data_4UO8 # _model_server_result.job_id 4tE4SlGmsH53cXxzoOteHg _model_server_result.datetime_utc '2024-12-26 22:50:56' _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 4uo8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":601}' # _entry.id 4UO8 # _exptl.entry_id 4UO8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _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 120 _cell.entry_id 4UO8 _cell.length_a 97.289 _cell.length_b 97.289 _cell.length_c 348.267 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UO8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,J,K,L,M _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_775 -y+2,x-y+2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 97.289 168.509491 0 3 'crystal symmetry operation' 3_575 -x+y,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -97.289 168.509491 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide 5 oligosaccharide 6 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 5 ? 4 5 4 MAN MAN C1 O1 . O3 HO3 . sing 6 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 7 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 8 ? 5 4 3 MAN BMA C1 O1 . O3 HO3 . sing 9 ? 5 5 4 BMA MAN C1 O1 . O2 HO2 . sing 10 ? 6 2 1 GAL NGS C1 O1 . O4 HO4 . sing 11 ? 6 3 2 SIA GAL C2 O2 . O3 HO3 . 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 C NAG 1 C 1 NAG A 611 NAG 3 n C NAG 2 C 2 NAG A 612 NAG 4 n D NAG 1 D 1 NAG A 621 NAG 4 n D NAG 2 D 2 NAG A 622 NAG 4 n D BMA 3 D 3 BMA A 623 BMA 4 n D MAN 4 D 4 MAN A 624 MAN 4 n D MAN 5 D 5 MAN A 625 MAN 4 n E NAG 1 E 1 NAG A 631 NAG 4 n E NAG 2 E 2 NAG A 632 NAG 4 n E BMA 3 E 3 BMA A 633 BMA 4 n E MAN 4 E 4 MAN A 634 MAN 4 n E MAN 5 E 5 MAN A 637 MAN 5 n F NAG 1 F 1 NAG A 641 NAG 5 n F NAG 2 F 2 NAG A 642 NAG 5 n F BMA 3 F 3 BMA A 643 BMA 5 n F MAN 4 F 4 MAN A 644 MAN 5 n F BMA 5 F 5 BMA A 645 BMA 6 n G NGS 1 G 1 NGS A 703 NGS 6 n G GAL 2 G 2 GAL A 702 GAL 6 n G SIA 3 G 3 SIA A 701 SIA # 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 13 A CYS 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 A SG CYS 51 A CYS 52 1_555 A SG CYS 276 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 A SG CYS 63 A CYS 64 1_555 A SG CYS 75 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf4 A SG CYS 96 A CYS 97 1_555 A SG CYS 138 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf5 A SG CYS 280 A CYS 281 1_555 A SG CYS 304 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? covale ? covale1 A ND2 ASN 21 A ASN 22 1_555 H C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale2 A ND2 ASN 37 A ASN 38 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 A ND2 ASN 62 A ASN 63 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 164 A ASN 165 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale5 A ND2 ASN 284 A ASN 285 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale7 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale8 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale9 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale10 D O3 MAN . D MAN 4 1_555 D C1 MAN . D MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 E O3 BMA . E BMA 3 1_555 E C1 MAN . E MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale14 E O6 BMA . E BMA 3 1_555 E C1 MAN . E MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.201 ? covale ? covale15 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale16 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale17 F O3 BMA . F BMA 3 1_555 F C1 MAN . F MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 F O2 MAN . F MAN 4 1_555 F C1 BMA . F BMA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale19 G O4 NGS . G NGS 1 1_555 G C1 GAL . G GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale20 G O3 GAL . G GAL 2 1_555 G C2 SIA . G SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? # _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 309 n n C1 O1 NAG sing 310 n n C1 O5 NAG sing 311 n n C1 H1 NAG sing 312 n n C2 C3 NAG sing 313 n n C2 N2 NAG sing 314 n n C2 H2 NAG sing 315 n n C3 C4 NAG sing 316 n n C3 O3 NAG sing 317 n n C3 H3 NAG sing 318 n n C4 C5 NAG sing 319 n n C4 O4 NAG sing 320 n n C4 H4 NAG sing 321 n n C5 C6 NAG sing 322 n n C5 O5 NAG sing 323 n n C5 H5 NAG sing 324 n n C6 O6 NAG sing 325 n n C6 H61 NAG sing 326 n n C6 H62 NAG sing 327 n n C7 C8 NAG sing 328 n n C7 N2 NAG sing 329 n n C7 O7 NAG doub 330 n n C8 H81 NAG sing 331 n n C8 H82 NAG sing 332 n n C8 H83 NAG sing 333 n n N2 HN2 NAG sing 334 n n O1 HO1 NAG sing 335 n n O3 HO3 NAG sing 336 n n O4 HO4 NAG sing 337 n n O6 HO6 NAG sing 338 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 4UO8 _atom_sites.fract_transf_matrix[1][1] 0.010279 _atom_sites.fract_transf_matrix[1][2] 0.005934 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011869 _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] 0.002871 _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 H 7 NAG A 1 601 601 NAG NAG . I 8 SO4 A 1 1327 1327 SO4 SO4 . J 8 SO4 A 1 1328 1328 SO4 SO4 . K 8 SO4 B 1 1176 1176 SO4 SO4 . L 9 HOH A 1 2001 2001 HOH HOH . L 9 HOH A 2 2002 2002 HOH HOH . L 9 HOH A 3 2003 2003 HOH HOH . L 9 HOH A 4 2004 2004 HOH HOH . M 9 HOH B 1 2001 2001 HOH HOH . M 9 HOH B 2 2002 2002 HOH HOH . M 9 HOH B 3 2003 2003 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 . . . H 7 -20.603 92.707 38.975 1 118.29 ? C1 NAG 601 A 1 HETATM 2 C C2 NAG . . . H 7 -20.344 93.519 37.697 1 119.36 ? C2 NAG 601 A 1 HETATM 3 C C3 NAG . . . H 7 -21.302 94.717 37.636 1 119.96 ? C3 NAG 601 A 1 HETATM 4 C C4 NAG . . . H 7 -22.752 94.239 37.794 1 122.51 ? C4 NAG 601 A 1 HETATM 5 C C5 NAG . . . H 7 -22.884 93.45 39.107 1 121.2 ? C5 NAG 601 A 1 HETATM 6 C C6 NAG . . . H 7 -24.32 93.011 39.437 1 121.69 ? C6 NAG 601 A 1 HETATM 7 C C7 NAG . . . H 7 -18.116 93.885 36.6 1 110.47 ? C7 NAG 601 A 1 HETATM 8 C C8 NAG . . . H 7 -18.617 93.45 35.249 1 107.8 ? C8 NAG 601 A 1 HETATM 9 N N2 NAG . . . H 7 -18.933 93.905 37.666 1 116.11 ? N2 NAG 601 A 1 HETATM 10 O O3 NAG . . . H 7 -21.14 95.443 36.435 1 114.34 ? O3 NAG 601 A 1 HETATM 11 O O4 NAG . . . H 7 -23.642 95.341 37.751 1 123.61 ? O4 NAG 601 A 1 HETATM 12 O O5 NAG . . . H 7 -21.984 92.35 39.089 1 121.81 ? O5 NAG 601 A 1 HETATM 13 O O6 NAG . . . H 7 -24.773 91.945 38.625 1 118.19 ? O6 NAG 601 A 1 HETATM 14 O O7 NAG . . . H 7 -16.941 94.23 36.71 1 104.09 ? O7 NAG 601 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #