data_5UKR # _model_server_result.job_id VVtATNqUx1MLHj1PaCEpLg _model_server_result.datetime_utc '2024-11-16 16:22:54' _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 5ukr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":404}' # _entry.id 5UKR # _exptl.entry_id 5UKR _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 6 _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 5UKR _cell.length_a 50.851 _cell.length_b 71.973 _cell.length_c 252.228 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UKR _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,J,K,L _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 ? 4 G N N ? 4 H N N ? 4 I 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 22 H CYS 22 1_555 A SG CYS 97 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 A SG CYS 152 H CYS 140 1_555 A SG CYS 208 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 B SG CYS 22 L CYS 23 1_555 B SG CYS 90 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 B SG CYS 138 L CYS 134 1_555 B SG CYS 197 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 C SG CYS 86 G CYS 164 1_555 C SG CYS 97 G CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 C SG CYS 154 G CYS 232 1_555 C SG CYS 160 G CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 C SG CYS 207 G CYS 285 1_555 C SG CYS 266 G CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 C SG CYS 214 G CYS 292 1_555 C SG CYS 239 G CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 C ND2 ASN 120 G ASN 198 1_555 D C1 NAG . G NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 C ND2 ASN 134 G ASN 212 1_555 E C1 NAG . G NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 C ND2 ASN 153 G ASN 231 1_555 F C1 NAG . G NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale4 C ND2 ASN 161 G ASN 239 1_555 G C1 NAG . G NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale5 C ND2 ASN 215 G ASN 293 1_555 H C1 NAG . G NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 C ND2 ASN 269 G ASN 347 1_555 I C1 NAG . G NAG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _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 5UKR _atom_sites.fract_transf_matrix[1][1] 0.019665 _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] 0.013894 _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] 0.003965 _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 G 1 401 762 NAG NAG . E 4 NAG G 1 402 776 NAG NAG . F 4 NAG G 1 403 795 NAG NAG . G 4 NAG G 1 404 832 NAG NAG . H 4 NAG G 1 405 886 NAG NAG . I 4 NAG G 1 406 948 NAG NAG . J 5 HOH H 1 301 7 HOH HOH . J 5 HOH H 2 302 14 HOH HOH . J 5 HOH H 3 303 10 HOH HOH . J 5 HOH H 4 304 2 HOH HOH . J 5 HOH H 5 305 15 HOH HOH . J 5 HOH H 6 306 11 HOH HOH . J 5 HOH H 7 307 12 HOH HOH . J 5 HOH H 8 308 6 HOH HOH . J 5 HOH H 9 309 17 HOH HOH . K 5 HOH L 1 301 3 HOH HOH . K 5 HOH L 2 302 5 HOH HOH . K 5 HOH L 3 303 8 HOH HOH . K 5 HOH L 4 304 1 HOH HOH . K 5 HOH L 5 305 4 HOH HOH . K 5 HOH L 6 306 9 HOH HOH . K 5 HOH L 7 307 16 HOH HOH . L 5 HOH G 1 501 13 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 . . . G 4 -24.501 105.812 19.024 1 92.48 ? C1 NAG 404 G 1 HETATM 2 C C2 NAG . . . G 4 -24.838 106.207 20.457 1 103.85 ? C2 NAG 404 G 1 HETATM 3 C C3 NAG . . . G 4 -25.107 107.709 20.529 1 111.86 ? C3 NAG 404 G 1 HETATM 4 C C4 NAG . . . G 4 -23.935 108.488 19.946 1 113.7 ? C4 NAG 404 G 1 HETATM 5 C C5 NAG . . . G 4 -23.605 107.986 18.542 1 110.75 ? C5 NAG 404 G 1 HETATM 6 C C6 NAG . . . G 4 -22.335 108.576 17.98 1 115.74 ? C6 NAG 404 G 1 HETATM 7 C C7 NAG . . . G 4 -27.229 105.544 20.537 1 108.48 ? C7 NAG 404 G 1 HETATM 8 C C8 NAG . . . G 4 -28.237 104.681 21.243 1 106.97 ? C8 NAG 404 G 1 HETATM 9 N N2 NAG . . . G 4 -25.968 105.455 20.986 1 108.4 ? N2 NAG 404 G 1 HETATM 10 O O3 NAG . . . G 4 -25.339 108.116 21.872 1 116.21 ? O3 NAG 404 G 1 HETATM 11 O O4 NAG . . . G 4 -24.26 109.872 19.894 1 115.79 ? O4 NAG 404 G 1 HETATM 12 O O5 NAG . . . G 4 -23.388 106.572 18.572 1 102.06 ? O5 NAG 404 G 1 HETATM 13 O O6 NAG . . . G 4 -21.4 107.562 17.632 1 118.13 ? O6 NAG 404 G 1 HETATM 14 O O7 NAG . . . G 4 -27.546 106.272 19.602 1 108.28 ? O7 NAG 404 G 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 628 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #