data_5KXA # _model_server_result.job_id 8QMs05JKFEKnvPauqPYr5g _model_server_result.datetime_utc '2024-11-26 18:54:58' _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 5kxa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 5KXA # _exptl.entry_id 5KXA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 71.56 _cell.angle_beta 79.75 _cell.angle_gamma 81.09 _cell.entry_id 5KXA _cell.length_a 55.1 _cell.length_b 55.506 _cell.length_c 70.075 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KXA _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 59 A CYS 59 1_555 A SG CYS 76 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf2 A SG CYS 63 A CYS 63 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf3 A SG CYS 74 A CYS 74 1_555 A SG CYS 87 A CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? disulf ? disulf4 A SG CYS 80 A CYS 80 1_555 A SG CYS 86 A CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf5 A SG CYS 103 A CYS 103 1_555 A SG CYS 120 A CYS 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 A SG CYS 108 A CYS 108 1_555 A SG CYS 138 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? disulf ? disulf7 A SG CYS 118 A CYS 118 1_555 A SG CYS 131 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf8 A SG CYS 124 A CYS 124 1_555 A SG CYS 130 A CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf9 A SG CYS 149 A CYS 149 1_555 A SG CYS 195 A CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 A SG CYS 157 A CYS 157 1_555 A SG CYS 351 A CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf11 A SG CYS 414 A CYS 414 1_555 A SG CYS 806 A CYS 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf12 A SG CYS 775 A CYS 775 1_555 A SG CYS 785 A CYS 785 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc1 A OD1 ASP 172 A ASP 172 1_555 D ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? metalc ? metalc2 A OG1 THR 210 A THR 210 1_555 D ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.745 ? metalc ? metalc3 A OD1 ASP 312 A ASP 312 1_555 C ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc4 A NE2 HIS 316 A HIS 316 1_555 C ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc5 A OD2 ASP 359 A ASP 359 1_555 D ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc6 A NE2 HIS 360 A HIS 360 1_555 D ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc7 A NE2 HIS 475 A HIS 475 1_555 C ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc8 A OD1 ASP 740 A ASP 740 1_555 E CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc9 A OD1 ASP 742 A ASP 742 1_555 E CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc10 A OD1 ASP 744 A ASP 744 1_555 E CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? metalc ? metalc11 A O LEU 746 A LEU 746 1_555 E CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc12 A OD1 ASP 748 A ASP 748 1_555 E CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc13 C ZN ZN . A ZN 902 1_555 G O2 PO4 . A PO4 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? metalc ? metalc14 C ZN ZN . A ZN 902 1_555 G O3 PO4 . A PO4 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _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 291 n n C1 O1 NAG sing 292 n n C1 O5 NAG sing 293 n n C1 H1 NAG sing 294 n n C2 C3 NAG sing 295 n n C2 N2 NAG sing 296 n n C2 H2 NAG sing 297 n n C3 C4 NAG sing 298 n n C3 O3 NAG sing 299 n n C3 H3 NAG sing 300 n n C4 C5 NAG sing 301 n n C4 O4 NAG sing 302 n n C4 H4 NAG sing 303 n n C5 C6 NAG sing 304 n n C5 O5 NAG sing 305 n n C5 H5 NAG sing 306 n n C6 O6 NAG sing 307 n n C6 H61 NAG sing 308 n n C6 H62 NAG sing 309 n n C7 C8 NAG sing 310 n n C7 N2 NAG sing 311 n n C7 O7 NAG doub 312 n n C8 H81 NAG sing 313 n n C8 H82 NAG sing 314 n n C8 H83 NAG sing 315 n n N2 HN2 NAG sing 316 n n O1 HO1 NAG sing 317 n n O3 HO3 NAG sing 318 n n O4 HO4 NAG sing 319 n n O6 HO6 NAG sing 320 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 5KXA _atom_sites.fract_transf_matrix[1][1] 0.018149 _atom_sites.fract_transf_matrix[1][2] -0.002847 _atom_sites.fract_transf_matrix[1][3] -0.002553 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018236 _atom_sites.fract_transf_matrix[2][3] -0.005672 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015187 _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 NAG A 1 901 901 NAG NAG . C 3 ZN A 1 902 1 ZN ZN . D 3 ZN A 1 903 2 ZN ZN . E 4 CA A 1 904 1 CA CA . F 5 6Y7 A 1 905 1 6Y7 505 . G 6 PO4 A 1 906 1 PO4 PO4 . H 7 HOH A 1 1001 1 HOH HOH . H 7 HOH A 2 1002 2 HOH HOH . H 7 HOH A 3 1003 5 HOH HOH . H 7 HOH A 4 1004 3 HOH HOH . H 7 HOH A 5 1005 4 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 . . . B 2 -39.305 19.801 -31.343 1 46.16 ? C1 NAG 901 A 1 HETATM 2 C C2 NAG . . . B 2 -39.459 19.782 -29.833 1 44.61 ? C2 NAG 901 A 1 HETATM 3 C C3 NAG . . . B 2 -38.998 21.15 -29.413 1 43.02 ? C3 NAG 901 A 1 HETATM 4 C C4 NAG . . . B 2 -37.534 21.287 -29.821 1 42.02 ? C4 NAG 901 A 1 HETATM 5 C C5 NAG . . . B 2 -37.296 20.954 -31.304 1 46.7 ? C5 NAG 901 A 1 HETATM 6 C C6 NAG . . . B 2 -35.8 20.826 -31.621 1 45.98 ? C6 NAG 901 A 1 HETATM 7 C C7 NAG . . . B 2 -41.237 18.618 -28.594 1 43.8 ? C7 NAG 901 A 1 HETATM 8 C C8 NAG . . . B 2 -42.722 18.474 -28.364 1 44.77 ? C8 NAG 901 A 1 HETATM 9 N N2 NAG . . . B 2 -40.854 19.503 -29.487 1 44.09 ? N2 NAG 901 A 1 HETATM 10 O O3 NAG . . . B 2 -39.274 21.283 -28.01 1 43.95 ? O3 NAG 901 A 1 HETATM 11 O O4 NAG . . . B 2 -37.069 22.626 -29.549 1 44.29 ? O4 NAG 901 A 1 HETATM 12 O O5 NAG . . . B 2 -37.959 19.749 -31.739 1 44.43 ? O5 NAG 901 A 1 HETATM 13 O O6 NAG . . . B 2 -35.279 19.671 -30.921 1 46.72 ? O6 NAG 901 A 1 HETATM 14 O O7 NAG . . . B 2 -40.432 17.964 -27.978 1 48.86 ? O7 NAG 901 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #