data_4YJZ # _model_server_result.job_id AXXxrqMBZpoyAiI45eoppg _model_server_result.datetime_utc '2024-10-17 17:34:46' _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 4yjz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 4YJZ # _exptl.entry_id 4YJZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 4YJZ _cell.length_a 63.149 _cell.length_b 153.166 _cell.length_c 177.628 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YJZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D N N ? 3 E 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 8 E CYS 59 1_555 A SG CYS 20 E CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 43 E CYS 94 1_555 A SG CYS 88 E CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? disulf ? disulf3 B SG CYS 22 L CYS 22 1_555 B SG CYS 89 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 B SG CYS 149 L CYS 222 1_555 B SG CYS 223 L CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? covale ? covale1 A ND2 ASN 7 E ASN 58 1_555 C C1 NAG . E NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? covale ? covale2 A ND2 ASN 40 E ASN 91 1_555 D C1 NAG . E NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.72 ? covale ? covale3 A ND2 ASN 78 E ASN 129 1_555 E C1 NAG . E NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.476 ? # _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 4YJZ _atom_sites.fract_transf_matrix[1][1] 0.015836 _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] 0.006529 _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] 0.00563 _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 C 3 NAG E 1 301 269 NAG NAG . D 3 NAG E 1 302 270 NAG NAG . E 3 NAG E 1 303 271 NAG NAG . F 4 HOH E 1 401 70 HOH HOH . F 4 HOH E 2 402 9 HOH HOH . F 4 HOH E 3 403 17 HOH HOH . F 4 HOH E 4 404 13 HOH HOH . F 4 HOH E 5 405 27 HOH HOH . F 4 HOH E 6 406 11 HOH HOH . F 4 HOH E 7 407 44 HOH HOH . F 4 HOH E 8 408 38 HOH HOH . F 4 HOH E 9 409 28 HOH HOH . F 4 HOH E 10 410 6 HOH HOH . F 4 HOH E 11 411 56 HOH HOH . F 4 HOH E 12 412 10 HOH HOH . F 4 HOH E 13 413 40 HOH HOH . F 4 HOH E 14 414 46 HOH HOH . F 4 HOH E 15 415 36 HOH HOH . F 4 HOH E 16 416 67 HOH HOH . F 4 HOH E 17 417 63 HOH HOH . F 4 HOH E 18 418 52 HOH HOH . F 4 HOH E 19 419 47 HOH HOH . F 4 HOH E 20 420 26 HOH HOH . G 4 HOH L 1 401 49 HOH HOH . G 4 HOH L 2 402 1 HOH HOH . G 4 HOH L 3 403 19 HOH HOH . G 4 HOH L 4 404 3 HOH HOH . G 4 HOH L 5 405 53 HOH HOH . G 4 HOH L 6 406 58 HOH HOH . G 4 HOH L 7 407 39 HOH HOH . G 4 HOH L 8 408 21 HOH HOH . G 4 HOH L 9 409 12 HOH HOH . G 4 HOH L 10 410 50 HOH HOH . G 4 HOH L 11 411 57 HOH HOH . G 4 HOH L 12 412 14 HOH HOH . G 4 HOH L 13 413 18 HOH HOH . G 4 HOH L 14 414 24 HOH HOH . G 4 HOH L 15 415 31 HOH HOH . G 4 HOH L 16 416 5 HOH HOH . G 4 HOH L 17 417 42 HOH HOH . G 4 HOH L 18 418 15 HOH HOH . G 4 HOH L 19 419 64 HOH HOH . G 4 HOH L 20 420 66 HOH HOH . G 4 HOH L 21 421 8 HOH HOH . G 4 HOH L 22 422 54 HOH HOH . G 4 HOH L 23 423 45 HOH HOH . G 4 HOH L 24 424 20 HOH HOH . G 4 HOH L 25 425 22 HOH HOH . G 4 HOH L 26 426 32 HOH HOH . G 4 HOH L 27 427 41 HOH HOH . G 4 HOH L 28 428 16 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 . . . E 3 115.15 217.48 212.06 1 158.56 ? C1 NAG 303 E 1 HETATM 2 C C2 NAG . . . E 3 114.488 217.596 213.427 1 158.01 ? C2 NAG 303 E 1 HETATM 3 C C3 NAG . . . E 3 113.366 216.575 213.579 1 169.09 ? C3 NAG 303 E 1 HETATM 4 C C4 NAG . . . E 3 112.431 216.61 212.376 1 168.86 ? C4 NAG 303 E 1 HETATM 5 C C5 NAG . . . E 3 113.216 216.552 211.072 1 161.87 ? C5 NAG 303 E 1 HETATM 6 C C6 NAG . . . E 3 112.287 216.662 209.869 1 154.78 ? C6 NAG 303 E 1 HETATM 7 C C7 NAG . . . E 3 115.616 218.29 215.46 1 157.67 ? C7 NAG 303 E 1 HETATM 8 C C8 NAG . . . E 3 114.351 218.7 216.153 1 155.43 ? C8 NAG 303 E 1 HETATM 9 N N2 NAG . . . E 3 115.474 217.409 214.474 1 166.14 ? N2 NAG 303 E 1 HETATM 10 O O3 NAG . . . E 3 112.623 216.856 214.77 1 178.24 ? O3 NAG 303 E 1 HETATM 11 O O4 NAG . . . E 3 111.529 215.499 212.44 1 177.51 ? O4 NAG 303 E 1 HETATM 12 O O5 NAG . . . E 3 114.163 217.618 211.04 1 158.65 ? O5 NAG 303 E 1 HETATM 13 O O6 NAG . . . E 3 111.244 215.688 209.981 1 149.84 ? O6 NAG 303 E 1 HETATM 14 O O7 NAG . . . E 3 116.706 218.735 215.78 1 149.99 ? O7 NAG 303 E 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #