data_5XFC # _model_server_result.job_id QETgoSJ62S5ONZD9bxkNTg _model_server_result.datetime_utc '2024-11-04 20:13:36' _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 5xfc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5XFC # _exptl.entry_id 5XFC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 301.249 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description '4-nitrophenyl beta-D-mannopyranoside' _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 90 _cell.angle_gamma 90 _cell.entry_id 5XFC _cell.length_a 71.21 _cell.length_b 91.05 _cell.length_c 53.75 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XFC _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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 1 1 B,D,F 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 ? 2 C N N ? 2 D 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 covale ? covale1 A C VAL 57 A VAL 143 1_555 A N MSE 58 A MSE 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C MSE 58 A MSE 144 1_555 A N ALA 59 A ALA 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C ALA 73 A ALA 159 1_555 A N MSE 74 A MSE 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 A C MSE 74 A MSE 160 1_555 A N VAL 75 A VAL 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale5 A C ASN 79 A ASN 165 1_555 A N MSE 80 A MSE 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale6 A C MSE 80 A MSE 166 1_555 A N VAL 81 A VAL 167 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 B C VAL 57 B VAL 143 1_555 B N MSE 58 B MSE 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 B C MSE 58 B MSE 144 1_555 B N ALA 59 B ALA 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 B C ALA 73 B ALA 159 1_555 B N MSE 74 B MSE 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale10 B C MSE 74 B MSE 160 1_555 B N VAL 75 B VAL 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale11 B C ASN 79 B ASN 165 1_555 B N MSE 80 B MSE 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale12 B C MSE 80 B MSE 166 1_555 B N VAL 81 B VAL 167 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? # _chem_comp.formula 'C12 H15 N O8' _chem_comp.formula_weight 301.249 _chem_comp.id MBE _chem_comp.mon_nstd_flag n _chem_comp.name '4-nitrophenyl beta-D-mannopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms '4-Nitrophenyl-beta-D-mannopyranoside;4-nitrophenyl beta-D-mannoside;4-nitrophenyl D-mannoside;4-nitrophenyl 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 O7 N1 MBE sing 218 n n O8 N1 MBE doub 219 n n N1 C10 MBE sing 220 n n C10 C11 MBE doub 221 n y C10 C9 MBE sing 222 n y C11 C12 MBE sing 223 n y C9 C8 MBE doub 224 n y C12 C7 MBE doub 225 n y C8 C7 MBE sing 226 n y C7 O1 MBE sing 227 n n O1 C1 MBE sing 228 n n C1 O5 MBE sing 229 n n C1 C2 MBE sing 230 n n O5 C5 MBE sing 231 n n C2 O2 MBE sing 232 n n C2 C3 MBE sing 233 n n C5 C6 MBE sing 234 n n C5 C4 MBE sing 235 n n C3 C4 MBE sing 236 n n C3 O3 MBE sing 237 n n C6 O6 MBE sing 238 n n C4 O4 MBE sing 239 n n C1 H1 MBE sing 240 n n C2 H2 MBE sing 241 n n C3 H3 MBE sing 242 n n C4 H4 MBE sing 243 n n C5 H5 MBE sing 244 n n C6 H61 MBE sing 245 n n C6 H62 MBE sing 246 n n C8 H8 MBE sing 247 n n C9 H9 MBE sing 248 n n C11 H10 MBE sing 249 n n C12 H11 MBE sing 250 n n O2 HO2 MBE sing 251 n n O3 HO3 MBE sing 252 n n O4 HO4 MBE sing 253 n n O6 HO6 MBE sing 254 n n # _atom_sites.entry_id 5XFC _atom_sites.fract_transf_matrix[1][1] 0.014043 _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] 0.010983 _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] 0.018605 _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 C 2 MBE A 1 301 2 MBE MBE . D 2 MBE B 1 301 3 MBE MBE . E 3 HOH A 1 401 140 HOH HOH . E 3 HOH A 2 402 93 HOH HOH . E 3 HOH A 3 403 108 HOH HOH . E 3 HOH A 4 404 129 HOH HOH . E 3 HOH A 5 405 86 HOH HOH . E 3 HOH A 6 406 58 HOH HOH . E 3 HOH A 7 407 112 HOH HOH . E 3 HOH A 8 408 44 HOH HOH . E 3 HOH A 9 409 122 HOH HOH . E 3 HOH A 10 410 142 HOH HOH . E 3 HOH A 11 411 77 HOH HOH . E 3 HOH A 12 412 5 HOH HOH . E 3 HOH A 13 413 109 HOH HOH . E 3 HOH A 14 414 160 HOH HOH . E 3 HOH A 15 415 87 HOH HOH . E 3 HOH A 16 416 73 HOH HOH . E 3 HOH A 17 417 139 HOH HOH . E 3 HOH A 18 418 36 HOH HOH . E 3 HOH A 19 419 175 HOH HOH . E 3 HOH A 20 420 190 HOH HOH . E 3 HOH A 21 421 46 HOH HOH . E 3 HOH A 22 422 97 HOH HOH . E 3 HOH A 23 423 66 HOH HOH . E 3 HOH A 24 424 18 HOH HOH . E 3 HOH A 25 425 167 HOH HOH . E 3 HOH A 26 426 62 HOH HOH . E 3 HOH A 27 427 147 HOH HOH . E 3 HOH A 28 428 32 HOH HOH . E 3 HOH A 29 429 67 HOH HOH . E 3 HOH A 30 430 48 HOH HOH . E 3 HOH A 31 431 64 HOH HOH . E 3 HOH A 32 432 15 HOH HOH . E 3 HOH A 33 433 3 HOH HOH . E 3 HOH A 34 434 157 HOH HOH . E 3 HOH A 35 435 78 HOH HOH . E 3 HOH A 36 436 91 HOH HOH . E 3 HOH A 37 437 133 HOH HOH . E 3 HOH A 38 438 26 HOH HOH . E 3 HOH A 39 439 14 HOH HOH . E 3 HOH A 40 440 114 HOH HOH . E 3 HOH A 41 441 193 HOH HOH . E 3 HOH A 42 442 156 HOH HOH . E 3 HOH A 43 443 41 HOH HOH . E 3 HOH A 44 444 131 HOH HOH . E 3 HOH A 45 445 55 HOH HOH . E 3 HOH A 46 446 88 HOH HOH . E 3 HOH A 47 447 76 HOH HOH . E 3 HOH A 48 448 111 HOH HOH . E 3 HOH A 49 449 54 HOH HOH . E 3 HOH A 50 450 8 HOH HOH . E 3 HOH A 51 451 171 HOH HOH . E 3 HOH A 52 452 83 HOH HOH . E 3 HOH A 53 453 31 HOH HOH . E 3 HOH A 54 454 16 HOH HOH . E 3 HOH A 55 455 29 HOH HOH . E 3 HOH A 56 456 13 HOH HOH . E 3 HOH A 57 457 143 HOH HOH . E 3 HOH A 58 458 136 HOH HOH . E 3 HOH A 59 459 176 HOH HOH . E 3 HOH A 60 460 130 HOH HOH . E 3 HOH A 61 461 6 HOH HOH . E 3 HOH A 62 462 59 HOH HOH . E 3 HOH A 63 463 121 HOH HOH . E 3 HOH A 64 464 103 HOH HOH . E 3 HOH A 65 465 74 HOH HOH . E 3 HOH A 66 466 85 HOH HOH . E 3 HOH A 67 467 81 HOH HOH . E 3 HOH A 68 468 70 HOH HOH . E 3 HOH A 69 469 11 HOH HOH . E 3 HOH A 70 470 79 HOH HOH . E 3 HOH A 71 471 126 HOH HOH . E 3 HOH A 72 472 185 HOH HOH . E 3 HOH A 73 473 30 HOH HOH . E 3 HOH A 74 474 164 HOH HOH . E 3 HOH A 75 475 49 HOH HOH . E 3 HOH A 76 476 125 HOH HOH . E 3 HOH A 77 477 65 HOH HOH . E 3 HOH A 78 478 169 HOH HOH . E 3 HOH A 79 479 189 HOH HOH . E 3 HOH A 80 480 56 HOH HOH . E 3 HOH A 81 481 80 HOH HOH . E 3 HOH A 82 482 89 HOH HOH . E 3 HOH A 83 483 128 HOH HOH . E 3 HOH A 84 484 63 HOH HOH . E 3 HOH A 85 485 144 HOH HOH . E 3 HOH A 86 486 135 HOH HOH . E 3 HOH A 87 487 51 HOH HOH . E 3 HOH A 88 488 150 HOH HOH . E 3 HOH A 89 489 118 HOH HOH . E 3 HOH A 90 490 120 HOH HOH . E 3 HOH A 91 491 173 HOH HOH . F 3 HOH B 1 401 43 HOH HOH . F 3 HOH B 2 402 53 HOH HOH . F 3 HOH B 3 403 117 HOH HOH . F 3 HOH B 4 404 100 HOH HOH . F 3 HOH B 5 405 123 HOH HOH . F 3 HOH B 6 406 57 HOH HOH . F 3 HOH B 7 407 22 HOH HOH . F 3 HOH B 8 408 174 HOH HOH . F 3 HOH B 9 409 61 HOH HOH . F 3 HOH B 10 410 34 HOH HOH . F 3 HOH B 11 411 75 HOH HOH . F 3 HOH B 12 412 2 HOH HOH . F 3 HOH B 13 413 27 HOH HOH . F 3 HOH B 14 414 72 HOH HOH . F 3 HOH B 15 415 127 HOH HOH . F 3 HOH B 16 416 188 HOH HOH . F 3 HOH B 17 417 158 HOH HOH . F 3 HOH B 18 418 28 HOH HOH . F 3 HOH B 19 419 38 HOH HOH . F 3 HOH B 20 420 21 HOH HOH . F 3 HOH B 21 421 82 HOH HOH . F 3 HOH B 22 422 25 HOH HOH . F 3 HOH B 23 423 68 HOH HOH . F 3 HOH B 24 424 35 HOH HOH . F 3 HOH B 25 425 47 HOH HOH . F 3 HOH B 26 426 69 HOH HOH . F 3 HOH B 27 427 20 HOH HOH . F 3 HOH B 28 428 94 HOH HOH . F 3 HOH B 29 429 10 HOH HOH . F 3 HOH B 30 430 42 HOH HOH . F 3 HOH B 31 431 110 HOH HOH . F 3 HOH B 32 432 17 HOH HOH . F 3 HOH B 33 433 141 HOH HOH . F 3 HOH B 34 434 50 HOH HOH . F 3 HOH B 35 435 39 HOH HOH . F 3 HOH B 36 436 84 HOH HOH . F 3 HOH B 37 437 37 HOH HOH . F 3 HOH B 38 438 1 HOH HOH . F 3 HOH B 39 439 104 HOH HOH . F 3 HOH B 40 440 9 HOH HOH . F 3 HOH B 41 441 7 HOH HOH . F 3 HOH B 42 442 116 HOH HOH . F 3 HOH B 43 443 71 HOH HOH . F 3 HOH B 44 444 186 HOH HOH . F 3 HOH B 45 445 4 HOH HOH . F 3 HOH B 46 446 170 HOH HOH . F 3 HOH B 47 447 137 HOH HOH . F 3 HOH B 48 448 98 HOH HOH . F 3 HOH B 