data_3F8U # _model_server_result.job_id 9wjHU2JtrIyk3BA1_pqBeQ _model_server_result.datetime_utc '2024-12-26 16:57:55' _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 3f8u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1233}' # _entry.id 3F8U # _exptl.entry_id 3F8U _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.613 _cell.angle_gamma 90 _cell.entry_id 3F8U _cell.length_a 74.101 _cell.length_b 72.295 _cell.length_c 200.193 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3F8U _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA tetrameric 4 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,G,H 1 1 C,D,F,I,J 2 1 A,B,E,G,H 3 1 C,D,F,I,J 3 2 # 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' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -74.101 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 F 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 33 A CYS 57 1_555 B SG CYS 115 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf2 A SG CYS 61 A CYS 85 1_555 A SG CYS 68 A CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 382 A CYS 406 1_555 A SG CYS 385 A CYS 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf4 B SG CYS 27 B CYS 7 1_555 B SG CYS 91 B CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 B SG CYS 315 B CYS 295 1_555 B SG CYS 382 B CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 C SG CYS 33 C CYS 57 1_555 D SG CYS 115 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf7 C SG CYS 61 C CYS 85 1_555 C SG CYS 68 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 C SG CYS 382 C CYS 406 1_555 C SG CYS 385 C CYS 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf9 D SG CYS 27 D CYS 7 1_555 D SG CYS 91 D CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf10 D SG CYS 315 D CYS 295 1_555 D SG CYS 382 D CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? covale ? covale1 B ND2 ASN 253 B ASN 233 1_555 E C1 NAG . B NAG 1233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale2 D ND2 ASN 253 D ASN 233 1_555 F C1 NAG . D NAG 1233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? # _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 3F8U _atom_sites.fract_transf_matrix[1][1] 0.013495 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001089 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013832 _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] 0.005011 _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 E 3 NAG B 1 1233 1233 NAG NAG . F 3 NAG D 1 1233 1233 NAG NAG . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2007 2007 HOH HOH . G 4 HOH A 3 2009 2009 HOH HOH . G 4 HOH A 4 2010 2010 HOH HOH . G 4 HOH A 5 2012 2012 HOH HOH . G 4 HOH A 6 2015 2015 HOH HOH . G 4 HOH A 7 2017 2017 HOH HOH . G 4 HOH A 8 2018 2018 HOH HOH . G 4 HOH A 9 2023 2023 HOH HOH . G 4 HOH A 10 2024 2024 HOH HOH . G 4 HOH A 11 2032 2032 HOH HOH . G 4 HOH A 12 2033 2033 HOH HOH . G 4 HOH A 13 2038 2038 HOH HOH . G 4 HOH A 14 2041 2041 HOH HOH . G 4 HOH A 15 2044 2044 HOH HOH . G 4 HOH A 16 2046 2046 HOH HOH . G 4 HOH A 17 2054 2054 HOH HOH . G 4 HOH A 18 2055 2055 HOH HOH . G 4 HOH A 19 2056 2056 HOH HOH . G 4 HOH A 20 2057 2057 HOH HOH . G 4 HOH A 21 2062 2062 HOH HOH . G 4 HOH A 22 2066 2066 HOH HOH . G 4 HOH A 23 2070 2070 HOH HOH . G 4 HOH A 24 2071 2071 HOH HOH . G 4 HOH A 25 2076 2076 HOH HOH . G 4 HOH A 26 2077 2077 HOH HOH . G 4 HOH A 27 2081 2081 HOH HOH . G 4 HOH A 28 2089 2089 HOH HOH . G 4 HOH A 29 2095 2095 HOH HOH . G 4 HOH A 30 2097 2097 HOH HOH . G 4 HOH A 31 2100 2100 HOH HOH . G 4 HOH A 32 2101 2101 HOH HOH . G 4 HOH A 33 2103 2103 HOH HOH . G 4 HOH A 34 2107 2107 HOH HOH . G 4 HOH A 35 2111 2111 HOH HOH . G 4 HOH A 36 2112 2112 HOH HOH . H 4 HOH B 1 2002 2002 HOH