data_7NX3 # _model_server_result.job_id UA24uFdewwSu5YLgxbjkJw _model_server_result.datetime_utc '2025-03-31 16:22:10' _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 7nx3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1104}' # _entry.id 7NX3 # _exptl.entry_id 7NX3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 8 _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 7NX3 _cell.length_a 109.7 _cell.length_b 137.47 _cell.length_c 144.26 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7NX3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # 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,D,E,G,H,I,J 1 1 B,C,F,K,L,M,N 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 ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 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 41 A CYS 688 1_555 A SG CYS 54 A CYS 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 136 A CYS 783 1_555 A SG CYS 147 A CYS 794 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf3 A SG CYS 259 A CYS 906 1_555 A SG CYS 281 A CYS 928 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 B SG CYS 22 B CYS 22 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 B SG CYS 148 B CYS 148 1_555 B SG CYS 203 B CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 C SG CYS 23 C CYS 23 1_555 C SG CYS 92 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf7 C SG CYS 138 C CYS 138 1_555 C SG CYS 198 C CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 D SG CYS 23 D CYS 23 1_555 D SG CYS 92 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf9 D SG CYS 138 D CYS 138 1_555 D SG CYS 198 D CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 E SG CYS 22 E CYS 22 1_555 E SG CYS 96 E CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf11 E SG CYS 148 E CYS 148 1_555 E SG CYS 203 E CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf12 F SG CYS 41 F CYS 688 1_555 F SG CYS 54 F CYS 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf13 F SG CYS 136 F CYS 783 1_555 F SG CYS 147 F CYS 794 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf14 F SG CYS 259 F CYS 906 1_555 F SG CYS 281 F CYS 928 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 62 A ASN 709 1_555 H C1 NAG . A NAG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale2 A ND2 ASN 239 A ASN 886 1_555 J C1 NAG . A NAG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale3 A ND2 ASN 339 A ASN 986 1_555 G C1 NAG . A NAG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale4 F ND2 ASN 62 F ASN 709 1_555 L C1 NAG . F NAG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 F ND2 ASN 217 F ASN 864 1_555 M C1 NAG . F NAG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale6 F ND2 ASN 239 F ASN 886 1_555 N C1 NAG . F NAG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale7 F ND2 ASN 339 F ASN 986 1_555 K C1 NAG . F NAG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? # _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 7NX3 _atom_sites.fract_transf_matrix[1][1] 0.009116 _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] 0.007274 _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] 0.006932 _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 G 4 NAG A 1 1101 1 NAG NAG . H 4 NAG A 1 1102 2 NAG NAG . I 4 NAG A 1 1103 3 NAG NAG . J 4 NAG A 1 1104 4 NAG NAG . K 4 NAG F 1 1101 1 NAG NAG . L 4 NAG F 1 1102 2 NAG NAG . M 4 NAG F 1 1103 3 NAG NAG . N 4 NAG F 1 1104 4 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 . . . J 4 18.071 -8.717 -31.087 1 42.06 ? C1 NAG 1104 A 1 HETATM 2 C C2 NAG . . . J 4 18.802 -9.951 -31.673 1 46.09 ? C2 NAG 1104 A 1 HETATM 3 C C3 NAG . . . J 4 19.809 -10.515 -30.661 1 49.99 ? C3 NAG 1104 A 1 HETATM 4 C C4 NAG . . . J 4 20.752 -9.451 -30.137 1 51.54 ? C4 NAG 1104 A 1 HETATM 5 C C5 NAG . . . J 4 19.972 -8.298 -29.532 1 50.69 ? C5 NAG 1104 A 1 HETATM 6 C C6 NAG . . . J 4 20.893 -7.206 -29.03 1 52.69 ? C6 NAG 1104 A 1 HETATM 7 C C7 NAG . . . J 4 17.064 -11.643 -31.257 1 43.08 ? C7 NAG 1104 A 1 HETATM 8 C C8 NAG . . . J 4 16.335 -12.836 -31.814 1 45.46 ? C8 NAG 1104 A 1 HETATM 9 N N2 NAG . . . J 4 17.917 -11.03 -32.089 1 44.63 ? N2 NAG 1104 A 1 HETATM 10 O O3 NAG . . . J 4 20.56 -11.562 -31.265 1 51.28 ? O3 NAG 1104 A 1 HETATM 11 O O4 NAG . . . J 4 21.538 -10.04 -29.108 1 53.78 ? O4 NAG 1104 A 1 HETATM 12 O O5 NAG . . . J 4 19.078 -7.741 -30.509 1 46.67 ? O5 NAG 1104 A 1 HETATM 13 O O6 NAG . . . J 4 21.581 -7.659 -27.869 1 53.45 ? O6 NAG 1104 A 1 HETATM 14 O O7 NAG . . . J 4 16.866 -11.232 -30.113 1 40.23 ? O7 NAG 1104 A 1 HETATM 15 H H1 NAG . . . J 4 17.468 -9.01 -30.378 1 50.49 ? H1 NAG 1104 A 1 HETATM 16 H H2 NAG . . . J 4 19.263 -9.615 -32.465 1 55.32 ? H2 NAG 1104 A 1 HETATM 17 H H3 NAG . . . J 4 19.299 -10.866 -29.906 1 60 ? H3 NAG 1104 A 1 HETATM 18 H H4 NAG . . . J 4 21.309 -9.111 -30.863 1 61.86 ? H4 NAG 1104 A 1 HETATM 19 H H5 NAG . . . J 4 19.42 -8.609 -28.79 1 60.84 ? H5 NAG 1104 A 1 HETATM 20 H H61 NAG . . . J 4 20.369 -6.413 -28.81 1 63.24 ? H61 NAG 1104 A 1 HETATM 21 H H62 NAG . . . J 4 21.54 -6.979 -29.725 1 63.24 ? H62 NAG 1104 A 1 HETATM 22 H H81 NAG . . . J 4 16.111 -12.672 -32.749 1 54.57 ? H81 NAG 1104 A 1 HETATM 23 H H82 NAG . . . J 4 15.515 -12.983 -31.304 1 54.57 ? H82 NAG 1104 A 1 HETATM 24 H H83 NAG . . . J 4 16.904 -13.625 -31.748 1 54.57 ? H83 NAG 1104 A 1 HETATM 25 H HN2 NAG . . . J 4 17.945 -11.302 -32.959 1 53.56 ? HN2 NAG 1104 A 1 HETATM 26 H HO3 NAG . . . J 4 20.7 -12.196 -30.66 1 61.55 ? HO3 NAG 1104 A 1 HETATM 27 H HO4 NAG . . . J 4 20.999 -10.562 -28.63 1 64.55 ? HO4 NAG 1104 A 1 HETATM 28 H HO6 NAG . . . J 4 22.076 -7.018 -27.504 1 64.16 ? HO6 NAG 1104 A 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 28 #