49 449 163 HOH HOH . F 3 HOH B 50 450 12 HOH HOH . F 3 HOH B 51 451 23 HOH HOH . F 3 HOH B 52 452 152 HOH HOH . F 3 HOH B 53 453 134 HOH HOH . F 3 HOH B 54 454 115 HOH HOH . F 3 HOH B 55 455 99 HOH HOH . F 3 HOH B 56 456 101 HOH HOH . F 3 HOH B 57 457 33 HOH HOH . F 3 HOH B 58 458 132 HOH HOH . F 3 HOH B 59 459 187 HOH HOH . F 3 HOH B 60 460 183 HOH HOH . F 3 HOH B 61 461 19 HOH HOH . F 3 HOH B 62 462 40 HOH HOH . F 3 HOH B 63 463 52 HOH HOH . F 3 HOH B 64 464 146 HOH HOH . F 3 HOH B 65 465 90 HOH HOH . F 3 HOH B 66 466 165 HOH HOH . F 3 HOH B 67 467 102 HOH HOH . F 3 HOH B 68 468 24 HOH HOH . F 3 HOH B 69 469 148 HOH HOH . F 3 HOH B 70 470 96 HOH HOH . F 3 HOH B 71 471 184 HOH HOH . F 3 HOH B 72 472 113 HOH HOH . F 3 HOH B 73 473 105 HOH HOH . F 3 HOH B 74 474 151 HOH HOH . F 3 HOH B 75 475 154 HOH HOH . F 3 HOH B 76 476 172 HOH HOH . F 3 HOH B 77 477 138 HOH HOH . F 3 HOH B 78 478 119 HOH HOH . F 3 HOH B 79 479 124 HOH HOH . F 3 HOH B 80 480 95 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 MBE . . . C 2 16.971 101.705 80.545 1 25.53 ? C1 MBE 301 A 1 HETATM 2 C C2 MBE . . . C 2 16.704 100.77 81.717 1 28.65 ? C2 MBE 301 A 1 HETATM 3 C C3 MBE . . . C 2 17.436 99.455 81.508 1 27.51 ? C3 MBE 301 A 1 HETATM 4 C C4 MBE . . . C 2 17.051 98.866 80.155 1 25.8 ? C4 MBE 301 A 1 HETATM 5 C C5 MBE . . . C 2 17.333 99.879 79.049 1 23.64 ? C5 MBE 301 A 1 HETATM 6 C C6 MBE . . . C 2 16.9 99.376 77.682 1 22.55 ? C6 MBE 301 A 1 HETATM 7 C C7 MBE . . . C 2 16.439 103.996 80.037 1 26.76 ? C7 MBE 301 A 1 HETATM 8 C C8 MBE . . . C 2 17.424 104.038 79.054 1 26.52 ? C8 MBE 301 A 1 HETATM 9 C C9 MBE . . . C 2 17.69 105.243 78.415 1 28 ? C9 MBE 301 A 1 HETATM 10 C C10 MBE . . . C 2 16.972 106.382 78.763 1 29.24 ? C10 MBE 301 A 1 HETATM 11 C C11 MBE . . . C 2 15.995 106.332 79.743 1 28.69 ? C11 MBE 301 A 1 HETATM 12 C C12 MBE . . . C 2 15.725 105.133 80.376 1 27.67 ? C12 MBE 301 A 1 HETATM 13 N N1 MBE . . . C 2 17.221 107.605 78.14 1 31.75 ? N1 MBE 301 A 1 HETATM 14 O O1 MBE . . . C 2 16.141 102.843 80.7 1 26.7 ? O1 MBE 301 A 1 HETATM 15 O O2 MBE . . . C 2 15.294 100.535 81.823 1 30.37 ? O2 MBE 301 A 1 HETATM 16 O O3 MBE . . . C 2 17.095 98.541 82.558 1 31.13 ? O3 MBE 301 A 1 HETATM 17 O O4 MBE . . . C 2 17.798 97.663 79.936 1 24.92 ? O4 MBE 301 A 1 HETATM 18 O O5 MBE . . . C 2 16.62 101.091 79.305 1 23.13 ? O5 MBE 301 A 1 HETATM 19 O O6 MBE . . . C 2 15.499 99.063 77.694 1 22.79 ? O6 MBE 301 A 1 HETATM 20 O O7 MBE . . . C 2 16.518 108.72 78.556 1 34.1 ? O7 MBE 301 A 1 HETATM 21 O O8 MBE . . . C 2 18.158 107.702 77.128 1 32.67 ? O8 MBE 301 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 21 #