HOH . H 4 HOH B 2 2003 2003 HOH HOH . H 4 HOH B 3 2004 2004 HOH HOH . H 4 HOH B 4 2005 2005 HOH HOH . H 4 HOH B 5 2006 2006 HOH HOH . H 4 HOH B 6 2008 2008 HOH HOH . H 4 HOH B 7 2013 2013 HOH HOH . H 4 HOH B 8 2014 2014 HOH HOH . H 4 HOH B 9 2016 2016 HOH HOH . H 4 HOH B 10 2019 2019 HOH HOH . H 4 HOH B 11 2020 2020 HOH HOH . H 4 HOH B 12 2022 2022 HOH HOH . H 4 HOH B 13 2027 2027 HOH HOH . H 4 HOH B 14 2030 2030 HOH HOH . H 4 HOH B 15 2034 2034 HOH HOH . H 4 HOH B 16 2036 2036 HOH HOH . H 4 HOH B 17 2037 2037 HOH HOH . H 4 HOH B 18 2039 2039 HOH HOH . H 4 HOH B 19 2043 2043 HOH HOH . H 4 HOH B 20 2047 2047 HOH HOH . H 4 HOH B 21 2048 2048 HOH HOH . H 4 HOH B 22 2049 2049 HOH HOH . H 4 HOH B 23 2050 2050 HOH HOH . H 4 HOH B 24 2052 2052 HOH HOH . H 4 HOH B 25 2053 2053 HOH HOH . H 4 HOH B 26 2059 2059 HOH HOH . H 4 HOH B 27 2063 2063 HOH HOH . H 4 HOH B 28 2064 2064 HOH HOH . H 4 HOH B 29 2067 2067 HOH HOH . H 4 HOH B 30 2069 2069 HOH HOH . H 4 HOH B 31 2072 2072 HOH HOH . H 4 HOH B 32 2073 2073 HOH HOH . H 4 HOH B 33 2074 2074 HOH HOH . H 4 HOH B 34 2075 2075 HOH HOH . H 4 HOH B 35 2079 2079 HOH HOH . H 4 HOH B 36 2080 2080 HOH HOH . H 4 HOH B 37 2082 2082 HOH HOH . H 4 HOH B 38 2083 2083 HOH HOH . H 4 HOH B 39 2085 2085 HOH HOH . H 4 HOH B 40 2086 2086 HOH HOH . H 4 HOH B 41 2091 2091 HOH HOH . H 4 HOH B 42 2094 2094 HOH HOH . H 4 HOH B 43 2096 2096 HOH HOH . H 4 HOH B 44 2098 2098 HOH HOH . H 4 HOH B 45 2102 2102 HOH HOH . H 4 HOH B 46 2104 2104 HOH HOH . H 4 HOH B 47 2105 2105 HOH HOH . H 4 HOH B 48 2106 2106 HOH HOH . H 4 HOH B 49 2110 2110 HOH HOH . I 4 HOH C 1 2031 2031 HOH HOH . I 4 HOH C 2 2035 2035 HOH HOH . I 4 HOH C 3 2060 2060 HOH HOH . I 4 HOH C 4 2065 2065 HOH HOH . I 4 HOH C 5 2092 2092 HOH HOH . I 4 HOH C 6 2108 2108 HOH HOH . I 4 HOH C 7 2109 2109 HOH HOH . J 4 HOH D 1 2011 2011 HOH HOH . J 4 HOH D 2 2021 2021 HOH HOH . J 4 HOH D 3 2025 2025 HOH HOH . J 4 HOH D 4 2026 2026 HOH HOH . J 4 HOH D 5 2028 2028 HOH HOH . J 4 HOH D 6 2029 2029 HOH HOH . J 4 HOH D 7 2040 2040 HOH HOH . J 4 HOH D 8 2042 2042 HOH HOH . J 4 HOH D 9 2045 2045 HOH HOH . J 4 HOH D 10 2051 2051 HOH HOH . J 4 HOH D 11 2058 2058 HOH HOH . J 4 HOH D 12 2061 2061 HOH HOH . J 4 HOH D 13 2068 2068 HOH HOH . J 4 HOH D 14 2078 2078 HOH HOH . J 4 HOH D 15 2084 2084 HOH HOH . J 4 HOH D 16 2087 2087 HOH HOH . J 4 HOH D 17 2088 2088 HOH HOH . J 4 HOH D 18 2090 2090 HOH HOH . J 4 HOH D 19 2093 2093 HOH HOH . J 4 HOH D 20 2099 2099 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 . . . F 3 81.622 97.548 27.368 1 59.34 ? C1 NAG 1233 D 1 HETATM 2 C C2 NAG . . . F 3 82.635 98.279 28.232 1 61.99 ? C2 NAG 1233 D 1 HETATM 3 C C3 NAG . . . F 3 83.783 98.839 27.38 1 61.04 ? C3 NAG 1233 D 1 HETATM 4 C C4 NAG . . . F 3 84.432 97.677 26.644 1 61.14 ? C4 NAG 1233 D 1 HETATM 5 C C5 NAG . . . F 3 83.36 96.985 25.786 1 60.62 ? C5 NAG 1233 D 1 HETATM 6 C C6 NAG . . . F 3 83.906 95.794 25.028 1 59.46 ? C6 NAG 1233 D 1 HETATM 7 C C7 NAG . . . F 3 82.04 99.299 30.311 1 65.14 ? C7 NAG 1233 D 1 HETATM 8 C C8 NAG . . . F 3 82.883 100.368 30.986 1 65.34 ? C8 NAG 1233 D 1 HETATM 9 N N2 NAG . . . F 3 81.965 99.319 28.985 1 63.7 ? N2 NAG 1233 D 1 HETATM 10 O O3 NAG . . . F 3 84.743 99.468 28.214 1 61.24 ? O3 NAG 1233 D 1 HETATM 11 O O4 NAG . . . F 3 85.521 98.139 25.845 1 62.41 ? O4 NAG 1233 D 1 HETATM 12 O O5 NAG . . . F 3 82.275 96.499 26.627 1 60.43 ? O5 NAG 1233 D 1 HETATM 13 O O6 NAG . . . F 3 84.821 95.054 25.824 1 59.65 ? O6 NAG 1233 D 1 HETATM 14 O O7 NAG . . . F 3 81.484 98.443 30.989 1 67.77 ? O7 NAG 1233 D 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 56 _model_server_stats.create_model_time_ms 102 _model_server_stats.query_time_ms 443 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #