data_3S97 # _model_server_result.job_id FI5qEpEZA3ApzkDvlwsPRA _model_server_result.datetime_utc '2024-11-04 23:19:50' _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 3s97 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":258}' # _entry.id 3S97 # _exptl.entry_id 3S97 _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.37 _cell.angle_gamma 90 _cell.entry_id 3S97 _cell.length_a 334.108 _cell.length_b 45.957 _cell.length_c 78.947 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3S97 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,I,K 1 1 B,D,G,H,J,L 2 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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H 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 27 A CYS 56 1_555 A SG CYS 211 A CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 104 A CYS 133 1_555 A SG CYS 235 A CYS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 B SG CYS 27 B CYS 56 1_555 B SG CYS 211 B CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf4 B SG CYS 104 B CYS 133 1_555 B SG CYS 235 B CYS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 C SG CYS 30 C CYS 158 1_555 C SG CYS 83 C CYS 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf6 C SG CYS 135 C CYS 263 1_555 C SG CYS 182 C CYS 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf7 D SG CYS 30 D CYS 158 1_555 D SG CYS 83 D CYS 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 D SG CYS 135 D CYS 263 1_555 D SG CYS 182 D CYS 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? covale ? covale1 C ND2 ASN 80 C ASN 208 1_555 E C1 NAG . C NAG 208 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 C ND2 ASN 130 C ASN 258 1_555 F C1 NAG . C NAG 258 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.42 ? covale ? covale3 D ND2 ASN 80 D ASN 208 1_555 G C1 NAG . D NAG 208 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 D ND2 ASN 130 D ASN 258 1_555 H C1 NAG . D NAG 258 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.457 ? # _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 3S97 _atom_sites.fract_transf_matrix[1][1] 0.002993 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000602 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021759 _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] 0.01292 _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 C 1 208 208 NAG NAG A F 3 NAG C 1 258 258 NAG NAG A G 3 NAG D 1 208 208 NAG NAG A H 3 NAG D 1 258 258 NAG NAG A I 4 HOH A 1 1 1 HOH HOH . I 4 HOH A 2 4 4 HOH HOH . I 4 HOH A 3 7 7 HOH HOH . I 4 HOH A 4 14 14 HOH HOH . I 4 HOH A 5 15 15 HOH HOH . I 4 HOH A 6 16 16 HOH HOH . I 4 HOH A 7 18 18 HOH HOH . I 4 HOH A 8 21 21 HOH HOH . I 4 HOH A 9 303 30 HOH HOH . I 4 HOH A 10 304 32 HOH HOH . I 4 HOH A 11 305 35 HOH HOH . I 4 HOH A 12 306 38 HOH HOH . I 4 HOH A 13 307 45 HOH HOH . I 4 HOH A 14 308 46 HOH HOH . I 4 HOH