data_017
#
_chem_comp.id 017
_chem_comp.name
(3R,3AS,6AR)-HEXAHYDROFURO[2,3-B]FURAN-3-YL(1S,2R)-3-[[(4-AMINOPHENYL)SULFONYL](ISOBUTYL)AMINO]-1-BENZYL-2-HYDROXYPROPYLCARBAMATE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C27 H37 N3 O7 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "Darunavir; TMC114; UIC-94017"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2004-01-27
_chem_comp.pdbx_modified_date 2020-05-22
_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 547.664
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 017
_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 ?
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
017 N1 N1 N 0 1 N N N N N N 21.091 28.735 14.067 -2.266 5.752 0.374 N1 017 1
017 C2 C2 C 0 1 Y N N N N N 20.540 27.566 14.519 -2.761 4.491 0.036 C2 017 2
017 C3 C3 C 0 1 Y N N N N N 19.188 27.333 14.210 -2.068 3.688 -0.861 C3 017 3
017 C4 C4 C 0 1 Y N N N N N 18.626 26.160 14.675 -2.560 2.441 -1.192 C4 017 4
017 C5 C5 C 0 1 Y N N N N N 19.384 25.216 15.345 -3.742 1.992 -0.632 C5 017 5
017 C6 C6 C 0 1 Y N N N N N 20.711 25.423 15.721 -4.434 2.788 0.262 C6 017 6
017 C7 C7 C 0 1 Y N N N N N 21.263 26.646 15.292 -3.945 4.034 0.601 C7 017 7
017 S8 S8 S 0 1 N N N N N N 18.450 23.799 15.993 -4.367 0.400 -1.058 S8 017 8
017 O9 O9 O 0 1 N N N N N N 17.257 23.466 15.069 -5.765 0.438 -0.809 O9 017 9
017 O10 O10 O 0 1 N N N N N N 19.481 22.638 16.240 -3.812 0.077 -2.326 O10 017 10
017 N11 N11 N 0 1 N N N N N N 17.794 24.157 17.584 -3.729 -0.682 0.021 N11 017 11
017 C12 C12 C 0 1 N N N N N N 18.783 24.426 18.632 -4.439 -0.977 1.268 C12 017 12
017 C13 C13 C 0 1 N N N N N N 18.400 23.856 20.006 -5.331 -2.205 1.069 C13 017 13
017 C14 C14 C 0 1 N N N N N N 18.368 22.352 19.893 -4.457 -3.433 0.808 C14 017 14
017 C15 C15 C 0 1 N N N N N N 19.503 24.335 20.920 -6.171 -2.434 2.327 C15 017 15
017 C16 C16 C 0 1 N N N N N N 16.505 24.894 17.564 -2.456 -1.344 -0.271 C16 017 16
017 C17 C17 C 0 1 N N R N N N 15.394 23.964 18.158 -1.312 -0.556 0.371 C17 017 17
017 O18 O18 O 0 1 N N N N N N 14.232 24.764 18.409 -1.444 -0.600 1.793 O18 017 18
017 C19 C19 C 0 1 N N S N N N 15.013 22.828 17.177 0.026 -1.175 -0.037 C19 017 19
017 N20 N20 N 0 1 N N N N N N 14.132 21.941 17.887 1.123 -0.352 0.479 N20 017 20
017 C21 C21 C 0 1 N N N N N N 14.488 20.675 18.223 2.325 -0.372 -0.130 C21 017 21
017 O22 O22 O 0 1 N N N N N N 15.587 20.086 17.955 2.499 -1.073 -1.107 O22 017 22
017 O23 O23 O 0 1 N N N N N N 13.421 20.066 18.952 3.332 0.384 0.345 O23 017 23
017 C24 C24 C 0 1 N N R N N N 13.505 18.602 19.102 4.599 0.313 -0.361 C24 017 24
017 C25 C25 C 0 1 N N N N N N 12.839 18.351 20.485 4.667 1.397 -1.452 C25 017 25
017 O26 O26 O 0 1 N N N N N N 11.412 18.470 20.284 5.720 2.302 -1.092 O26 017 26
017 C27 C27 C 0 1 N N R N N N 11.220 17.978 18.968 6.661 1.584 -0.271 C27 017 27
017 O28 O28 O 0 1 N N N N N N 10.297 18.806 18.291 7.251 2.499 0.663 O28 017 28
017 C29 C29 C 0 1 N N N N N N 11.042 19.444 17.241 6.457 2.582 1.851 C29 017 29
017 C30 C30 C 0 1 N N N N N N 12.131 18.432 16.818 5.261 1.622 1.681 C30 017 30
017 C31 C31 C 0 1 N N S N N N 12.470 17.887 18.213 5.766 0.642 0.593 C31 017 31
017 C32 C32 C 0 1 N N N N N N 14.294 23.285 15.896 0.132 -2.588 0.542 C32 017 32
017 C33 C33 C 0 1 Y N N N N N 12.549 21.750 14.881 2.571 -3.112 0.752 C33 017 33
017 C34 C34 C 0 1 Y N N N N N 12.148 20.661 14.069 3.727 -3.713 0.292 C34 017 34
017 C35 C35 C 0 1 Y N N N N N 13.119 19.933 13.391 3.706 -4.444 -0.881 C35 017 35
017 C36 C36 C 0 1 Y N N N N N 14.471 20.240 13.517 2.529 -4.576 -1.593 C36 017 36
017 C37 C37 C 0 1 Y N N N N N 14.860 21.326 14.314 1.372 -3.974 -1.132 C37 017 37
017 C38 C38 C 0 1 Y N N N N N 13.902 22.114 14.968 1.393 -3.243 0.040 C38 017 38
017 H11 H11 H 0 1 N N N N N N 22.049 28.783 14.349 -1.437 6.069 -0.018 H11 017 39
017 H12 H12 H 0 1 N N N N N N 21.035 28.766 13.069 -2.753 6.314 0.998 H12 017 40
017 H3 H3 H 0 1 N N N N N N 18.613 28.042 13.633 -1.145 4.039 -1.299 H3 017 41
017 H4 H4 H 0 1 N N N N N N 17.574 25.976 14.512 -2.022 1.817 -1.890 H4 017 42
017 H6 H6 H 0 1 N N N N N N 21.272 24.702 16.297 -5.357 2.434 0.697 H6 017 43
017 H7 H7 H 0 1 N N N N N N 22.280 26.884 15.568 -4.484 4.654 1.303 H7 017 44
017 H121 H121 H 0 0 N N N N N N 19.736 23.969 18.327 -3.716 -1.178 2.059 H121 017 45
017 H122 H122 H 0 0 N N N N N N 18.886 25.517 18.732 -5.055 -0.122 1.547 H122 017 46
017 H13 H13 H 0 1 N N N N N N 17.415 24.173 20.380 -5.991 -2.040 0.217 H13 017 47
017 H141 H141 H 0 0 N N N N N N 18.096 21.916 20.866 -3.959 -3.326 -0.156 H141 017 48
017 H142 H142 H 0 0 N N N N N N 17.624 22.057 19.138 -3.708 -3.520 1.595 H142 017 49
017 H143 H143 H 0 0 N N N N N N 19.361 21.986 19.593 -5.081 -4.327 0.798 H143 017 50
017 H151 H151 H 0 0 N N N N N N 19.316 23.973 21.942 -6.793 -1.559 2.513 H151 017 51
017 H152 H152 H 0 0 N N N N N N 20.469 23.946 20.564 -6.806 -3.309 2.185 H152 017 52
017 H153 H153 H 0 0 N N N N N N 19.528 25.435 20.919 -5.511 -2.599 3.179 H153 017 53
017 H161 H161 H 0 0 N N N N N N 16.589 25.809 18.169 -2.471 -2.356 0.133 H161 017 54
017 H162 H162 H 0 0 N N N N N N 16.248 25.168 16.530 -2.307 -1.386 -1.350 H162 017 55
017 H17 H17 H 0 1 N N N N N N 15.777 23.503 19.081 -1.351 0.480 0.035 H17 017 56
017 H18 H18 H 0 1 N N N N N N 13.543 24.218 18.771 -1.418 -1.493 2.163 H18 017 57
017 H19 H19 H 0 1 N N N N N N 15.953 22.362 16.845 0.088 -1.223 -1.124 H19 017 58
017 H20 H20 H 0 1 N N N N N N 13.223 22.269 18.143 0.983 0.207 1.260 H20 017 59
017 H24 H24 H 0 1 N N N N N N 14.538 18.274 18.914 4.733 -0.676 -0.800 H24 017 60
017 H251 H251 H 0 0 N N N N N N 13.092 17.347 20.857 4.886 0.939 -2.416 H251 017 61
017 H252 H252 H 0 0 N N N N N N 13.187 19.093 21.219 3.719 1.933 -1.501 H252 017 62
017 H27 H27 H 0 1 N N N N N N 10.825 16.955 19.047 7.406 1.049 -0.859 H27 017 63
017 H291 H291 H 0 0 N N N N N N 10.386 19.686 16.392 7.051 2.283 2.714 H291 017 64
017 H292 H292 H 0 0 N N N N N N 11.499 20.378 17.601 6.096 3.601 1.985 H292 017 65
017 H301 H301 H 0 0 N N N N N N 11.767 17.661 16.123 5.054 1.093 2.612 H301 017 66
017 H302 H302 H 0 0 N N N N N N 12.988 18.897 16.309 4.378 2.161 1.337 H302 017 67
017 H31 H31 H 0 1 N N N N N N 12.920 16.904 18.007 6.282 -0.238 0.977 H31 017 68
017 H321 H321 H 0 0 N N N N N N 13.376 23.816 16.187 0.160 -2.533 1.630 H321 017 69
