data_1IVB # _model_server_result.job_id TnPwwjz1ha3aoav1LbQ5Rg _model_server_result.datetime_utc '2024-11-25 14:46:16' _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 1ivb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":467}' # _entry.id 1IVB # _exptl.entry_id 1IVB _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1IVB _cell.length_a 124.54 _cell.length_b 124.54 _cell.length_c 71.82 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1IVB _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 4 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 124.54 0 0 3 'crystal symmetry operation' 3_545 -y+1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 62.27 -62.27 0 4 'crystal symmetry operation' 4_555 y+1/2,-x+1/2,z 0 1 0 -1 0 0 0 0 1 62.27 62.27 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 11 A CYS 87 1_555 A SG CYS 344 A CYS 420 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 46 A CYS 122 1_555 A SG CYS 51 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 106 A CYS 182 1_555 A SG CYS 153 A CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf4 A SG CYS 155 A CYS 231 1_555 A SG CYS 160 A CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 A SG CYS 201 A CYS 277 1_555 A SG CYS 215 A CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 A SG CYS 203 A CYS 279 1_555 A SG CYS 213 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 A SG CYS 242 A CYS 318 1_555 A SG CYS 261 A CYS 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf8 A SG CYS 348 A CYS 424 1_555 A SG CYS 371 A CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? covale ? covale1 A ND2 ASN 208 A ASN 284 1_555 B C1 NAG . A NAG 467 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.482 ? metalc ? metalc1 A OE1 GLU 92 A GLU 168 1_555 D CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc2 A OE1 GLU 92 A GLU 168 2_655 D CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc3 A OE1 GLU 92 A GLU 168 4_555 D CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc4 A OE1 GLU 92 A GLU 168 3_545 D CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc5 A O ASP 217 A ASP 293 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.843 ? metalc ? metalc6 A O THR 221 A THR 297 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc7 A OD2 ASP 248 A ASP 324 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc8 A O TRP 268 A TRP 344 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.37 ? metalc ? metalc9 A O GLY 270 A GLY 346 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? # _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 1IVB _atom_sites.fract_transf_matrix[1][1] 0.00803 _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] 0.00803 _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] 0.013924 _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 1 467 467 NAG NAG . C 3 CA A 1 500 500 CA CA . D 3 CA A 1 501 501 CA CA . E 4 ST1 A 1 471 471 ST1 ST1 . # 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 40.621 -17.933 33.096 1 15 ? C1 NAG 467 A 1 HETATM 2 C C2 NAG . . . B 2 41.285 -19.276 33.18 1 15 ? C2 NAG 467 A 1 HETATM 3 C C3 NAG . . . B 2 42.775 -19.062 33.088 1 15 ? C3 NAG 467 A 1 HETATM 4 C C4 NAG . . . B 2 43.175 -18.323 31.704 1 15 ? C4 NAG 467 A 1 HETATM 5 C C5 NAG . . . B 2 42.53 -16.833 31.688 1 15 ? C5 NAG 467 A 1 HETATM 6 C C6 NAG . . . B 2 42.683 -16.147 30.325 1 15 ? C6 NAG 467 A 1 HETATM 7 C C7 NAG . . . B 2 41.182 -21.292 34.399 1 15 ? C7 NAG 467 A 1 HETATM 8 C C8 NAG . . . B 2 40.987 -22.144 35.634 1 15 ? C8 NAG 467 A 1 HETATM 9 N N2 NAG . . . B 2 41.014 -19.979 34.412 1 15 ? N2 NAG 467 A 1 HETATM 10 O O3 NAG . . . B 2 43.346 -20.322 33.189 1 15 ? O3 NAG 467 A 1 HETATM 11 O O4 NAG . . . B 2 44.559 -18.302 31.645 1 15 ? O4 NAG 467 A 1 HETATM 12 O O5 NAG . . . B 2 41.091 -16.918 31.964 1 15 ? O5 NAG 467 A 1 HETATM 13 O O6 NAG . . . B 2 41.773 -15.042 30.26 1 15 ? O6 NAG 467 A 1 HETATM 14 O O7 NAG . . . B 2 41.443 -21.884 33.363 1 15 ? O7 NAG 467 A 1 HETATM 15 H H1 NAG . . . B 2 40.948 -17.392 33.994 1 15 ? H1 NAG 467 A 1 HETATM 16 H H2 NAG . . . B 2 40.95 -19.827 32.281 1 15 ? H2 NAG 467 A 1 HETATM 17 H H3 NAG . . . B 2 43.144 -18.424 33.907 1 15 ? H3 NAG 467 A 1 HETATM 18 H H4 NAG . . . B 2 42.78 -18.906 30.857 1 15 ? H4 NAG 467 A 1 HETATM 19 H H5 NAG . . . B 2 42.998 -16.217 32.47 1 15 ? H5 NAG 467 A 1 HETATM 20 H H61 NAG . . . B 2 42.482 -16.852 29.506 1 15 ? H61 NAG 467 A 1 HETATM 21 H H62 NAG . . . B 2 43.723 -15.799 30.212 1 15 ? H62 NAG 467 A 1 HETATM 22 H H81 NAG . . . B 2 41.818 -22.848 35.726 1 15 ? H81 NAG 467 A 1 HETATM 23 H H82 NAG . . . B 2 40.057 -22.721 35.554 1 15 ? H82 NAG 467 A 1 HETATM 24 H H83 NAG . . . B 2 40.96 -21.522 36.54 1 15 ? H83 NAG 467 A 1 HETATM 25 H HN2 NAG . . . B 2 40.753 -19.486 35.216 1 15 ? HN2 NAG 467 A 1 HETATM 26 H HO3 NAG . . . B 2 42.877 -20.957 32.631 1 15 ? HO3 NAG 467 A 1 HETATM 27 H HO4 NAG . . . B 2 44.856 -19.033 32.207 1 15 ? HO4 NAG 467 A 1 HETATM 28 H HO6 NAG . . . B 2 41.052 -15.217 30.878 1 15 ? HO6 NAG 467 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #