data_3QYT # _model_server_result.job_id JXSUC4R3XdlGvAz48uBDJQ _model_server_result.datetime_utc '2024-11-22 22:33:27' _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 3qyt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":685}' # _entry.id 3QYT # _exptl.entry_id 3QYT _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 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 3QYT _cell.length_a 73.845 _cell.length_b 90.435 _cell.length_c 112.299 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QYT _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H,I _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 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 9 A CYS 9 1_555 A SG CYS 48 A CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 19 A CYS 19 1_555 A SG CYS 39 A CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf3 A SG CYS 118 A CYS 118 1_555 A SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 137 A CYS 137 1_555 A SG CYS 331 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf5 A SG CYS 158 A CYS 158 1_555 A SG CYS 174 A CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf6 A SG CYS 161 A CYS 161 1_555 A SG CYS 179 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 A SG CYS 171 A CYS 171 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 A SG CYS 227 A CYS 227 1_555 A SG CYS 241 A CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf9 A SG CYS 339 A CYS 339 1_555 A SG CYS 596 A CYS 596 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf10 A SG CYS 345 A CYS 345 1_555 A SG CYS 377 A CYS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf11 A SG CYS 355 A CYS 355 1_555 A SG CYS 368 A CYS 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf12 A SG CYS 402 A CYS 402 1_555 A SG CYS 674 A CYS 674 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf13 A SG CYS 418 A CYS 418 1_555 A SG CYS 637 A CYS 637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 A SG CYS 450 A CYS 450 1_555 A SG CYS 523 A CYS 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf15 A SG CYS 474 A CYS 474 1_555 A SG CYS 665 A CYS 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf16 A SG CYS 484 A CYS 484 1_555 A SG CYS 498 A CYS 498 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf17 A SG CYS 495 A CYS 495 1_555 A SG CYS 506 A CYS 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf18 A SG CYS 563 A CYS 563 1_555 A SG CYS 577 A CYS 577 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf19 A SG CYS 615 A CYS 615 1_555 A SG CYS 620 A CYS 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 413 A ASN 413 1_555 F C1 NAG . A NAG 684 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 611 A ASN 611 1_555 G C1 NAG . A NAG 685 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? metalc ? metalc1 A OH TYR 95 A TYR 95 1_555 D FE FE . A FE 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc2 A OH TYR 188 A TYR 188 1_555 D FE FE . A FE 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.873 ? metalc ? metalc3 A OD1 ASP 392 A ASP 392 1_555 B FE FE . A FE 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc4 A OH TYR 426 A TYR 426 1_555 B FE FE . A FE 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.857 ? metalc ? metalc5 A OH TYR 517 A TYR 517 1_555 B FE FE . A FE 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? metalc ? metalc6 A NE2 HIS 585 A HIS 585 1_555 B FE FE . A FE 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc7 B FE FE . A FE 680 1_555 C O3 CO3 . A CO3 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc8 B FE FE . A FE 680 1_555 C O2 CO3 . A CO3 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc9 D FE FE . A FE 682 1_555 E O3 CO3 . A CO3 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc10 D FE FE . A FE 682 1_555 E O2 CO3 . A CO3 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc11 D FE FE . A FE 682 1_555 H O1 SO4 . A SO4 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc12 D FE FE . A FE 682 1_555 H O3 SO4 . A SO4 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? # _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 240 n n C1 O1 NAG sing 241 n n C1 O5 NAG sing 242 n n C1 H1 NAG sing 243 n n C2 C3 NAG sing 244 n n C2 N2 NAG sing 245 n n C2 H2 NAG sing 246 n n C3 C4 NAG sing 247 n n C3 O3 NAG sing 248 n n C3 H3 NAG sing 249 n n C4 C5 NAG sing 250 n n C4 O4 NAG sing 251 n n C4 H4 NAG sing 252 n n C5 C6 NAG sing 253 n n C5 O5 NAG sing 254 n n C5 H5 NAG sing 255 n n C6 O6 NAG sing 256 n n C6 H61 NAG sing 257 n n C6 H62 NAG sing 258 n n C7 C8 NAG sing 259 n n C7 N2 NAG sing 260 n n C7 O7 NAG doub 261 n n C8 H81 NAG sing 262 n n C8 H82 NAG sing 263 n n C8 H83 NAG sing 264 n n N2 HN2 NAG sing 265 n n O1 HO1 NAG sing 266 n n O3 HO3 NAG sing 267 n n O4 HO4 NAG sing 268 n n O6 HO6 NAG sing 269 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 3QYT _atom_sites.fract_transf_matrix[1][1] 0.013542 _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] 0.011058 _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] 0.008905 _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 FE A 1 680 680 FE FE . C 3 CO3 A 1 681 681 CO3 CO3 . D 2 FE A 1 682 682 FE FE . E 3 CO3 A 1 683 683 CO3 CO3 . F 4 NAG A 1 684 684 NAG NAG . G 4 NAG A 1 685 685 NAG NAG . H 5 SO4 A 1 686 686 SO4 SO4 . I 6 HOH A 1 687 1 HOH HOH . I 6 HOH A 2 688 2 HOH HOH . I 6 HOH A 3 689 3 HOH HOH . I 6 HOH A 4 690 5 HOH HOH . I 6 HOH A 5 691 6 HOH HOH . I 6 HOH A 6 692 7 HOH HOH . I 6 HOH A 7 693 8 HOH HOH . I 6 HOH A 8 694 9 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 . . . G 4 -4.104 -4.893 15.586 1 79.99 ? C1 NAG 685 A 1 HETATM 2 C C2 NAG . . . G 4 -4.277 -3.846 16.709 1 85.62 ? C2 NAG 685 A 1 HETATM 3 C C3 NAG . . . G 4 -3.083 -3.83 17.666 1 86.07 ? C3 NAG 685 A 1 HETATM 4 C C4 NAG . . . G 4 -2.8 -5.249 18.147 1 86.39 ? C4 NAG 685 A 1 HETATM 5 C C5 NAG . . . G 4 -2.446 -6.125 16.947 1 87.13 ? C5 NAG 685 A 1 HETATM 6 C C6 NAG . . . G 4 -2.183 -7.59 17.329 1 88.99 ? C6 NAG 685 A 1 HETATM 7 C C7 NAG . . . G 4 -4.701 -1.383 16.752 1 92.24 ? C7 NAG 685 A 1 HETATM 8 C C8 NAG . . . G 4 -5 -0.177 15.902 1 93.35 ? C8 NAG 685 A 1 HETATM 9 N N2 NAG . . . G 4 -4.558 -2.545 16.095 1 89.27 ? N2 NAG 685 A 1 HETATM 10 O O3 NAG . . . G 4 -3.336 -3.003 18.782 1 86.36 ? O3 NAG 685 A 1 HETATM 11 O O4 NAG . . . G 4 -1.74 -5.269 19.087 1 84.8 ? O4 NAG 685 A 1 HETATM 12 O O5 NAG . . . G 4 -3.488 -6.114 15.983 1 84.24 ? O5 NAG 685 A 1 HETATM 13 O O6 NAG . . . G 4 -2.342 -7.783 18.722 1 93.2 ? O6 NAG 685 A 1 HETATM 14 O O7 NAG . . . G 4 -4.594 -1.25 17.973 1 92.73 ? O7 NAG 685 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #