data_2XRG # _model_server_result.job_id 0Z3nEF7wCGWc891i5y2r4w _model_server_result.datetime_utc '2024-11-17 20:35:47' _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 2xrg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1862}' # _entry.id 2XRG # _exptl.entry_id 2XRG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 480.293 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description {4-[(4-{(Z)-[3-(4-FLUOROBENZYL)-2,4-DIOXO-1,3-THIAZOLIDIN-5-YLIDENE]METHYL}PHENOXY)METHYL]PHENYL}(TRIHYDROXY)BORATE(1-) _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 2XRG _cell.length_a 63.995 _cell.length_b 90.204 _cell.length_c 152.672 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XRG _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H,I,J,K,L _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 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . 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 2 n B NAG 1 B 1 NAG A 1859 NAG 2 n B NAG 2 B 2 NAG A 1860 NAG 2 n B BMA 3 B 3 BMA A 1861 BMA # 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 58 A CYS 58 1_555 A SG CYS 75 A CYS 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 62 A CYS 62 1_555 A SG CYS 93 A CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 73 A CYS 73 1_555 A SG CYS 86 A CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 A SG CYS 79 A CYS 79 1_555 A SG CYS 85 A CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 A SG CYS 102 A CYS 102 1_555 A SG CYS 119 A CYS 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 107 A CYS 107 1_555 A SG CYS 137 A CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 A SG CYS 117 A CYS 117 1_555 A SG CYS 130 A CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 A SG CYS 123 A CYS 123 1_555 A SG CYS 129 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 A SG CYS 148 A CYS 148 1_555 A SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 A SG CYS 156 A CYS 156 1_555 A SG CYS 350 A CYS 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 A SG CYS 413 A CYS 413 1_555 A SG CYS 805 A CYS 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 A SG CYS 566 A CYS 566 1_555 A SG CYS 666 A CYS 666 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf13 A SG CYS 568 A CYS 568 1_555 A SG CYS 651 A CYS 651 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf14 A SG CYS 774 A CYS 774 1_555 A SG CYS 784 A CYS 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A OG1 THR 209 A THR 209 1_555 C B27 SWH . A SWH 1862 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.638 ? covale ? covale2 A ND2 ASN 524 A ASN 524 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.486 ? covale ? covale4 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.492 ? metalc ? metalc1 A OD1 ASP 171 A ASP 171 1_555 E ZN ZN . A ZN 1864 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? metalc ? metalc2 A OG1 THR 209 A THR 209 1_555 E ZN ZN . A ZN 1864 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc3 A OD1 ASP 311 A ASP 311 1_555 D ZN ZN . A ZN 1863 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc4 A NE2 HIS 315 A HIS 315 1_555 D ZN ZN . A ZN 1863 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc5 A OD2 ASP 358 A ASP 358 1_555 E ZN ZN . A ZN 1864 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc6 A NE2 HIS 359 A HIS 359 1_555 E ZN ZN . A ZN 1864 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc7 A NE2 HIS 474 A HIS 474 1_555 D ZN ZN . A ZN 1863 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc8 A OD1 ASP 739 A ASP 739 1_555 F CA CA . A CA 1865 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? metalc ? metalc9 A OD1 ASN 741 A ASN 741 1_555 F CA CA . A CA 1865 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc10 A OD1 ASP 743 A ASP 743 1_555 F CA CA . A CA 1865 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc11 A O LEU 745 A LEU 745 1_555 F CA CA . A CA 1865 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc12 A OD1 ASP 747 A ASP 747 1_555 F CA CA . A CA 1865 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc13 C O28 SWH . A SWH 1862 1_555 D ZN ZN . A ZN 1863 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? # _chem_comp.formula 'C24 H20 B F N O6 S -1' _chem_comp.formula_weight 480.293 _chem_comp.id SWH _chem_comp.mon_nstd_flag . _chem_comp.name {4-[(4-{(Z)-[3-(4-FLUOROBENZYL)-2,4-DIOXO-1,3-THIAZOLIDIN-5-YLIDENE]METHYL}PHENOXY)METHYL]PHENYL}(TRIHYDROXY)BORATE(1-) _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'HA155 INHIBITOR' # 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 O1 C2 SWH doub 344 n n C2 N3 SWH sing 345 n n C2 S14 SWH sing 346 n n N3 C4 SWH sing 347 n n N3 C12 SWH sing 348 n n C4 C5 SWH sing 349 n n C5 C6 SWH sing 350 n y C5 C11 SWH doub 351 n y C6 C7 SWH doub 352 n y C7 C8 SWH sing 353 n y C8 F9 SWH sing 354 n n C8 C10 SWH doub 355 n y C10 C11 SWH sing 356 n y C12 O13 SWH doub 357 n n C12 C15 SWH sing 358 n n S14 C15 SWH sing 359 n n C15 C16 SWH doub 360 n n C16 C17 SWH sing 361 n n C17 C18 SWH sing 362 n y C17 C33 SWH doub 363 n y C18 C19 SWH doub 364 n y C19 C20 SWH sing 365 n y C20 O21 SWH sing 366 z n C20 C32 SWH doub 367 n y O21 C22 SWH sing 368 n n C22 C23 SWH sing 369 n n C23 C24 SWH sing 370 n y C23 C31 SWH doub 371 n y C24 C25 SWH doub 372 n y C25 C26 SWH sing 373 n y C26 B27 SWH sing 374 n n C26 C30 SWH doub 375 n y B27 O28 SWH sing 376 n n B27 O29 SWH sing 377 n n B27 OX0 SWH sing 378 n n C30 C31 SWH sing 379 n y C32 C33 SWH sing 380 n y C4 H41C SWH sing 381 n n C4 H42C SWH sing 382 n n C6 H6 SWH sing 383 n n C11 H11 SWH sing 384 n n C7 H7 SWH sing 385 n n C10 H10 SWH sing 386 n n C16 H16 SWH sing 387 n n C18 H18 SWH sing 388 n n C33 H33 SWH sing 389 n n C19 H19 SWH sing 390 n n C32 H32 SWH sing 391 n n C22 H221 SWH sing 392 n n C22 H222 SWH sing 393 n n C24 H24 SWH sing 394 n n C31 H31 SWH sing 395 n n C25 H25 SWH sing 396 n n C30 H30 SWH sing 397 n n O28 H28 SWH sing 398 n n O29 H29 SWH sing 399 n n OX0 HX0 SWH sing 400 n n # _atom_sites.entry_id 2XRG _atom_sites.fract_transf_matrix[1][1] 0.015626 _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] 0.011086 _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] 0.00655 _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 3 SWH A 1 1862 1862 SWH SWH . D 4 ZN A 1 1863 1863 ZN ZN . E 4 ZN A 1 1864 1864 ZN ZN . F 5 CA A 1 1865 1865 CA CA . G 6 IOD A 1 1866 1866 IOD IOD . H 6 IOD A 1 1867 1867 IOD IOD . I 6 IOD A 1 1868 1868 IOD IOD . J 6 IOD A 1 1869 1869 IOD IOD . K 6 IOD A 1 1870 1870 IOD IOD . L 7 HOH A 1 2001 2001 HOH HOH . L 7 HOH A 2 2002 2002 HOH HOH . L 7 HOH A 3 2003 2003 HOH HOH . L 7 HOH A 4 2004 2004 HOH HOH . L 7 HOH A 5 2005 2005 HOH HOH . L 7 HOH A 6 2006 2006 HOH HOH . L 7 HOH A 7 2007 2007 HOH HOH . L 7 HOH A 8 2008 2008 HOH HOH . L 7 HOH A 9 2009 2009 HOH HOH . L 7 HOH A 10 2010 2010 HOH HOH . L 7 HOH A 11 2011 2011 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 O1 SWH . . . C 3 -24.952 6.097 5.441 1 39.45 ? O1 SWH 1862 A 1 HETATM 2 C C2 SWH . . . C 3 -24.632 5.553 6.483 1 88.94 ? C2 SWH 1862 A 1 HETATM 3 N N3 SWH . . . C 3 -25.436 5.259 7.514 1 69.09 ? N3 SWH 1862 A 1 HETATM 4 C C4 SWH . . . C 3 -26.867 5.594 7.459 1 75.88 ? C4 SWH 1862 A 1 HETATM 5 C C5 SWH . . . C 3 -27.652 4.412 6.947 1 97.36 ? C5 SWH 1862 A 1 HETATM 6 C C6 SWH . . . C 3 -28.061 3.408 7.818 1 43.29 ? C6 SWH 1862 A 1 HETATM 7 C C7 SWH . . . C 3 -28.785 2.322 7.339 1 43.94 ? C7 SWH 1862 A 1 HETATM 8 C C8 SWH . . . C 3 -29.101 2.239 5.985 1 80.14 ? C8 SWH 1862 A 1 HETATM 9 F F9 SWH . . . C 3 -29.801 1.186 5.507 1 60.46 ? F9 SWH 1862 A 1 HETATM 10 C C10 SWH . . . C 3 -28.694 3.247 5.118 1 80.17 ? C10 SWH 1862 A 1 HETATM 11 C C11 SWH . . . C 3 -27.97 4.33 5.597 1 54.01 ? C11 SWH 1862 A 1 HETATM 12 C C12 SWH . . . C 3 -24.92 4.671 8.587 1 79.47 ? C12 SWH 1862 A 1 HETATM 13 O O13 SWH . . . C 3 -25.587 4.375 9.565 1 117.49 ? O13 SWH 1862 A 1 HETATM 14 S S14 SWH . . . C 3 -23.003 5.009 6.931 1 101.45 ? S14 SWH 1862 A 1 HETATM 15 C C15 SWH . . . C 3 -23.482 4.373 8.52 1 30.5 ? C15 SWH 1862 A 1 HETATM 16 C C16 SWH . . . C 3 -22.77 3.738 9.495 1 59.26 ? C16 SWH 1862 A 1 HETATM 17 C C17 SWH . . . C 3 -21.342 3.37 9.532 1 31.03 ? C17 SWH 1862 A 1 HETATM 18 C C18 SWH . . . C 3 -20.836 2.927 10.767 1 44.74 ? C18 SWH 1862 A 1 HETATM 19 C C19 SWH . . . C 3 -19.52 2.531 10.89 1 47.25 ? C19 SWH 1862 A 1 HETATM 20 C C20 SWH . . . C 3 -18.663 2.565 9.79 1 43.54 ? C20 SWH 1862 A 1 HETATM 21 O O21 SWH . . . C 3 -17.379 2.137 9.99 1 97.23 ? O21 SWH 1862 A 1 HETATM 22 C C22 SWH . . . C 3 -16.309 2.412 9.075 1 52.19 ? C22 SWH 1862 A 1 HETATM 23 C C23 SWH . . . C 3 -16.376 1.525 7.853 1 39.39 ? C23 SWH 1862 A 1 HETATM 24 C C24 SWH . . . C 3 -17.054 0.31 7.877 1 39.64 ? C24 SWH 1862 A 1 HETATM 25 C C25 SWH . . . C 3 -17.127 -0.472 6.734 1 41.51 ? C25 SWH 1862 A 1 HETATM 26 C C26 SWH . . . C 3 -16.504 -0.043 5.554 1 103.23 ? C26 SWH 1862 A 1 HETATM 27 B B27 SWH . . . C 3 -16.625 -0.894 4.237 1 45.28 -1 B27 SWH 1862 A 1 HETATM 28 O O28 SWH . . . C 3 -16.478 -2.23 4.508 1 74.57 ? O28 SWH 1862 A 1 HETATM 29 O O29 SWH . . . C 3 -15.686 -0.492 3.322 1 44.4 ? O29 SWH 1862 A 1 HETATM 30 C C30 SWH . . . C 3 -15.843 1.191 5.53 1 36.08 ? C30 SWH 1862 A 1 HETATM 31 C C31 SWH . . . C 3 -15.775 1.958 6.679 1 27.36 ? C31 SWH 1862 A 1 HETATM 32 C C32 SWH . . . C 3 -19.162 2.982 8.546 1 49.17 ? C32 SWH 1862 A 1 HETATM 33 C C33 SWH . . . C 3 -20.488 3.371 8.41 1 66.54 ? C33 SWH 1862 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 33 #