data_5T5W # _model_server_result.job_id K_XBZcM8mbE3_pXsSvgvHw _model_server_result.datetime_utc '2024-12-23 18:21:35' _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 5t5w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":302}' # _entry.id 5T5W # _exptl.entry_id 5T5W _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 3 _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 5T5W _cell.length_a 106.79 _cell.length_b 106.79 _cell.length_c 129.71 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5T5W _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 D N N ? 4 E N N ? 4 F 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 49 A CYS 66 1_555 A SG CYS 57 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 171 A CYS 188 1_555 A SG CYS 192 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf3 B SG CYS 57 B CYS 54 1_555 B SG CYS 65 B CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 B SG CYS 69 B CYS 66 1_555 B SG CYS 133 B CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 B SG CYS 178 B CYS 175 1_555 B SG CYS 200 B CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf6 C SG CYS 6 C CYS 4 1_555 C SG CYS 105 C CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf7 C SG CYS 40 C CYS 38 1_555 C SG CYS 138 C CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 C SG CYS 157 C CYS 155 1_555 C SG CYS 164 C CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? covale ? covale1 B ND2 ASN 12 B ASN 9 1_555 F C1 NAG . B NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 B ND2 ASN 19 B ASN 16 1_555 E C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 B ND2 ASN 125 B ASN 122 1_555 D C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 5T5W _atom_sites.fract_transf_matrix[1][1] 0.009364 _atom_sites.fract_transf_matrix[1][2] 0.005406 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010813 _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] 0.00771 _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 D 4 NAG B 1 301 205 NAG NAG . E 4 NAG B 1 302 206 NAG NAG . F 4 NAG B 1 303 207 NAG NAG . G 5 HOH A 1 301 1 HOH HOH . G 5 HOH A 2 302 9 HOH HOH . G 5 HOH A 3 303 18 HOH HOH . G 5 HOH A 4 304 10 HOH HOH . G 5 HOH A 5 305 7 HOH HOH . G 5 HOH A 6 306 3 HOH HOH . G 5 HOH A 7 307 13 HOH HOH . H 5 HOH B 1 401 8 HOH HOH . H 5 HOH B 2 402 4 HOH HOH . H 5 HOH B 3 403 2 HOH HOH . H 5 HOH B 4 404 5 HOH HOH . H 5 HOH B 5 405 11 HOH HOH . I 5 HOH C 1 201 17 HOH HOH . I 5 HOH C 2 202 14 HOH HOH . I 5 HOH C 3 203 6 HOH HOH . I 5 HOH C 4 204 16 HOH HOH . I 5 HOH C 5 205 12 HOH HOH . I 5 HOH C 6 206 19 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 . . . E 4 103.363 98.068 141.337 1 158.74 ? C1 NAG 302 B 1 HETATM 2 C C2 NAG . . . E 4 104.859 98.366 141.347 1 184.52 ? C2 NAG 302 B 1 HETATM 3 C C3 NAG . . . E 4 105.139 99.584 142.224 1 186.46 ? C3 NAG 302 B 1 HETATM 4 C C4 NAG . . . E 4 104.285 100.769 141.784 1 184.57 ? C4 NAG 302 B 1 HETATM 5 C C5 NAG . . . E 4 102.807 100.378 141.711 1 181.51 ? C5 NAG 302 B 1 HETATM 6 C C6 NAG . . . E 4 101.926 101.463 141.128 1 177.93 ? C6 NAG 302 B 1 HETATM 7 C C7 NAG . . . E 4 106.273 96.372 141 1 203.99 ? C7 NAG 302 B 1 HETATM 8 C C8 NAG . . . E 4 106.213 96.684 139.533 1 193.29 ? C8 NAG 302 B 1 HETATM 9 N N2 NAG . . . E 4 105.615 97.211 141.813 1 200.66 ? N2 NAG 302 B 1 HETATM 10 O O3 NAG . . . E 4 106.521 99.919 142.158 1 183.05 ? O3 NAG 302 B 1 HETATM 11 O O4 NAG . . . E 4 104.448 101.847 142.7 1 172.07 ? O4 NAG 302 B 1 HETATM 12 O O5 NAG . . . E 4 102.645 99.222 140.874 1 174.81 ? O5 NAG 302 B 1 HETATM 13 O O6 NAG . . . E 4 100.575 101.038 140.989 1 174.59 ? O6 NAG 302 B 1 HETATM 14 O O7 NAG . . . E 4 106.895 95.405 141.433 1 208.68 ? O7 NAG 302 B 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 500 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #