data_5LVV # _model_server_result.job_id 5TUQsywvdobp5V8Sw1UZ_Q _model_server_result.datetime_utc '2024-11-06 15:25:37' _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 5lvv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1202}' # _entry.id 5LVV # _exptl.entry_id 5LVV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 5LVV _cell.length_a 98.533 _cell.length_b 98.533 _cell.length_c 367.2 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LVV _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 ? 3 C N N ? 3 D N N ? 3 E N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 10 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 297 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id C1 _struct_conn.ptnr2_label_comp_id NAG _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id NAG _struct_conn.ptnr2_auth_seq_id 1202 _struct_conn.ptnr2_symmetry 1_555 _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 1.228 _struct_conn.pdbx_value_order ? # _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 5LVV _atom_sites.fract_transf_matrix[1][1] 0.010149 _atom_sites.fract_transf_matrix[1][2] 0.005859 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011719 _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] 0.002723 _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 B 2 UDP A 1 1201 1201 UDP UDP . C 3 NAG A 1 1202 1202 NAG NAG . D 3 NAG A 1 1203 1203 NAG NAG . E 3 NAG A 1 1204 1204 NAG NAG . F 4 HOH A 1 1301 21 HOH HOH . F 4 HOH A 2 1302 25 HOH HOH . F 4 HOH A 3 1303 35 HOH HOH . F 4 HOH A 4 1304 2 HOH HOH . F 4 HOH A 5 1305 19 HOH HOH . F 4 HOH A 6 1306 28 HOH HOH . F 4 HOH A 7 1307 17 HOH HOH . F 4 HOH A 8 1308 18 HOH HOH . F 4 HOH A 9 1309 20 HOH HOH . F 4 HOH A 10 1310 15 HOH HOH . F 4 HOH A 11 1311 10 HOH HOH . F 4 HOH A 12 1312 14 HOH HOH . F 4 HOH A 13 1313 16 HOH HOH . F 4 HOH A 14 1314 33 HOH HOH . F 4 HOH A 15 1315 27 HOH HOH . F 4 HOH A 16 1316 24 HOH HOH . F 4 HOH A 17 1317 40 HOH HOH . F 4 HOH A 18 1318 36 HOH HOH . F 4 HOH A 19 1319 30 HOH HOH . F 4 HOH A 20 1320 11 HOH HOH . F 4 HOH A 21 1321 29 HOH HOH . F 4 HOH A 22 1322 8 HOH HOH . F 4 HOH A 23 1323 23 HOH HOH . F 4 HOH A 24 1324 39 HOH HOH . F 4 HOH A 25 1325 26 HOH HOH . F 4 HOH A 26 1326 34 HOH HOH . F 4 HOH A 27 1327 32 HOH HOH . F 4 HOH A 28 1328 13 HOH HOH . F 4 HOH A 29 1329 3 HOH HOH . F 4 HOH A 30 1330 37 HOH HOH . F 4 HOH A 31 1331 9 HOH HOH . F 4 HOH A 32 1332 5 HOH HOH . F 4 HOH A 33 1333 38 HOH HOH . F 4 HOH A 34 1334 1 HOH HOH . F 4 HOH A 35 1335 4 HOH HOH . F 4 HOH A 36 1336 6 HOH HOH . F 4 HOH A 37 1337 31 HOH HOH . F 4 HOH A 38 1338 22 HOH HOH . F 4 HOH A 39 1339 7 HOH HOH . F 4 HOH A 40 1340 12 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 . . . C 3 -2.224 37.96 -18.721 1 60.2 ? C1 NAG 1202 A 1 HETATM 2 C C2 NAG . . . C 3 -3.397 37.016 -18.561 1 57.38 ? C2 NAG 1202 A 1 HETATM 3 C C3 NAG . . . C 3 -3.078 35.886 -17.598 1 57.63 ? C3 NAG 1202 A 1 HETATM 4 C C4 NAG . . . C 3 -1.801 35.206 -18 1 53.29 ? C4 NAG 1202 A 1 HETATM 5 C C5 NAG . . . C 3 -0.705 36.218 -17.952 1 56.51 ? C5 NAG 1202 A 1 HETATM 6 C C6 NAG . . . C 3 0.621 35.621 -18.441 1 60.79 ? C6 NAG 1202 A 1 HETATM 7 C C7 NAG . . . C 3 -5.709 37.802 -18.676 1 58.14 ? C7 NAG 1202 A 1 HETATM 8 C C8 NAG . . . C 3 -6.872 38.501 -17.996 1 60.92 ? C8 NAG 1202 A 1 HETATM 9 N N2 NAG . . . C 3 -4.563 37.69 -18.022 1 54.19 ? N2 NAG 1202 A 1 HETATM 10 O O3 NAG . . . C 3 -4.124 34.905 -17.622 1 55.56 ? O3 NAG 1202 A 1 HETATM 11 O O4 NAG . . . C 3 -1.506 34.153 -17.105 1 54.8 ? O4 NAG 1202 A 1 HETATM 12 O O5 NAG . . . C 3 -1.024 37.234 -18.858 1 59.09 ? O5 NAG 1202 A 1 HETATM 13 O O6 NAG . . . C 3 0.632 35.382 -19.857 1 50.88 ? O6 NAG 1202 A 1 HETATM 14 O O7 NAG . . . C 3 -5.808 37.357 -19.791 1 55.84 ? O7 NAG 1202 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 217 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #