data_5R7
# 
_chem_comp.id                                    5R7 
_chem_comp.name                                  
;(2~{S},3~{R})-3-methyl-2-[(2~{S},3~{R})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-4-[(3~{S},5~{S})-5-[(sulfamoylamino)meth
yl]pyrrolidin-3-yl]sulfanyl-3,4-dihydro-2~{H}-pyrrole-5-carboxylic acid
;
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C15 H26 N4 O6 S2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Doripenem(open form, pyrroline tautomer form 3, SP3 connection to Thio as R isomer)" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-11-16 
_chem_comp.pdbx_modified_date                    2024-09-27 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   REL 
_chem_comp.pdbx_replaced_by                      ? 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        422.520 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     5R7 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        5CTN 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.alt_atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.charge 
_chem_comp_atom.pdbx_align 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_leaving_atom_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_chem_comp_atom.model_Cartn_x 
_chem_comp_atom.model_Cartn_y 
_chem_comp_atom.model_Cartn_z 
_chem_comp_atom.pdbx_model_Cartn_x_ideal 
_chem_comp_atom.pdbx_model_Cartn_y_ideal 
_chem_comp_atom.pdbx_model_Cartn_z_ideal 
_chem_comp_atom.pdbx_component_atom_id 
_chem_comp_atom.pdbx_component_comp_id 
_chem_comp_atom.pdbx_ordinal 
5R7 CAA C1  C 0 1 N N N N N N 17.637 6.730  -5.911  -6.453 1.790  -1.867 CAA 5R7 1  
5R7 CAB C2  C 0 1 N N N N N N 15.114 8.916  -8.000  -2.179 1.572  0.712  CAB 5R7 2  
5R7 NAC N1  N 0 1 N N N N N N 7.269  5.572  -11.883 7.400  -1.241 0.512  NAC 5R7 3  
5R7 OAD O1  O 0 1 N N N N N N 14.298 4.657  -4.908  -4.133 2.181  2.180  OAD 5R7 4  
5R7 OAE O2  O 0 1 N N N N N N 11.200 8.293  -3.483  -4.128 -3.431 0.602  OAE 5R7 5  
5R7 OAF O3  O 0 1 N N N N N N 6.829  5.631  -9.431  7.221  1.137  1.149  OAF 5R7 6  
5R7 OAG O4  O 0 1 N N N N N N 9.002  5.129  -10.145 7.903  0.495  -1.169 OAG 5R7 7  
5R7 OAH O5  O 0 1 N N N N N N 10.780 9.887  -4.921  -1.955 -3.384 0.158  OAH 5R7 8  
5R7 OAI O6  O 0 1 N N N N N N 16.447 4.790  -6.691  -6.691 0.155  -0.103 OAI 5R7 9  
5R7 CAJ C3  C 0 1 N N N N N N 14.763 5.762  -4.785  -4.590 1.336  1.448  CAJ 5R7 10 
5R7 CAK C4  C 0 1 N N N N N N 10.356 9.753  -8.536  1.366  -0.325 -1.388 CAK 5R7 11 
5R7 CAL C5  C 0 1 N N N N N N 8.958  8.108  -11.414 4.459  0.191  0.491  CAL 5R7 12 
5R7 CAM C6  C 0 1 N N N N N N 11.168 8.205  -10.221 1.963  0.361  0.857  CAM 5R7 13 
5R7 NAN N2  N 0 1 N N N N N N 13.785 8.159  -4.641  -4.179 -0.726 -0.381 NAN 5R7 14 
5R7 NAO N3  N 0 1 N N N N N N 9.525  9.807  -9.724  2.822  -0.096 -1.336 NAO 5R7 15 
5R7 NAP N4  N 0 1 N N N N N N 8.195  7.479  -10.352 5.534  0.381  -0.486 NAP 5R7 16 
5R7 SAQ S1  S 0 1 N N N N N N 12.258 7.990  -7.692  -0.564 -0.743 0.554  SAQ 5R7 17 
5R7 CAR C7  C 0 1 N N N N N N 11.517 8.975  -4.483  -3.019 -2.799 0.176  CAR 5R7 18 
5R7 CAS C8  C 0 1 N N N N N N 12.785 8.732  -5.169  -3.096 -1.388 -0.272 CAS 5R7 19 
5R7 CAT C9  C 0 1 N N R N N N 16.387 6.217  -6.616  -6.260 1.489  -0.379 CAT 5R7 20 
5R7 CAU C10 C 0 1 N N R N N N 14.557 9.102  -6.590  -2.444 0.902  -0.638 CAU 5R7 21 
5R7 CAV C11 C 0 1 N N S N N N 10.032 9.016  -10.827 3.135  0.667  -0.109 CAV 5R7 22 
5R7 CAW C12 C 0 1 N N S N N N 11.602 8.996  -8.991  0.755  0.305  -0.119 CAW 5R7 23 
5R7 CAX C13 C 0 1 N N S N N N 15.059 6.651  -5.962  -4.780 1.632  -0.018 CAX 5R7 24 
5R7 CAY C14 C 0 1 N N S N N N 14.979 8.101  -5.494  -3.955 0.647  -0.848 CAY 5R7 25 
5R7 CAZ C15 C 0 1 N N R N N N 13.032 9.134  -6.576  -1.899 -0.547 -0.659 CAZ 5R7 26 
5R7 SBA S2  S 0 1 N N N N N N 7.832  5.920  -10.423 7.116  0.308  -0.001 SBA 5R7 27 
5R7 H1  H1  H 0 1 N N N N N N 17.599 7.828  -5.849  -7.507 1.688  -2.124 H1  5R7 28 
5R7 H2  H2  H 0 1 N N N N N N 17.686 6.307  -4.897  -6.124 2.807  -2.078 H2  5R7 29 
5R7 H3  H3  H 0 1 N N N N N N 18.529 6.425  -6.478  -5.865 1.088  -2.458 H3  5R7 30 
5R7 H4  H4  H 0 1 N N N N N N 16.213 8.899  -7.961  -1.105 1.697  0.851  H4  5R7 31 
5R7 H5  H5  H 0 1 N N N N N N 14.747 7.966  -8.417  -2.664 2.548  0.734  H5  5R7 32 
5R7 H6  H6  H 0 1 N N N N N N 14.783 9.749  -8.638  -2.579 0.949  1.511  H6  5R7 33 
5R7 H7  H7  H 0 1 N N N N N N 7.042  4.599  -11.930 6.688  -1.899 0.485  H7  5R7 34 
5R7 H8  H8  H 0 1 N N N N N N 6.449  6.115  -12.062 8.279  -1.490 0.839  H8  5R7 35 
5R7 H9  H9  H 0 1 N N N N N N 10.358 8.585  -3.154  -4.028 -4.351 0.884  H9  5R7 36 
5R7 H10 H10 H 0 1 N N N N N N 15.772 4.415  -6.137  -7.622 -0.008 -0.308 H10 5R7 37 
5R7 H11 H11 H 0 1 N N N N N N 14.975 6.128  -3.791  -4.863 0.369  1.843  H11 5R7 38 
5R7 H12 H12 H 0 1 N N N N N N 10.617 10.766 -8.195  0.947  0.150  -2.276 H12 5R7 39 
5R7 H13 H13 H 0 1 N N N N N N 9.845  9.213  -7.725  1.160  -1.395 -1.407 H13 5R7 40 
5R7 H14 H14 H 0 1 N N N N N N 8.281  8.706  -12.042 4.383  -0.866 0.746  H14 5R7 41 
5R7 H15 H15 H 0 1 N N N N N N 9.436  7.330  -12.027 4.678  0.767  1.390  H15 5R7 42 
5R7 H16 H16 H 0 1 N N N N N N 10.817 7.203  -9.933  2.111  -0.599 1.351  H16 5R7 43 
5R7 H17 H17 H 0 1 N N N N N N 12.000 8.111  -10.934 1.838  1.159  1.589  H17 5R7 44 
5R7 H20 H20 H 0 1 N N N N N N 9.462  10.760 -10.022 3.140  0.395  -2.158 H20 5R7 45 
5R7 H22 H22 H 0 1 N N N N N N 8.714  7.614  -9.508  5.320  0.550  -1.416 H22 5R7 46 
5R7 H24 H24 H 0 1 N N N N N N 16.395 6.623  -7.638  -6.848 2.191  0.213  H24 5R7 47 
5R7 H25 H25 H 0 1 N N N N N N 14.893 10.092 -6.250  -2.026 1.491  -1.455 H25 5R7 48 
5R7 H26 H26 H 0 1 N N N N N N 10.430 9.669  -11.617 3.178  1.735  -0.326 H26 5R7 49 
5R7 H27 H27 H 0 1 N N N N N N 12.389 9.712  -9.269  0.382  1.308  -0.329 H27 5R7 50 
5R7 H28 H28 H 0 1 N N N N N N 14.263 6.499  -6.706  -4.451 2.650  -0.228 H28 5R7 51 
5R7 H29 H29 H 0 1 N N N N N N 15.895 8.421  -4.976  -4.211 0.736  -1.904 H29 5R7 52 
5R7 H18 H18 H 0 1 N N N N N N 12.648 10.142 -6.792  -1.550 -0.811 -1.657 H18 5R7 53 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
5R7 NAC SBA SING N N 1  
5R7 CAL CAV SING N N 2  
5R7 CAL NAP SING N N 3  
5R7 CAV CAM SING N N 4  
5R7 CAV NAO SING N N 5  
5R7 SBA NAP SING N N 6  
5R7 SBA OAG DOUB N N 7  
5R7 SBA OAF DOUB N N 8  
5R7 CAM CAW SING N N 9  
5R7 NAO CAK SING N N 10 
5R7 CAW CAK SING N N 11 
5R7 CAW SAQ SING N N 12 
5R7 CAB CAU SING N N 13 
5R7 SAQ CAZ SING N N 14 
5R7 OAI CAT SING N N 15 
5R7 CAT CAX SING N N 16 
5R7 CAT CAA SING N N 17 
5R7 CAU CAZ SING N N 18 
5R7 CAU CAY SING N N 19 
5R7 CAZ CAS SING N N 20 
5R7 CAX CAY SING N N 21 
5R7 CAX CAJ SING N N 22 
5R7 CAY NAN SING N N 23 
5R7 CAS NAN DOUB N N 24 
5R7 CAS CAR SING N N 25 
5R7 OAH CAR DOUB N N 26 
5R7 OAD CAJ DOUB N N 27 
5R7 CAR OAE SING N N 28 
5R7 CAA H1  SING N N 29 
5R7 CAA H2  SING N N 30 
5R7 CAA H3  SING N N 31 
5R7 CAB H4  SING N N 32 
5R7 CAB H5  SING N N 33 
5R7 CAB H6  SING N N 34 
5R7 NAC H7  SING N N 35 
5R7 NAC H8  SING N N 36 
5R7 OAE H9  SING N N 37 
5R7 OAI H10 SING N N 38 
5R7 CAJ H11 SING N N 39 
5R7 CAK H12 SING N N 40 
5R7 CAK H13 SING N N 41 
5R7 CAL H14 SING N N 42 
5R7 CAL H15 SING N N 43 
5R7 CAM H16 SING N N 44 
5R7 CAM H17 SING N N 45 
5R7 NAO H20 SING N N 46 
5R7 NAP H22 SING N N 47 
5R7 CAT H24 SING N N 48 
5R7 CAU H25 SING N N 49 
5R7 CAV H26 SING N N 50 
5R7 CAW H27 SING N N 51 
5R7 CAX H28 SING N N 52 
5R7 CAY H29 SING N N 53 
5R7 CAZ H18 SING N N 54 
# 
loop_
_pdbx_chem_comp_descriptor.comp_id 
_pdbx_chem_comp_descriptor.type 
_pdbx_chem_comp_descriptor.program 
_pdbx_chem_comp_descriptor.program_version 
_pdbx_chem_comp_descriptor.descriptor 
5R7 SMILES           ACDLabs              12.01 "CC(O)C(C=O)C2N=C(C(O)=O)C(SC1CNC(CNS(N)(=O)=O)C1)C2C"                                                                                                                                      
5R7 InChI            InChI                1.03  "InChI=1S/C15H26N4O6S2/c1-7-12(11(6-20)8(2)21)19-13(15(22)23)14(7)26-10-3-9(17-5-10)4-18-27(16,24)25/h6-12,14,17-18,21H,3-5H2,1-2H3,(H,22,23)(H2,16,24,25)/t7-,8-,9+,10+,11-,12-,14-/m1/s1" 
5R7 InChIKey         InChI                1.03  RBKUPZPTQNSPAV-QZOCKBNKSA-N                                                                                                                                                                 
5R7 SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O)[C@@H](C=O)[C@@H]1N=C([C@H](S[C@@H]2CN[C@H](CN[S](N)(=O)=O)C2)[C@@H]1C)C(O)=O"                                                                                                   
5R7 SMILES           CACTVS               3.385 "C[CH](O)[CH](C=O)[CH]1N=C([CH](S[CH]2CN[CH](CN[S](N)(=O)=O)C2)[CH]1C)C(O)=O"                                                                                                               
5R7 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C[C@H]1[C@H](C(=N[C@H]1[C@H](C=O)[C@@H](C)O)C(=O)O)S[C@H]2C[C@H](NC2)CNS(=O)(=O)N"                                                                                                         
5R7 SMILES           "OpenEye OEToolkits" 1.7.6 "CC1C(C(=NC1C(C=O)C(C)O)C(=O)O)SC2CC(NC2)CNS(=O)(=O)N"                                                                                                                                      
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
5R7 "SYSTEMATIC NAME" ACDLabs              12.01 "(2S,3R,4R)-2-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-3-methyl-4-({(3S,5S)-5-[(sulfamoylamino)methyl]pyrrolidin-3-yl}sulfanyl)-3,4-dihydro-2H-pyrrole-5-carboxylic acid"           
5R7 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2S,3R,4R)-3-methyl-2-[(2S,3R)-3-oxidanyl-1-oxidanylidene-butan-2-yl]-4-[(3S,5S)-5-[(sulfamoylamino)methyl]pyrrolidin-3-yl]sulfanyl-3,4-dihydro-2H-pyrrole-5-carboxylic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
5R7 "Create component" 2015-11-16 RCSB 
5R7 "Initial release"  2015-11-25 RCSB 
5R7 "Modify synonyms"  2016-09-19 RCSB 
5R7 "Modify synonyms"  2020-06-05 PDBE 
5R7 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      5R7 
_pdbx_chem_comp_synonyms.name         "Doripenem(open form, pyrroline tautomer form 3, SP3 connection to Thio as R isomer)" 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            5R7 
_pdbx_chem_comp_pcm.modified_residue_id                SER 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               CAJ 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