A 15 309 47 HOH HOH . I 4 HOH A 16 310 49 HOH HOH . I 4 HOH A 17 311 51 HOH HOH . I 4 HOH A 18 312 52 HOH HOH . I 4 HOH A 19 313 55 HOH HOH . I 4 HOH A 20 314 57 HOH HOH . I 4 HOH A 21 315 61 HOH HOH . I 4 HOH A 22 316 62 HOH HOH . I 4 HOH A 23 317 63 HOH HOH . I 4 HOH A 24 318 67 HOH HOH . I 4 HOH A 25 319 68 HOH HOH . I 4 HOH A 26 320 70 HOH HOH . I 4 HOH A 27 321 71 HOH HOH . I 4 HOH A 28 322 72 HOH HOH . I 4 HOH A 29 323 75 HOH HOH . I 4 HOH A 30 324 76 HOH HOH . I 4 HOH A 31 325 95 HOH HOH . I 4 HOH A 32 326 118 HOH HOH . I 4 HOH A 33 327 119 HOH HOH . I 4 HOH A 34 328 123 HOH HOH . I 4 HOH A 35 329 126 HOH HOH . I 4 HOH A 36 330 129 HOH HOH . I 4 HOH A 37 331 133 HOH HOH . I 4 HOH A 38 332 136 HOH HOH . I 4 HOH A 39 333 139 HOH HOH . I 4 HOH A 40 334 141 HOH HOH . I 4 HOH A 41 335 143 HOH HOH . I 4 HOH A 42 336 145 HOH HOH . I 4 HOH A 43 337 153 HOH HOH . I 4 HOH A 44 338 159 HOH HOH . I 4 HOH A 45 339 160 HOH HOH . I 4 HOH A 46 340 164 HOH HOH . J 4 HOH B 1 2 2 HOH HOH . J 4 HOH B 2 8 8 HOH HOH . J 4 HOH B 3 9 9 HOH HOH . J 4 HOH B 4 12 12 HOH HOH . J 4 HOH B 5 17 17 HOH HOH . J 4 HOH B 6 19 19 HOH HOH . J 4 HOH B 7 23 23 HOH HOH . J 4 HOH B 8 25 25 HOH HOH . J 4 HOH B 9 28 28 HOH HOH . J 4 HOH B 10 29 29 HOH HOH . J 4 HOH B 11 303 31 HOH HOH . J 4 HOH B 12 304 33 HOH HOH . J 4 HOH B 13 305 34 HOH HOH . J 4 HOH B 14 306 37 HOH HOH . J 4 HOH B 15 307 39 HOH HOH . J 4 HOH B 16 308 42 HOH HOH . J 4 HOH B 17 309 43 HOH HOH . J 4 HOH B 18 310 48 HOH HOH . J 4 HOH B 19 311 54 HOH HOH . J 4 HOH B 20 312 56 HOH HOH . J 4 HOH B 21 313 58 HOH HOH . J 4 HOH B 22 314 64 HOH HOH . J 4 HOH B 23 315 65 HOH HOH . J 4 HOH B 24 316 66 HOH HOH . J 4 HOH B 25 317 74 HOH HOH . J 4 HOH B 26 318 77 HOH HOH . J 4 HOH B 27 319 78 HOH HOH . J 4 HOH B 28 320 79 HOH HOH . J 4 HOH B 29 321 81 HOH HOH . J 4 HOH B 30 322 82 HOH HOH . J 4 HOH B 31 323 86 HOH HOH . J 4 HOH B 32 324 91 HOH HOH . J 4 HOH B 33 325 94 HOH HOH . J 4 HOH B 34 326 97 HOH HOH . J 4 HOH B 35 327 98 HOH HOH . J 4 HOH B 36 328 99 HOH HOH . J 4 HOH B 37 329 102 HOH HOH . J 4 HOH B 38 330 104 HOH HOH . J 4 HOH B 39 331 106 HOH HOH . J 4 HOH B 40 332 108 HOH HOH . J 4 HOH B 41 333 110 HOH HOH . J 4 HOH B 42 334 111 HOH HOH . J 4 HOH B 43 335 114 HOH HOH . J 4 HOH B 44 336 115 HOH HOH . J 4 HOH B 45 337 116 HOH HOH . J 4 HOH B 46 338 120 HOH HOH . J 4 HOH B 47 339 121 HOH HOH . J 4 HOH B 48 340 122 HOH HOH . J 4 HOH B 49 341 137 HOH HOH . J 4 HOH B 50 342 144 HOH HOH . J 4 HOH B 51 343 146 HOH HOH . J 4 HOH B 52 344 147 HOH HOH . J 4 HOH B 53 345 148 HOH HOH . J 4 HOH B 54 346 149 HOH HOH . J 4 HOH B 55 347 150 HOH HOH . J 4 HOH B 56 348 152 HOH HOH . J 4 HOH B 57 349 154 HOH HOH . J 4 HOH B 58 350 161 HOH HOH . J 4 HOH B 59 351 163 HOH HOH . J 4 HOH B 60 352 165 HOH HOH . J 4 HOH B 61 353 166 HOH HOH . K 4 HOH C 1 3 3 HOH HOH . K 4 HOH C 2 5 5 HOH HOH . K 4 HOH C 3 6 6 HOH HOH . K 4 HOH C 4 10 10 HOH HOH . K 4 HOH C 5 11 11 HOH HOH . K 4 HOH C 6 22 22 HOH HOH . K 4 HOH C 7 24 24 HOH HOH . K 4 HOH C 8 26 26 HOH HOH . K 4 HOH C 9 27 27 HOH HOH . K 4 HOH C 10 36 36 HOH HOH . K 4 HOH C 11 40 40 HOH HOH . K 4 HOH C 12 41 41 HOH HOH . K 4 HOH C 13 50 50 HOH HOH . K 4 HOH C 14 53 53 HOH HOH . K 4 HOH C 15 60 60 HOH HOH . K 4 HOH C 16 69 69 HOH HOH . K 4 HOH C 17 73 73 HOH HOH . K 4 HOH C 18 83 83 HOH HOH . K 4 HOH C 19 84 84 HOH HOH . K 4 HOH C 20 85 85 HOH HOH . K 4 HOH C 21 89 89 HOH HOH . K 4 HOH C 22 90 90 HOH HOH . K 4 HOH C 23 93 93 HOH HOH . K 4 HOH C 24 96 96 HOH HOH . K 4 HOH C 25 100 100 HOH HOH . K 4 HOH C 26 103 103 HOH HOH . K 4 HOH C 27 107 107 HOH HOH . K 4 HOH C 28 109 109 HOH HOH . K 4 HOH C 29 113 113 HOH HOH . K 4 HOH C 30 117 117 HOH HOH . K 4 HOH C 31 124 124 HOH HOH . K 4 HOH C 32 125 125 HOH HOH . K 4 HOH C 33 127 127 HOH HOH . K 4 HOH C 34 128 128 HOH HOH . K 4 HOH C 35 330 135 HOH HOH . K 4 HOH C 36 331 138 HOH HOH . K 4 HOH C 37 332 140 HOH HOH . K 4 HOH C 38 333 151 HOH HOH . K 4 HOH C 39 334 155 HOH HOH . K 4 HOH C 40 335 157 HOH HOH . K 4 HOH C 41 336 158 HOH HOH . K 4 HOH C 42 337 162 HOH HOH . L 4 HOH D 1 13 13 HOH HOH . L 4 HOH D 2 20 20 HOH HOH . L 4 HOH D 3 44 44 HOH HOH . L 4 HOH D 4 59 59 HOH HOH . L 4 HOH D 5 80 80 HOH HOH . L 4 HOH D 6 87 87 HOH HOH . L 4 HOH D 7 88 88 HOH HOH . L 4 HOH D 8 92 92 HOH HOH . L 4 HOH D 9 101 101 HOH HOH . L 4 HOH D 10 105 105 HOH HOH . L 4 HOH D 11 112 112 HOH HOH . L 4 HOH D 12 330 130 HOH HOH . L 4 HOH D 13 331 131 HOH HOH . L 4 HOH D 14 332 132 HOH HOH . L 4 HOH D 15 333 134 HOH HOH . L 4 HOH D 16 334 142 HOH HOH . L 4 HOH D 17 335 156 HOH HOH . L 4 HOH D 18 336 167 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 . . A H 3 13.918 -14.602 -36.435 1 95.88 ? C1 NAG 258 D 1 HETATM 2 C C2 NAG . . A H 3 13.303 -13.846 -37.663 1 103.29 ? C2 NAG 258 D 1 HETATM 3 C C3 NAG . . A H 3 13.988 -14.239 -38.971 1 108.98 ? C3 NAG 258 D 1 HETATM 4 C C4 NAG . . A H 3 15.459 -13.995 -38.877 1 109.8 ? C4 NAG 258 D 1 HETATM 5 C C5 NAG . . A H 3 15.968 -14.951 -37.808 1 104.96 ? C5 NAG 258 D 1 HETATM 6 C C6 NAG . . A H 3 17.481 -14.902 -37.636 1 105.02 ? C6 NAG 258 D 1 HETATM 7 C C7 NAG . . A H 3 10.875 -13.501 -37.239 1 85.8 ? C7 NAG 258 D 1 HETATM 8 C C8 NAG . . A H 3 9.451 -13.934 -37.445 1 67.21 ? C8 NAG 258 D 1 HETATM 9 N N2 NAG . . A H 3 11.863 -14.044 -37.991 1 95.1 ? N2 NAG 258 D 1 HETATM 10 O O3 NAG . . A H 3 13.54 -13.455 -40.077 1 109.03 ? O3 NAG 258 D 1 HETATM 11 O O4 NAG . . A H 3 15.954 -14.194 -40.226 1 111.23 ? O4 NAG 258 D 1 HETATM 12 O O5 NAG . . A H 3 15.364 -14.55 -36.578 1 101.02 ? O5 NAG 258 D 1 HETATM 13 O O6 NAG . . A H 3 17.717 -15.202 -36.241 1 104.65 ? O6 NAG 258 D 1 HETATM 14 O O7 NAG . . A H 3 11.111 -12.655 -36.332 1 94.52 ? O7 NAG 258 D 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #