data_7QDP # _model_server_result.job_id VZ36LAqeC2WiAuBqZIfrWg _model_server_result.datetime_utc '2024-11-26 05:36:04' _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 7qdp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":601}' # _entry.id 7QDP # _exptl.entry_id 7QDP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 105.37 _cell.angle_beta 109.47 _cell.angle_gamma 108.22 _cell.entry_id 7QDP _cell.length_a 102.428 _cell.length_b 113.377 _cell.length_c 123.225 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QDP _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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,I,J,K,L,M,N _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 ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n I NAG 1 I 1 NAG F 535 NAG 3 n I NAG 2 I 2 NAG F 536 NAG 3 n I BMA 3 I 3 BMA F 537 BMA 4 n J NAG 1 J 1 NAG H 535 NAG 4 n J NAG 2 J 2 NAG H 536 NAG # 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 25 A CYS 4 1_555 A SG CYS 106 A CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 65 A CYS 44 1_555 A SG CYS 148 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 114 A CYS 93 1_555 A SG CYS 153 A CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 B SG CYS 25 B CYS 4 1_555 B SG CYS 106 B CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 B SG CYS 65 B CYS 44 1_555 B SG CYS 148 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 C SG CYS 25 C CYS 4 1_555 C SG CYS 106 C CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 C SG CYS 65 C CYS 44 1_555 C SG CYS 148 C CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 D SG CYS 25 D CYS 4 1_555 D SG CYS 106 D CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 D SG CYS 65 D CYS 44 1_555 D SG CYS 148 D CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 E SG CYS 184 E CYS 184 1_555 E SG CYS 231 E CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 E SG CYS 368 E CYS 368 1_555 E SG CYS 407 E CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf12 E SG CYS 381 E CYS 381 1_555 E SG CYS 392 E CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 E SG CYS 515 E CYS 515 1_555 E SG CYS 524 E CYS 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 F SG CYS 103 F CYS 103 1_555 F SG CYS 114 F CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 F SG CYS 381 F CYS 381 1_555 F SG CYS 392 F CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf16 G SG CYS 184 G CYS 184 1_555 G SG CYS 231 G CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf17 G SG CYS 232 G CYS 232 1_555 G SG CYS 241 G CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf18 G SG CYS 272 G CYS 272 1_555 G SG CYS 330 G CYS 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf19 G SG CYS 368 G CYS 368 1_555 G SG CYS 407 G CYS 407 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf20 G SG CYS 368 G CYS 368 1_555 G SG CYS 407 G CYS 407 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf21 G SG CYS 381 G CYS 381 1_555 G SG CYS 392 G CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf22 G SG CYS 515 G CYS 515 1_555 G SG CYS 524 G CYS 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf23 H SG CYS 184 H CYS 184 1_555 H SG CYS 231 H CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf24 H SG CYS 368 H CYS 368 1_555 H SG CYS 407 H CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf25 H SG CYS 381 H CYS 381 1_555 H SG CYS 392 H CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 E ND2 ASN 306 E ASN 306 1_555 K C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 F ND2 ASN 306 F ASN 306 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 F ND2 ASN 323 F ASN 323 1_555 L C1 NAG . F NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale4 F ND2 ASN 351 F ASN 351 1_555 M C1 NAG . F NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale5 H ND2 ASN 306 H ASN 306 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale6 H ND2 ASN 323 H ASN 323 1_555 N C1 NAG . H NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale8 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale9 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 7QDP _atom_sites.fract_transf_matrix[1][1] 0.009763 _atom_sites.fract_transf_matrix[1][2] 0.003214 _atom_sites.fract_transf_matrix[1][3] 0.005243 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009286 _atom_sites.fract_transf_matrix[2][3] 0.004203 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.009448 _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 K 5 NAG E 1 601 535 NAG NAG . L 5 NAG F 1 601 538 NAG NAG . M 5 NAG F 1 602 539 NAG NAG . N 5 NAG H 1 601 537 NAG NAG . # 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 . . . N 5 -33.586 -6.715 -11.207 1 232.73 ? C1 NAG 601 H 1 HETATM 2 C C2 NAG . . . N 5 -32.22 -6.039 -11.08 1 233.46 ? C2 NAG 601 H 1 HETATM 3 C C3 NAG . . . N 5 -32.366 -4.696 -11.8 1 233.77 ? C3 NAG 601 H 1 HETATM 4 C C4 NAG . . . N 5 -32.788 -4.895 -13.258 1 234.18 ? C4 NAG 601 H 1 HETATM 5 C C5 NAG . . . N 5 -34.041 -5.772 -13.363 1 233.98 ? C5 NAG 601 H 1 HETATM 6 C C6 NAG . . . N 5 -34.357 -6.207 -14.782 1 234.2 ? C6 NAG 601 H 1 HETATM 7 C C7 NAG . . . N 5 -32.393 -5.391 -8.649 1 234.05 ? C7 NAG 601 H 1 HETATM 8 C C8 NAG . . . N 5 -31.679 -5.473 -7.331 1 233.98 ? C8 NAG 601 H 1 HETATM 9 N N2 NAG . . . N 5 -31.704 -5.861 -9.723 1 233.87 ? N2 NAG 601 H 1 HETATM 10 O O3 NAG . . . N 5 -31.131 -3.988 -11.751 1 233.69 ? O3 NAG 601 H 1 HETATM 11 O O4 NAG . . . N 5 -33.057 -3.629 -13.851 1 234.61 ? O4 NAG 601 H 1 HETATM 12 O O5 NAG . . . N 5 -33.878 -6.975 -12.582 1 233.36 ? O5 NAG 601 H 1 HETATM 13 O O6 NAG . . . N 5 -34.583 -5.107 -15.661 1 234.24 ? O6 NAG 601 H 1 HETATM 14 O O7 NAG . . . N 5 -33.527 -4.928 -8.742 1 234.18 ? O7 NAG 601 H 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #