SG CYS 4 B CYS 336 1_555 G SG CYS 29 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf17 G SG CYS 47 B CYS 379 1_555 G SG CYS 100 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf18 G SG CYS 59 B CYS 391 1_555 G SG CYS 193 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf19 G SG CYS 148 B CYS 480 1_555 G SG CYS 156 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf20 H SG CYS 22 C CYS 22 1_555 H SG CYS 95 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf21 H SG CYS 148 C CYS 140 1_555 H SG CYS 204 C CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf22 I SG CYS 23 D CYS 23 1_555 I SG CYS 92 D CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf23 I SG CYS 139 D CYS 134 1_555 I SG CYS 198 D CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf24 J SG CYS 4 G CYS 336 1_555 J SG CYS 29 G CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf25 J SG CYS 47 G CYS 379 1_555 J SG CYS 100 G CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf26 J SG CYS 59 G CYS 391 1_555 J SG CYS 193 G CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf27 J SG CYS 148 G CYS 480 1_555 J SG CYS 156 G CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf28 K SG CYS 22 H CYS 22 1_555 K SG CYS 95 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf29 L SG CYS 23 I CYS 23 1_555 L SG CYS 92 I CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf30 L SG CYS 139 I CYS 134 1_555 L SG CYS 198 I CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 A ND2 ASN 11 J ASN 343 1_555 M C1 NAG . J NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 G ND2 ASN 11 B ASN 343 1_555 N C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 7YCN _atom_sites.fract_transf_matrix[1][1] 0.005181 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000559 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004441 _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] 0.01053 _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 M 4 NAG J 1 601 528 NAG NAG . N 4 NAG B 1 601 528 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 . . . N 4 17.323 -8.389 1.647 1 30 ? C1 NAG 601 B 1 HETATM 2 C C2 NAG . . . N 4 17.297 -8.844 3.105 1 30 ? C2 NAG 601 B 1 HETATM 3 C C3 NAG . . . N 4 15.874 -9.209 3.493 1 30 ? C3 NAG 601 B 1 HETATM 4 C C4 NAG . . . N 4 14.963 -8.017 3.255 1 30 ? C4 NAG 601 B 1 HETATM 5 C C5 NAG . . . N 4 15.065 -7.593 1.796 1 30 ? C5 NAG 601 B 1 HETATM 6 C C6 NAG . . . N 4 14.186 -6.382 1.505 1 30 ? C6 NAG 601 B 1 HETATM 7 C C7 NAG . . . N 4 19.352 -9.936 3.826 1 30 ? C7 NAG 601 B 1 HETATM 8 C C8 NAG . . . N 4 20.306 -11.008 3.396 1 30 ? C8 NAG 601 B 1 HETATM 9 N N2 NAG . . . N 4 18.127 -10.014 3.313 1 30 ? N2 NAG 601 B 1 HETATM 10 O O3 NAG . . . N 4 15.832 -9.581 4.874 1 30 ? O3 NAG 601 B 1 HETATM 11 O O4 NAG . . . N 4 13.611 -8.371 3.568 1 30 ? O4 NAG 601 B 1 HETATM 12 O O5 NAG . . . N 4 16.423 -7.291 1.479 1 30 ? O5 NAG 601 B 1 HETATM 13 O O6 NAG . . . N 4 14.735 -5.222 2.14 1 30 ? O6 NAG 601 B 1 HETATM 14 O O7 NAG . . . N 4 19.677 -9.05 4.597 1 30 ? O7 NAG 601 B 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 390 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #