data_5CKQ # _model_server_result.job_id 0ZWCzxvQeEBP-o1xQ65TLw _model_server_result.datetime_utc '2024-10-22 17:35:58' _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 5ckq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5CKQ # _exptl.entry_id 5CKQ _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 2 _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 5CKQ _cell.length_a 152.71 _cell.length_b 152.71 _cell.length_c 152.71 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CKQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_757 -x+2,y,-z+2 -1 0 0 0 1 0 0 0 -1 305.42 0 305.42 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 53 A CYS 54 1_555 A SG CYS 71 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 123 A CYS 124 1_555 A SG CYS 137 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 133 A CYS 134 1_555 A SG CYS 146 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 148 A CYS 149 1_555 A SG CYS 161 A CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 165 A CYS 166 1_555 A SG CYS 192 A CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 222 A CYS 223 1_555 A SG CYS 240 A CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale1 A ND2 ASN 30 A ASN 31 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 158 A ASN 159 1_555 C C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 A OE1 GLU 48 A GLU 49 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc2 A OD1 ASP 56 A ASP 57 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc3 A OD2 ASP 56 A ASP 57 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.017 ? metalc ? metalc4 A OD1 ASP 101 A ASP 102 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc5 A O SER 103 A SER 104 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc6 A OD1 ASN 104 A ASN 105 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc7 A OD1 ASP 119 A ASP 120 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc8 A O VAL 120 A VAL 121 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc9 A OE1 GLU 122 A GLU 123 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.969 ? metalc ? metalc10 A OD1 ASN 139 A ASN 140 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? metalc ? metalc11 A O TYR 140 A TYR 141 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc12 A O GLY 143 A GLY 144 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? metalc ? metalc13 A OG SER 179 A SER 180 1_555 G NA NA . A NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc14 A O PRO 180 A PRO 181 1_555 G NA NA . A NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc15 A O ASN 184 A ASN 185 1_555 G NA NA . A NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? metalc ? metalc16 A OH TYR 186 A TYR 187 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.07 ? metalc ? metalc17 A OE1 GLU 215 A GLU 216 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.942 ? metalc ? metalc18 A OD2 ASP 225 A ASP 226 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc19 A OD1 ASP 262 A ASP 263 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? metalc ? metalc20 A O SER 264 A SER 265 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc21 A O ARG 268 A ARG 269 1_555 G NA NA . A NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 5CKQ _atom_sites.fract_transf_matrix[1][1] 0.006548 _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] 0.006548 _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] 0.006548 _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 1 301 300 NAG NAG . C 2 NAG A 1 302 301 NAG NAG . D 3 CA A 1 303 1 CA CA . E 3 CA A 1 304 2 CA CA . F 3 CA A 1 305 3 CA CA . G 4 NA A 1 306 1 NA NA . # 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 2 156.175 114.114 129.572 1 149.61 ? C1 NAG 301 A 1 HETATM 2 C C2 NAG . . . B 2 156.995 115.404 129.532 1 167.33 ? C2 NAG 301 A 1 HETATM 3 C C3 NAG . . . B 2 157.716 115.528 128.191 1 168.54 ? C3 NAG 301 A 1 HETATM 4 C C4 NAG . . . B 2 158.538 114.275 127.916 1 171.22 ? C4 NAG 301 A 1 HETATM 5 C C5 NAG . . . B 2 157.658 113.032 128.022 1 163.89 ? C5 NAG 301 A 1 HETATM 6 C C6 NAG . . . B 2 158.434 111.743 127.865 1 170.54 ? C6 NAG 301 A 1 HETATM 7 C C7 NAG . . . B 2 155.965 117.085 131 1 179.1 ? C7 NAG 301 A 1 HETATM 8 C C8 NAG . . . B 2 155.073 118.288 131.072 1 179.3 ? C8 NAG 301 A 1 HETATM 9 N N2 NAG . . . B 2 156.16 116.57 129.78 1 173.7 ? N2 NAG 301 A 1 HETATM 10 O O3 NAG . . . B 2 158.573 116.664 128.216 1 176.5 ? O3 NAG 301 A 1 HETATM 11 O O4 NAG . . . B 2 159.115 114.331 126.616 1 167.44 ? O4 NAG 301 A 1 HETATM 12 O O5 NAG . . . B 2 157.032 112.99 129.313 1 158.58 ? O5 NAG 301 A 1 HETATM 13 O O6 NAG . . . B 2 159.614 111.925 127.095 1 171.66 ? O6 NAG 301 A 1 HETATM 14 O O7 NAG . . . B 2 156.484 116.601 132.001 1 179.96 ? O7 NAG 301 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #