data_8I5X # _model_server_result.job_id OJ17ZbDSDWao4sezpxq5pg _model_server_result.datetime_utc '2024-12-05 00:56:25' _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 8i5x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"GA","auth_seq_id":302}' # _entry.id 8I5X # _exptl.entry_id 8I5X _exptl.method 'ELECTRON MICROSCOPY' # _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 5 _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 8I5X _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8I5X _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA _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 ? _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 G N N ? 5 M N N ? 5 FA N N ? 5 GA N N ? 5 HA N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 4 n D NAG 1 D 1 NAG A 2007 NAG 4 n D NAG 2 D 2 NAG A 2008 NAG 4 n E NAG 1 E 1 NAG A 2009 NAG 4 n E NAG 2 E 2 NAG F 2004 NAG 4 n F NAG 1 F 1 NAG D 1 NAG 4 n F NAG 2 F 2 NAG D 2 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 315 A CYS 275 1_555 A SG CYS 364 A CYS 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 355 A CYS 315 1_555 A SG CYS 370 A CYS 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 935 A CYS 895 1_555 C SG CYS 55 C CYS 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 A SG CYS 937 A CYS 897 1_555 A SG CYS 943 A CYS 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 975 A CYS 935 1_555 A SG CYS 984 A CYS 944 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 A SG CYS 1390 A CYS 1350 1_555 A SG CYS 1410 A CYS 1370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 1755 A CYS 1715 1_555 A SG CYS 1770 A CYS 1730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 21 B CYS 21 1_555 B SG CYS 43 B CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 B SG CYS 40 B CYS 40 1_555 B SG CYS 121 B CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 C SG CYS 50 C CYS 50 1_555 C SG CYS 127 C CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 C SG CYS 72 C CYS 72 1_555 C SG CYS 75 C CYS 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 323 A ASN 283 1_555 G C1 NAG . A NAG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale2 A ND2 ASN 1392 A ASN 1352 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 1406 A ASN 1366 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 1415 A ASN 1375 1_555 M C1 NAG . A NAG 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale5 B ND2 ASN 93 B ASN 93 1_555 FA C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 B ND2 ASN 110 B ASN 110 1_555 GA C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B ND2 ASN 114 B ASN 114 1_555 HA C1 NAG . B NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale8 B ND2 ASN 135 B ASN 135 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale11 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 425 n n C1 O1 NAG sing 426 n n C1 O5 NAG sing 427 n n C1 H1 NAG sing 428 n n C2 C3 NAG sing 429 n n C2 N2 NAG sing 430 n n C2 H2 NAG sing 431 n n C3 C4 NAG sing 432 n n C3 O3 NAG sing 433 n n C3 H3 NAG sing 434 n n C4 C5 NAG sing 435 n n C4 O4 NAG sing 436 n n C4 H4 NAG sing 437 n n C5 C6 NAG sing 438 n n C5 O5 NAG sing 439 n n C5 H5 NAG sing 440 n n C6 O6 NAG sing 441 n n C6 H61 NAG sing 442 n n C6 H62 NAG sing 443 n n C7 C8 NAG sing 444 n n C7 N2 NAG sing 445 n n C7 O7 NAG doub 446 n n C8 H81 NAG sing 447 n n C8 H82 NAG sing 448 n n C8 H83 NAG sing 449 n n N2 HN2 NAG sing 450 n n O1 HO1 NAG sing 451 n n O3 HO3 NAG sing 452 n n O4 HO4 NAG sing 453 n n O6 HO6 NAG sing 454 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 8I5X _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 5 NAG A 1 2001 2006 NAG NAG . H 6 P5S A 1 2002 2012 P5S P5S . I 7 Y01 A 1 2003 2015 Y01 Y01 . J 7 Y01 A 1 2004 2016 Y01 Y01 . K 7 Y01 A 1 2005 2017 Y01 Y01 . L 8 9Z9 A 1 2006 2019 9Z9 9Z9 . M 5 NAG A 1 2007 2021 NAG NAG . N 7 Y01 A 1 2008 2022 Y01 Y01 . O 9 T7F A 1 2009 2024 T7F L3X . P 10 LPE A 1 2010 2010 LPE LPE . Q 11 PCW A 1 2011 2013 PCW PCW . R 10 LPE A 1 2012 2014 LPE LPE . S 10 LPE A 1 2013 2015 LPE LPE . T 11 PCW A 1 2014 2016 PCW PCW . U 11 PCW A 1 2015 2018 PCW PCW . V 10 LPE A 1 2016 2019 LPE LPE . W 10 LPE A 1 2017 2020 LPE LPE . X 10 LPE A 1 2018 2021 LPE LPE . Y 10 LPE A 1 2019 2022 LPE LPE . Z 10 LPE A 1 2020 2023 LPE LPE . AA 10 LPE A 1 2021 2024 LPE LPE . BA 10 LPE A 1 2022 2031 LPE LPE . CA 11 PCW A 1 2023 2035 PCW PCW . DA 11 PCW A 1 2024 2036 PCW PCW . EA 7 Y01 A 1 2025 2040 Y01 Y01 . FA 5 NAG B 1 301 301 NAG NAG . GA 5 NAG B 1 302 302 NAG NAG . HA 5 NAG B 1 303 303 NAG NAG . IA 10 LPE B 1 304 305 LPE LPE . # 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 . . . GA 5 133.177 93.931 187.1 1 64 ? C1 NAG 302 B 1 HETATM 2 C C2 NAG . . . GA 5 133.566 92.672 186.326 1 62.87 ? C2 NAG 302 B 1 HETATM 3 C C3 NAG . . . GA 5 132.599 91.537 186.642 1 64.88 ? C3 NAG 302 B 1 HETATM 4 C C4 NAG . . . GA 5 132.517 91.315 188.146 1 65.08 ? C4 NAG 302 B 1 HETATM 5 C C5 NAG . . . GA 5 132.17 92.622 188.853 1 64.58 ? C5 NAG 302 B 1 HETATM 6 C C6 NAG . . . GA 5 132.193 92.501 190.359 1 65.23 ? C6 NAG 302 B 1 HETATM 7 C C7 NAG . . . GA 5 134.737 93.209 184.239 1 62.59 ? C7 NAG 302 B 1 HETATM 8 C C8 NAG . . . GA 5 134.599 93.448 182.765 1 62.98 ? C8 NAG 302 B 1 HETATM 9 N N2 NAG . . . GA 5 133.607 92.928 184.896 1 63.8 ? N2 NAG 302 B 1 HETATM 10 O O3 NAG . . . GA 5 133.039 90.347 185.998 1 65.75 ? O3 NAG 302 B 1 HETATM 11 O O4 NAG . . . GA 5 131.523 90.34 188.442 1 64.01 ? O4 NAG 302 B 1 HETATM 12 O O5 NAG . . . GA 5 133.123 93.637 188.505 1 63.45 ? O5 NAG 302 B 1 HETATM 13 O O6 NAG . . . GA 5 132.996 91.407 190.78 1 65.64 ? O6 NAG 302 B 1 HETATM 14 O O7 NAG . . . GA 5 135.822 93.269 184.808 1 62.78 ? O7 NAG 302 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #