data_5GQR # _model_server_result.job_id iRZW42j17cjwEI1H_B8WpQ _model_server_result.datetime_utc '2024-10-19 11:36:03' _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 5gqr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 5GQR # _exptl.entry_id 5GQR _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 4 _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 5GQR _cell.length_a 162.422 _cell.length_b 162.422 _cell.length_c 187.234 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GQR _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 62 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 # 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 38 B CYS 69 1_555 A SG CYS 45 B CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 359 B CYS 390 1_555 A SG CYS 385 B CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 480 B CYS 511 1_555 A SG CYS 504 B CYS 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 A SG CYS 589 B CYS 620 1_555 A SG CYS 597 B CYS 628 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf5 C SG CYS 32 K CYS 58 1_555 C SG CYS 39 K CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf6 C SG CYS 176 K CYS 202 1_555 C SG CYS 184 K CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 A ND2 ASN 80 B ASN 111 1_555 E C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale2 A ND2 ASN 291 B ASN 322 1_555 D C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale3 B C GLY 6 C GLY 98 1_555 B N HYP 7 C HYP 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale4 B C HYP 7 C HYP 99 1_555 B N ASN 8 C ASN 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? covale ? covale5 C ND2 ASN 124 K ASN 150 1_555 G C1 NAG . K NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? covale ? covale6 C ND2 ASN 158 K ASN 184 1_555 F C1 NAG . K NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? # _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 253 n n C1 O1 NAG sing 254 n n C1 O5 NAG sing 255 n n C1 H1 NAG sing 256 n n C2 C3 NAG sing 257 n n C2 N2 NAG sing 258 n n C2 H2 NAG sing 259 n n C3 C4 NAG sing 260 n n C3 O3 NAG sing 261 n n C3 H3 NAG sing 262 n n C4 C5 NAG sing 263 n n C4 O4 NAG sing 264 n n C4 H4 NAG sing 265 n n C5 C6 NAG sing 266 n n C5 O5 NAG sing 267 n n C5 H5 NAG sing 268 n n C6 O6 NAG sing 269 n n C6 H61 NAG sing 270 n n C6 H62 NAG sing 271 n n C7 C8 NAG sing 272 n n C7 N2 NAG sing 273 n n C7 O7 NAG doub 274 n n C8 H81 NAG sing 275 n n C8 H82 NAG sing 276 n n C8 H83 NAG sing 277 n n N2 HN2 NAG sing 278 n n O1 HO1 NAG sing 279 n n O3 HO3 NAG sing 280 n n O4 HO4 NAG sing 281 n n O6 HO6 NAG sing 282 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 5GQR _atom_sites.fract_transf_matrix[1][1] 0.006157 _atom_sites.fract_transf_matrix[1][2] 0.003555 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007109 _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] 0.005341 _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 1 701 3221 NAG NAG . E 4 NAG B 1 702 1111 NAG NAG . F 4 NAG K 1 301 1841 NAG NAG . G 4 NAG K 1 302 1501 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 . . . F 4 49.085 -74.239 21.683 1 90.07 ? C1 NAG 301 K 1 HETATM 2 C C2 NAG . . . F 4 50.331 -73.873 22.477 1 90.53 ? C2 NAG 301 K 1 HETATM 3 C C3 NAG . . . F 4 49.961 -72.944 23.608 1 90.51 ? C3 NAG 301 K 1 HETATM 4 C C4 NAG . . . F 4 49.235 -71.744 23.064 1 90.09 ? C4 NAG 301 K 1 HETATM 5 C C5 NAG . . . F 4 48.003 -72.229 22.351 1 89.92 ? C5 NAG 301 K 1 HETATM 6 C C6 NAG . . . F 4 47.201 -71.058 21.845 1 89.53 ? C6 NAG 301 K 1 HETATM 7 C C7 NAG . . . F 4 50.605 -76.275 23.12 1 91.43 ? C7 NAG 301 K 1 HETATM 8 C C8 NAG . . . F 4 51.611 -77.354 22.875 1 91.83 ? C8 NAG 301 K 1 HETATM 9 N N2 NAG . . . F 4 51.058 -75.029 22.985 1 90.99 ? N2 NAG 301 K 1 HETATM 10 O O3 NAG . . . F 4 51.147 -72.505 24.249 1 90.49 ? O3 NAG 301 K 1 HETATM 11 O O4 NAG . . . F 4 48.835 -70.916 24.149 1 90.22 ? O4 NAG 301 K 1 HETATM 12 O O5 NAG . . . F 4 48.378 -73.071 21.275 1 89.71 ? O5 NAG 301 K 1 HETATM 13 O O6 NAG . . . F 4 45.862 -71.502 21.676 1 89.74 ? O6 NAG 301 K 1 HETATM 14 O O7 NAG . . . F 4 49.466 -76.543 23.44 1 91.52 ? O7 NAG 301 K 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #