data_3SH3 # _model_server_result.job_id mDZ55xTXXKMS_YRXRkMSkw _model_server_result.datetime_utc '2024-12-04 12:19:19' _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 3sh3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":242}' # _entry.id 3SH3 # _exptl.entry_id 3SH3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 408.629 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' _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 90 _cell.entry_id 3SH3 _cell.length_a 58.82 _cell.length_b 66.873 _cell.length_c 107.345 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SH3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -58.82 0 0 3 'crystal symmetry operation' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -58.82 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 A OE2 GLU 8 A GLU 8 1_555 B MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? metalc ? metalc2 A OD2 ASP 10 A ASP 10 1_555 B MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc3 A OD2 ASP 10 A ASP 10 1_555 C CA CA . A CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc4 A OD1 ASP 10 A ASP 10 1_555 C CA CA . A CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.855 ? metalc ? metalc5 A O TYR 12 A TYR 12 1_555 C CA CA . A CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 C CA CA . A CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc7 A OD2 ASP 19 A ASP 19 1_555 B MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc8 A OD1 ASP 19 A ASP 19 1_555 C CA CA . A CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 B MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc10 B MN MN . A MN 238 1_555 G O HOH . A HOH 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc11 B MN MN . A MN 238 1_555 G O HOH . A HOH 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc12 C CA CA . A CA 239 1_555 G O HOH . A HOH 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc13 C CA CA . A CA 239 1_555 G O HOH . A HOH 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? # _chem_comp.formula 'C14 H15 Br Cl N O6' _chem_comp.formula_weight 408.629 _chem_comp.id XMM _chem_comp.mon_nstd_flag n _chem_comp.name '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms '(2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLORO-1H-INDOL-3-YLOXY)-TETRAHYDRO-6-(HYDROXYMETHYL)-2H-PYRAN-3,4,5-TRIOL;(5-BROMO-4-CHLORO-3-INDOLYL)-Alpha-D-MANNOSE;5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannoside;5-bromo-4-chloro-1H-indol-3-yl D-mannoside;5-bromo-4-chloro-1H-indol-3-yl mannoside' # 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 O2 C2 XMM sing 376 n n O2 HO2 XMM sing 377 n n C2 C3 XMM sing 378 n n C2 C1 XMM sing 379 n n C2 H2 XMM sing 380 n n C3 O3 XMM sing 381 n n C3 C4 XMM sing 382 n n C3 H3 XMM sing 383 n n O3 HO3 XMM sing 384 n n C4 O4 XMM sing 385 n n C4 C5 XMM sing 386 n n C4 H4 XMM sing 387 n n O4 HO4 XMM sing 388 n n C5 O5 XMM sing 389 n n C5 C6 XMM sing 390 n n C5 H5 XMM sing 391 n n O5 C1 XMM sing 392 n n C6 O6 XMM sing 393 n n C6 H61 XMM sing 394 n n C6 H62 XMM sing 395 n n O6 HO6 XMM sing 396 n n C1 O1 XMM sing 397 n n C1 H1 XMM sing 398 n n O1 C7 XMM sing 399 n n C7 C8 XMM sing 400 n y C7 C11 XMM doub 401 n y C8 C9 XMM doub 402 n y C8 C10 XMM sing 403 n y C9 N1 XMM sing 404 n y C9 C12 XMM sing 405 n y N1 C11 XMM sing 406 n y N1 HN1 XMM sing 407 n n C11 H11 XMM sing 408 n n C10 CL XMM sing 409 n n C10 C13 XMM doub 410 n y C13 BR XMM sing 411 n n C13 C14 XMM sing 412 n y C14 C12 XMM doub 413 n y C14 H14 XMM sing 414 n n C12 H12 XMM sing 415 n n # _atom_sites.entry_id 3SH3 _atom_sites.fract_transf_matrix[1][1] 0.017001 _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] 0.014954 _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] 0.009316 _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 B 2 MN A 1 238 238 MN MN . C 3 CA A 1 239 239 CA CA . D 4 XMM A 1 242 242 XMM XMM . E 5 CL A 1 240 1 CL CL . F 6 A3B A 1 241 238 A3B A3B . G 7 HOH A 1 243 1 HOH HOH . G 7 HOH A 2 244 2 HOH HOH . G 7 HOH A 3 245 3 HOH HOH . G 7 HOH A 4 246 4 HOH HOH . G 7 HOH A 5 247 5 HOH HOH . G 7 HOH A 6 248 6 HOH HOH . G 7 HOH A 7 249 7 HOH HOH . G 7 HOH A 8 250 8 HOH HOH . G 7 HOH A 9 251 9 HOH HOH . G 7 HOH A 10 252 10 HOH HOH . G 7 HOH A 11 253 11 HOH HOH . G 7 HOH A 12 254 12 HOH HOH . G 7 HOH A 13 255 13 HOH HOH . G 7 HOH A 14 256 14 HOH HOH . G 7 HOH A 15 257 15 HOH HOH . G 7 HOH A 16 258 16 HOH HOH . G 7 HOH A 17 259 17 HOH HOH . G 7 HOH A 18 260 18 HOH HOH . G 7 HOH A 19 261 19 HOH HOH . G 7 HOH A 20 262 20 HOH HOH . G 7 HOH A 21 263 21 HOH HOH . G 7 HOH A 22 264 22 HOH HOH . G 7 HOH A 23 265 23 HOH HOH . G 7 HOH A 24 266 24 HOH HOH . G 7 HOH A 25 267 25 HOH HOH . G 7 HOH A 26 268 26 HOH HOH . G 7 HOH A 27 269 27 HOH HOH . G 7 HOH A 28 270 28 HOH HOH . G 7 HOH A 29 271 29 HOH HOH . G 7 HOH A 30 272 30 HOH HOH . G 7 HOH A 31 273 31 HOH HOH . G 7 HOH A 32 274 32 HOH HOH . G 7 HOH A 33 275 34 HOH HOH . G 7 HOH A 34 276 35 HOH HOH . G 7 HOH A 35 277 36 HOH HOH . G 7 HOH A 36 278 38 HOH HOH . G 7 HOH A 37 279 39 HOH HOH . G 7 HOH A 38 280 40 HOH HOH . G 7 HOH A 39 281 41 HOH HOH . G 7 HOH A 40 282 42 HOH HOH . G 7 HOH A 41 283 43 HOH HOH . G 7 HOH A 42 284 44 HOH HOH . G 7 HOH A 43 285 45 HOH HOH . G 7 HOH A 44 286 46 HOH HOH . G 7 HOH A 45 287 47 HOH HOH . G 7 HOH A 46 288 48 HOH HOH . G 7 HOH A 47 289 49 HOH HOH . G 7 HOH A 48 290 50 HOH HOH . G 7 HOH A 49 291 51 HOH HOH . G 7 HOH A 50 292 53 HOH HOH . G 7 HOH A 51 293 54 HOH HOH . G 7 HOH A 52 294 55 HOH HOH . G 7 HOH A 53 295 56 HOH HOH . G 7 HOH A 54 296 57 HOH HOH . G 7 HOH A 55 297 58 HOH HOH . G 7 HOH A 56 298 59 HOH HOH . G 7 HOH A 57 299 60 HOH HOH . G 7 HOH A 58 300 62 HOH HOH . G 7 HOH A 59 301 63 HOH HOH . G 7 HOH A 60 302 64 HOH HOH . G 7 HOH A 61 303 65 HOH HOH . G 7 HOH A 62 304 66 HOH HOH . G 7 HOH A 63 305 67 HOH HOH . G 7 HOH A 64 306 68 HOH HOH . G 7 HOH A 65 307 69 HOH HOH . G 7 HOH A 66 308 70 HOH HOH . G 7 HOH A 67 309 71 HOH HOH . G 7 HOH A 68 310 72 HOH HOH . G 7 HOH A 69 311 73 HOH HOH . G 7 HOH A 70 312 74 HOH HOH . G 7 HOH A 71 313 75 HOH HOH . G 7 HOH A 72 314 77 HOH HOH . G 7 HOH A 73 315 79 HOH HOH . G 7 HOH A 74 316 81 HOH HOH . G 7 HOH A 75 317 82 HOH HOH . G 7 HOH A 76 318 83 HOH HOH . G 7 HOH A 77 319 84 HOH HOH . G 7 HOH A 78 320 85 HOH HOH . G 7 HOH A 79 321 86 HOH HOH . G 7 HOH A 80 322 88 HOH HOH . G 7 HOH A 81 323 89 HOH HOH . G 7 HOH A 82 324 91 HOH HOH . G 7 HOH A 83 325 1 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 O O2 XMM . . . D 4 -3.718 -22.911 21.601 1 21.69 ? O2 XMM 242 A 1 HETATM 2 C C2 XMM . . . D 4 -4.15 -23.072 22.943 1 22.52 ? C2 XMM 242 A 1 HETATM 3 C C3 XMM . . . D 4 -5.236 -22.217 23.253 1 20.33 ? C3 XMM 242 A 1 HETATM 4 O O3 XMM . . . D 4 -4.97 -20.861 22.961 1 20.26 ? O3 XMM 242 A 1 HETATM 5 C C4 XMM . . . D 4 -6.49 -22.693 22.683 1 21.13 ? C4 XMM 242 A 1 HETATM 6 O O4 XMM . . . D 4 -7.588 -21.89 23.072 1 20.78 ? O4 XMM 242 A 1 HETATM 7 C C5 XMM . . . D 4 -6.713 -24.113 22.805 1 21.2 ? C5 XMM 242 A 1 HETATM 8 O O5 XMM . . . D 4 -5.579 -24.917 22.69 1 21.29 ? O5 XMM 242 A 1 HETATM 9 C C6 XMM . . . D 4 -7.881 -24.619 21.948 1 20.81 ? C6 XMM 242 A 1 HETATM 10 O O6 XMM . . . D 4 -7.636 -24.794 20.58 1 21.97 ? O6 XMM 242 A 1 HETATM 11 C C1 XMM . . . D 4 -4.423 -24.41 23.315 1 22.67 ? C1 XMM 242 A 1 HETATM 12 O O1 XMM . . . D 4 -4.505 -24.545 24.732 1 24.26 ? O1 XMM 242 A 1 HETATM 13 C C7 XMM . . . D 4 -5.006 -25.837 25.035 1 23.9 ? C7 XMM 242 A 1 HETATM 14 C C8 XMM . . . D 4 -4.212 -26.752 25.628 1 24.7 ? C8 XMM 242 A 1 HETATM 15 C C9 XMM . . . D 4 -5.092 -27.763 26.226 1 25 ? C9 XMM 242 A 1 HETATM 16 N N1 XMM . . . D 4 -6.41 -27.362 25.949 1 23.75 ? N1 XMM 242 A 1 HETATM 17 C C11 XMM . . . D 4 -6.401 -26.054 25.549 1 22.39 ? C11 XMM 242 A 1 HETATM 18 C C10 XMM . . . D 4 -2.75 -26.887 25.725 1 24.77 ? C10 XMM 242 A 1 HETATM 19 CL CL XMM . . . D 4 -1.747 -25.604 24.988 1 32.37 ? CL XMM 242 A 1 HETATM 20 C C13 XMM . . . D 4 -2.17 -27.978 26.394 1 28.14 ? C13 XMM 242 A 1 HETATM 21 BR BR XMM . . . D 4 -0.224 -28.143 26.499 1 56.2 ? BR XMM 242 A 1 HETATM 22 C C14 XMM . . . D 4 -3.058 -29.008 27.007 1 25.6 ? C14 XMM 242 A 1 HETATM 23 C C12 XMM . . . D 4 -4.513 -28.873 26.905 1 24.8 ? C12 XMM 242 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 23 #