data_7RCY # _model_server_result.job_id mfCoEJcI0fOxq3fm5kRrFw _model_server_result.datetime_utc '2024-11-28 08:28:22' _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 7rcy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 7RCY # _exptl.entry_id 7RCY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 536.585 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2-[(1R)-1-{[(2Z)-2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(hydroxyimino)acetyl]amino}-2-oxoethyl]-5-({2-oxo-1-[(3R)-pyr rolidin-3-yl]-2,5-dihydro-1H-pyrrol-3-yl}methyl)-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid' _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 105.66 _cell.angle_gamma 90 _cell.entry_id 7RCY _cell.length_a 64.7 _cell.length_b 196.39 _cell.length_c 70.97 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RCY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 _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 2 _struct_asym.id B _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 covale ? covale1 A OG SER 457 A SER 492 1_555 B C RB6 . A RB6 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? metalc ? metalc1 A OD2 ASP 480 A ASP 515 1_555 C ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc2 A OD2 ASP 493 A ASP 528 1_555 C ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? metalc ? metalc3 A ND1 HIS 503 A HIS 538 1_555 C ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc4 A SG CYS 516 A CYS 551 1_555 C ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? # _chem_comp.formula 'C20 H24 N8 O6 S2' _chem_comp.formula_weight 536.585 _chem_comp.id RB6 _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2-[(1R)-1-{[(2Z)-2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(hydroxyimino)acetyl]amino}-2-oxoethyl]-5-({2-oxo-1-[(3R)-pyr rolidin-3-yl]-2,5-dihydro-1H-pyrrol-3-yl}methyl)-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'BAL 9141, bound form;ceftobiprole, bound form' # 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 NBG CBD RB6 sing 277 n n SBE CBD RB6 sing 278 n y SBE NBF RB6 sing 279 n y CBD NBC RB6 doub 280 n y NBF CBB RB6 doub 281 n y NBC CBB RB6 sing 282 n y O C RB6 doub 283 n n CBB CAY RB6 sing 284 n n C CA RB6 sing 285 n n OBJ CBH RB6 doub 286 n n CAY NAZ RB6 doub 287 z n CAY CAW RB6 sing 288 n n NAZ OBA RB6 sing 289 n n CAL CAM RB6 sing 290 n n CAL CAK RB6 sing 291 n n CAM NAN RB6 sing 292 n n N CAW RB6 sing 293 n n N CA RB6 sing 294 n n CAW OAX RB6 doub 295 n n CBH OBI RB6 sing 296 n n CBH CAD RB6 sing 297 n n CA CB RB6 sing 298 n n NAN CAO RB6 sing 299 n n CAD NAC RB6 sing 300 n n CAD CAE RB6 doub 301 n n NAC CB RB6 sing 302 n n CAP CAQ RB6 sing 303 n n CAP NAJ RB6 sing 304 n n CAQ CAG RB6 doub 305 n n NAJ CAH RB6 sing 306 n n NAJ CAK RB6 sing 307 n n CAH CAG RB6 sing 308 n n CAH OAI RB6 doub 309 n n CAG CAF RB6 sing 310 n n CAF CAE RB6 sing 311 n n CAO CAK RB6 sing 312 n n CAE CAR RB6 sing 313 n n CB SAS RB6 sing 314 n n CAR SAS RB6 sing 315 n n NBG H1 RB6 sing 316 n n NBG H2 RB6 sing 317 n n OBA H3 RB6 sing 318 n n N H4 RB6 sing 319 n n CA H5 RB6 sing 320 n n C H6 RB6 sing 321 n n CB H7 RB6 sing 322 n n CAR H8 RB6 sing 323 n n CAR H9 RB6 sing 324 n n NAC H10 RB6 sing 325 n n OBI H11 RB6 sing 326 n n CAF H12 RB6 sing 327 n n CAF H13 RB6 sing 328 n n CAQ H14 RB6 sing 329 n n CAP H15 RB6 sing 330 n n CAP H16 RB6 sing 331 n n CAK H17 RB6 sing 332 n n CAL H18 RB6 sing 333 n n CAL H19 RB6 sing 334 n n CAM H20 RB6 sing 335 n n CAM H21 RB6 sing 336 n n NAN H22 RB6 sing 337 n n CAO H24 RB6 sing 338 n n CAO H25 RB6 sing 339 n n # _atom_sites.entry_id 7RCY _atom_sites.fract_transf_matrix[1][1] 0.015456 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004333 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005092 _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] 0.014634 _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 RB6 A 1 1001 1001 RB6 LIG . C 3 ZN A 1 1002 1 ZN ZN . D 4 HOH A 1 1101 1 HOH HOH . D 4 HOH A 2 1102 2 HOH HOH . D 4 HOH A 3 1103 3 HOH HOH . D 4 HOH A 4 1104 5 HOH HOH . D 4 HOH A 5 1105 6 HOH HOH . D 4 HOH A 6 1106 4 HOH HOH . D 4 HOH A 7 1107 7 HOH HOH . D 4 HOH A 8 1108 8 HOH HOH . D 4 HOH A 9 1109 9 HOH HOH . D 4 HOH A 10 1110 11 HOH HOH . D 4 HOH A 11 1111 10 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 OAX RB6 . . . B 2 9.761 113.142 9.464 1 77.57 ? OAX RB6 1001 A 1 HETATM 2 C CAW RB6 . . . B 2 9.99 112.141 10.084 1 68.95 ? CAW RB6 1001 A 1 HETATM 3 C CAY RB6 . . . B 2 9.259 110.969 9.45 1 73.22 ? CAY RB6 1001 A 1 HETATM 4 C CBB RB6 . . . B 2 9.954 110.166 8.38 1 81.5 ? CBB RB6 1001 A 1 HETATM 5 N NBF RB6 . . . B 2 11.147 110.475 7.924 1 91.97 ? NBF RB6 1001 A 1 HETATM 6 S SBE RB6 . . . B 2 11.63 109.368 6.754 1 97.69 ? SBE RB6 1001 A 1 HETATM 7 C CBD RB6 . . . B 2 10.108 108.425 6.897 1 110.08 ? CBD RB6 1001 A 1 HETATM 8 N NBG RB6 . . . B 2 9.833 107.296 6.146 1 128.51 ? NBG RB6 1001 A 1 HETATM 9 N NBC RB6 . . . B 2 9.338 109.003 7.818 1 97.39 ? NBC RB6 1001 A 1 HETATM 10 N NAZ RB6 . . . B 2 8.054 110.776 9.88 1 88.45 ? NAZ RB6 1001 A 1 HETATM 11 O OBA RB6 . . . B 2 7.394 109.765 9.326 1 103.89 ? OBA RB6 1001 A 1 HETATM 12 N N RB6 . . . B 2 10.874 112.068 11.21 1 61 ? N RB6 1001 A 1 HETATM 13 C CA RB6 . . . B 2 11.662 113.168 11.783 1 58.63 ? CA RB6 1001 A 1 HETATM 14 C C RB6 . . . B 2 13.147 112.694 11.733 1 56.93 ? C RB6 1001 A 1 HETATM 15 O O RB6 . . . B 2 13.422 111.518 11.587 1 68.26 ? O RB6 1001 A 1 HETATM 16 C CB RB6 . . . B 2 11.224 113.571 13.272 1 63.67 ? CB RB6 1001 A 1 HETATM 17 S SAS RB6 . . . B 2 9.635 112.893 13.487 1 77.14 ? SAS RB6 1001 A 1 HETATM 18 C CAR RB6 . . . B 2 9.582 112.947 15.274 1 79.1 ? CAR RB6 1001 A 1 HETATM 19 N NAC RB6 . . . B 2 12.052 113.081 14.355 1 61.75 ? NAC RB6 1001 A 1 HETATM 20 C CAD RB6 . . . B 2 11.707 112.002 15.212 1 65.73 ? CAD RB6 1001 A 1 HETATM 21 C CBH RB6 . . . B 2 13.11 111.546 16.141 1 72.31 ? CBH RB6 1001 A 1 HETATM 22 O OBI RB6 . . . B 2 12.842 110.612 16.87 1 73.71 -1 OBI RB6 1001 A 1 HETATM 23 O OBJ RB6 . . . B 2 14.124 112.178 15.951 1 56.6 ? OBJ RB6 1001 A 1 HETATM 24 C CAE RB6 . . . B 2 10.418 111.855 15.753 1 74.62 ? CAE RB6 1001 A 1 HETATM 25 C CAF RB6 . . . B 2 9.504 110.632 15.716 1 79.36 ? CAF RB6 1001 A 1 HETATM 26 C CAG RB6 . . . B 2 8.838 109.949 16.955 1 85.77 ? CAG RB6 1001 A 1 HETATM 27 C CAH RB6 . . . B 2 7.938 108.786 16.677 1 82.26 ? CAH RB6 1001 A 1 HETATM 28 O OAI RB6 . . . B 2 7.501 108.515 15.581 1 67.76 ? OAI RB6 1001 A 1 HETATM 29 C CAQ RB6 . . . B 2 9.259 109.699 18.199 1 82.72 ? CAQ RB6 1001 A 1 HETATM 30 C CAP RB6 . . . B 2 8.377 108.671 18.937 1 93.38 ? CAP RB6 1001 A 1 HETATM 31 N NAJ RB6 . . . B 2 7.656 108.021 17.826 1 95.32 ? NAJ RB6 1001 A 1 HETATM 32 C CAK RB6 . . . B 2 6.791 106.827 17.844 1 105.85 ? CAK RB6 1001 A 1 HETATM 33 C CAL RB6 . . . B 2 5.389 107.269 18.188 1 106.09 ? CAL RB6 1001 A 1 HETATM 34 C CAM RB6 . . . B 2 5.523 107.62 19.667 1 113.67 ? CAM RB6 1001 A 1 HETATM 35 N NAN RB6 . . . B 2 6.291 106.49 20.213 1 105.54 ? NAN RB6 1001 A 1 HETATM 36 C CAO RB6 . . . B 2 6.964 105.869 19.048 1 115.73 ? CAO RB6 1001 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 36 #