017 H322 H322 H 0 0 N N N N N N 14.969 23.953 15.341 -0.732 -3.174 0.229 H322 017 70
017 H33 H33 H 0 1 N N N N N N 11.808 22.305 15.438 2.586 -2.544 1.671 H33 017 71
017 H34 H34 H 0 1 N N N N N N 11.104 20.400 13.978 4.648 -3.610 0.848 H34 017 72
017 H35 H35 H 0 1 N N N N N N 12.819 19.114 12.754 4.610 -4.913 -1.241 H35 017 73
017 H36 H36 H 0 1 N N N N N N 15.214 19.647 13.005 2.513 -5.146 -2.509 H36 017 74
017 H37 H37 H 0 1 N N N N N N 15.909 21.558 14.425 0.452 -4.077 -1.689 H37 017 75
#
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
017 N1 C2 SING N N 1
017 N1 H11 SING N N 2
017 N1 H12 SING N N 3
017 C2 C3 DOUB Y N 4
017 C2 C7 SING Y N 5
017 C3 C4 SING Y N 6
017 C3 H3 SING N N 7
017 C4 C5 DOUB Y N 8
017 C4 H4 SING N N 9
017 C5 C6 SING Y N 10
017 C5 S8 SING N N 11
017 C6 C7 DOUB Y N 12
017 C6 H6 SING N N 13
017 C7 H7 SING N N 14
017 S8 O9 DOUB N N 15
017 S8 O10 DOUB N N 16
017 S8 N11 SING N N 17
017 N11 C12 SING N N 18
017 N11 C16 SING N N 19
017 C12 C13 SING N N 20
017 C12 H121 SING N N 21
017 C12 H122 SING N N 22
017 C13 C14 SING N N 23
017 C13 C15 SING N N 24
017 C13 H13 SING N N 25
017 C14 H141 SING N N 26
017 C14 H142 SING N N 27
017 C14 H143 SING N N 28
017 C15 H151 SING N N 29
017 C15 H152 SING N N 30
017 C15 H153 SING N N 31
017 C16 C17 SING N N 32
017 C16 H161 SING N N 33
017 C16 H162 SING N N 34
017 C17 O18 SING N N 35
017 C17 C19 SING N N 36
017 C17 H17 SING N N 37
017 O18 H18 SING N N 38
017 C19 N20 SING N N 39
017 C19 C32 SING N N 40
017 C19 H19 SING N N 41
017 N20 C21 SING N N 42
017 N20 H20 SING N N 43
017 C21 O22 DOUB N N 44
017 C21 O23 SING N N 45
017 O23 C24 SING N N 46
017 C24 C25 SING N N 47
017 C24 C31 SING N N 48
017 C24 H24 SING N N 49
017 C25 O26 SING N N 50
017 C25 H251 SING N N 51
017 C25 H252 SING N N 52
017 O26 C27 SING N N 53
017 C27 O28 SING N N 54
017 C27 C31 SING N N 55
017 C27 H27 SING N N 56
017 O28 C29 SING N N 57
017 C29 C30 SING N N 58
017 C29 H291 SING N N 59
017 C29 H292 SING N N 60
017 C30 C31 SING N N 61
017 C30 H301 SING N N 62
017 C30 H302 SING N N 63
017 C31 H31 SING N N 64
017 C32 C38 SING N N 65
017 C32 H321 SING N N 66
017 C32 H322 SING N N 67
017 C33 C34 DOUB Y N 68
017 C33 C38 SING Y N 69
017 C33 H33 SING N N 70
017 C34 C35 SING Y N 71
017 C34 H34 SING N N 72
017 C35 C36 DOUB Y N 73
017 C35 H35 SING N N 74
017 C36 C37 SING Y N 75
017 C36 H36 SING N N 76
017 C37 C38 DOUB Y N 77
017 C37 H37 SING N N 78
#
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
017 SMILES ACDLabs 12.01 O=S(=O)(c1ccc(N)cc1)N(CC(C)C)CC(O)C(NC(=O)OC2COC3OCCC23)Cc4ccccc4
017 SMILES_CANONICAL CACTVS 3.370 CC(C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O[C@H]2CO[C@H]3OCC[C@@H]23)[S](=O)(=O)c4ccc(N)cc4
017 SMILES CACTVS 3.370 CC(C)CN(C[CH](O)[CH](Cc1ccccc1)NC(=O)O[CH]2CO[CH]3OCC[CH]23)[S](=O)(=O)c4ccc(N)cc4
017 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 CC(C)C[N@@](C[C@H]([C@H](Cc1ccccc1)NC(=O)O[C@H]2CO[C@@H]3[C@H]2CCO3)O)S(=O)(=O)c4ccc(cc4)N
017 SMILES "OpenEye OEToolkits" 1.7.0 CC(C)CN(CC(C(Cc1ccccc1)NC(=O)OC2COC3C2CCO3)O)S(=O)(=O)c4ccc(cc4)N
017 InChI InChI 1.03 InChI=1S/C27H37N3O7S/c1-18(2)15-30(38(33,34)21-10-8-20(28)9-11-21)16-24(31)23(14-19-6-4-3-5-7-19)29-27(32)37-25-17-36-26-22(25)12-13-35-26/h3-11,18,22-26,31H,12-17,28H2,1-2H3,(H,29,32)/t22-,23-,24+,25-,26+/m0/s1
017 InChIKey InChI 1.03 CJBJHOAVZSMMDJ-HEXNFIEUSA-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
017 "SYSTEMATIC NAME" ACDLabs 12.01 "(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(2S,3R)-4-{[(4-aminophenyl)sulfonyl](2-methylpropyl)amino}-3-hydroxy-1-phenylbutan-2-yl]carbamate"
017 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[(3R,3aS,6aR)-2,3,3a,4,5,6a-hexahydrofuro[2,3-b]furan-3-yl] N-[(2S,3R)-4-[(4-aminophenyl)sulfonyl-(2-methylpropyl)amino]-3-hydroxy-1-phenyl-butan-2-yl]carbamate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
017 'Create component' 2004-01-27 RCSB
017 'Modify descriptor' 2011-06-04 RCSB
017 'Modify synonyms' 2020-05-22 PDBE
#
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1 017 Darunavir ? ?
2 017 TMC114 ? ?
3 017 UIC-94017 ? ?
#
_pdbe_chem_comp_drugbank_details.comp_id 017
_pdbe_chem_comp_drugbank_details.drugbank_id DB01264
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Darunavir
_pdbe_chem_comp_drugbank_details.description
'Darunavir is a protease inhibitor used with other HIV protease inhibitor drugs as well as [ritonavir] for the effective management of HIV-1 infection.[L9227] As a second-generation protease inhibitor, darunavir is designed to combat resistance to standard HIV therapy.[A2278,A2281] It was initially approved by the FDA in 2006.[L9227]  Darunavir is being studied as a possible treatment for SARS-CoV-2, the coronavirus responsible for COVID-19, due to in vitro evidence supporting its ability to combat this infection.[A191682] Clinical trials are underway and are expected to conclude in August 2020.[L12066]'
_pdbe_chem_comp_drugbank_details.cas_number 206361-99-1
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'The HIV-1 protease enzyme is necessary for viral precursor protein processing and viral maturation in preparation for infection, and is therefore a target for antiretroviral therapy for HIV.  Protease inhibitors are used as a part of highly active antiretroviral therapy (HAART) in patients diagnosed with HIV infection. It has been shown to effectively suppress the virus, leading to significantly decreased morbidity and mortality rates.[A2281]  Darunavir, a HIV protease inhibitor, prevents HIV replication through binding to the enzyme, stopping the dimerization and the catalytic activity of HIV-1 protease. In particular, it inhibits the cleavage of HIV encoded Gag-Pol proteins[A191556] in cells that have been infected with the virus, halting the formation of mature virus particles, which spread the infection. The close contact that darunavir makes with the primary chains of the active site amino acids (Asp-29 and Asp-30) on the protease likely contributes to its potency and efficacy against resistant variants of HIV-1.[A2281]   Darunavir is known to bind to different sites on the enzyme: the active site cavity and the surface of one of the flexible flaps in the protease dimer. Darunavir can adapt to changes in the shape of a protease enzyme due to its molecular flexibility.[A2281,A191526]'
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
017 Darunavir wwPDB ?
017 TMC114 wwPDB ?
017 UIC-94017 wwPDB ?
017 '(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl N-((1S,2R)-1-benzyl-2-hydroxy-3-(N1-isobutylsulfanilamido)propyl)carbamate' DrugBank ?
017 '(3R,3aS,6aR)-tetrahydro-2H-furo[2,3-b]furan-3-yl (2S,3R)-4-(4-amino-N-isobutylphenylsulfonamido)-3-hydroxy-1-phenylbutan-2-ylcarbamate' DrugBank ?
017 '(3R,3aS,6aR)-tetrahydro-2H-furo[2,3-b]furan-3-yl (2S,3R)-4-(4-amino-N-neopentylphenylsulfonamido)-3-hydroxy-1-phenylbutan-2-ylcarbamate' DrugBank ?
017 '[(S)-3-[(4-Amino-benzenesulfonyl)-isobutyl-amino]-2-hydroxy-1-((R)-phenylmethyl)-propyl]-carbamic acid (3R,3aS,6aR)-(hexahydro-furo[2,3-b]furan-3-yl) ester' DrugBank ?
017 '{(1S,2R)-3-[(4-Amino-benzenesulfonyl)-isobutyl-amino]-1-benzyl-2-hydroxy-propyl}-carbamic acid (3R,3aS,6aR)-(hexahydro-furo[2,3-b]furan-3-yl) ester' DrugBank ?
017 Darunavir DrugBank ?
017 Darunavirum DrugBank ?
017 N-((1S,2R)-3-(((4-aminophenyl)sulfonyl)(2-methylpropyl)amino)-2-hydroxy-1-benzylpropyl)((1S,2R,5R)-4,6-dioxabicyclo(3.3.0)oct-2-yloxy)carboxamide DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id 017
_pdbe_chem_comp_drugbank_classification.drugbank_id DB01264
_pdbe_chem_comp_drugbank_classification.parent Aminobenzenesulfonamides
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Benzene and substituted derivatives'
_pdbe_chem_comp_drugbank_classification.superclass Benzenoids
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as aminobenzenesulfonamides. These are organic compounds containing a benzenesulfonamide moiety with an amine group attached to the benzene ring.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
017 DB01264 'Pol polyprotein' 'Human immunodeficiency virus 1' Q72874 yes 1
017 DB01264 'Gag-Pol polyprotein' HIV-1 P03366 unknown 2
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
017 N1 N 13.500 7.280 1
017 C2 C 12.497 6.166 2
017 C3 C 12.960 4.739 3
017 C4 C 11.957 3.624 4
017 C5 C 10.489 3.936 5
017 C6 C 10.026 5.363 6
017 C7 C 11.030 6.478 7
017 S8 S 9.486 2.822 8
017 O9 O 8.371 3.825 9
017 O10 O 10.601 1.818 10
017 N11 N 8.482 1.707 11
017 C12 C 7.015 2.019 12
017 C13 C 6.551 3.445 13
017 C14 C 5.084 3.757 14
017 C15 C 7.555 4.560 15
017 C16 C 8.946 0.280 16
017 C17 C 7.942 -0.835 17
017 O18 O 6.475 -0.523 18
017 C19 C 8.405 -2.261 19
017 N20 N 9.873 -2.573 20
017 C21 C 10.336 -3.999 21
017 O22 O 9.332 -5.114 22
017 O23 O 11.803 -4.311 23
017 C24 C 12.267 -5.738 24
017 C25 C 11.385 -6.951 25
017 O26 O 12.267 -8.165 26
017 C27 C 13.694 -7.701 27
017 O28 O 15.113 -8.159 28
017 C29 C 15.988 -6.951 29
017 C30 C 15.113 -5.744 30
017 C31 C 13.694 -6.201 31
017 C32 C 7.402 -3.376 32
017 C33 C 5.471 -1.637 33
017 C34 C 4.004 -1.325 34
017 C35 C 3.000 -2.440 35
017 C36 C 3.463 -3.867 36
017 C37 C 4.931 -4.178 37
017 C38 C 5.934 -3.064 38
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
017 N1 C2 SINGLE NONE 1
017 C2 C3 DOUBLE NONE 2
017 C2 C7 SINGLE NONE 3
017 C3 C4 SINGLE NONE 4
017 C4 C5 DOUBLE NONE 5
017 C5 C6 SINGLE NONE 6
017 C5 S8 SINGLE NONE 7
017 C6 C7 DOUBLE NONE 8
017 S8 O9 DOUBLE NONE 9
017 S8 O10 DOUBLE NONE 10
017 S8 N11 SINGLE NONE 11
017 N11 C12 SINGLE NONE 12
017 N11 C16 SINGLE NONE 13
017 C12 C13 SINGLE NONE 14
017 C13 C14 SINGLE NONE 15
017 C13 C15 SINGLE NONE 16
017 C16 C17 SINGLE NONE 17
017 C17 O18 SINGLE BEGINDASH 18
017 C17 C19 SINGLE NONE 19
017 C19 N20 SINGLE NONE 20
017 C19 C32 SINGLE BEGINWEDGE 21
017 N20 C21 SINGLE NONE 22
017 C21 O22 DOUBLE NONE 23
017 C21 O23 SINGLE NONE 24
017 C24 O23 SINGLE BEGINDASH 25
017 C24 C25 SINGLE NONE 26
017 C24 C31 SINGLE NONE 27
017 C25 O26 SINGLE NONE 28
017 O26 C27 SINGLE NONE 29
017 C27 O28 SINGLE NONE 30
017 C27 C31 SINGLE NONE 31
017 O28 C29 SINGLE NONE 32
017 C29 C30 SINGLE NONE 33
017 C30 C31 SINGLE NONE 34
017 C32 C38 SINGLE NONE 35
017 C33 C34 DOUBLE NONE 36
017 C33 C38 SINGLE NONE 37
017 C34 C35 SINGLE NONE 38
017 C35 C36 DOUBLE NONE 39
017 C36 C37 SINGLE NONE 40
017 C37 C38 DOUBLE NONE 41
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
017 MurckoScaffold S1 scaffold 'O=C(N[C@H](CCNS(=O)(=O)c1ccccc1)Cc1ccccc1)O[C@H]1CO[C@H]2OCC[C@H]21' InChI=1S/C23H28N2O6S/c26-23(31-21-16-30-22-20(21)12-14-29-22)25-18(15-17-7-3-1-4-8-17)11-13-24-32(27,28)19-9-5-2-6-10-19/h1-10,18,20-22,24H,11-16H2,(H,25,26)/t18-,20+,21+,22-/m1/s1 FMDUZJYOYDAUAU-RYFAJOAYSA-N
017 furanose F1 fragment OC1CCCO1 InChI=1S/C4H8O2/c5-4-2-1-3-6-4/h4-5H,1-3H2 JNODDICFTDYODH-UHFFFAOYSA-N
017 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
017 Z1673618163 F3 fragment CN(CCO)S(=O)(=O)c1ccc(N)cc1 InChI=1S/C9H14N2O3S/c1-11(6-7-12)15(13,14)9-4-2-8(10)3-5-9/h2-5,12H,6-7,10H2,1H3 IFBDYRCQPHERQI-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
017 C2 S1 1
017 C3 S1 1
017 C4 S1 1
017 C5 S1 1
017 C6 S1 1
017 C7 S1 1
017 S8 S1 1
017 O9 S1 1
017 O10 S1 1
017 N11 S1 1
017 C16 S1 1
017 C17 S1 1
017 C19 S1 1
017 N20 S1 1
017 C21 S1 1
017 O22 S1 1
017 O23 S1 1
017 C24 S1 1
017 C25 S1 1
017 O26 S1 1
017 C27 S1 1
017 O28 S1 1
017 C29 S1 1
017 C30 S1 1
017 C31 S1 1
017 C32 S1 1
017 C33 S1 1
017 C34 S1 1
017 C35 S1 1
017 C36 S1 1
017 C37 S1 1
017 C38 S1 1
017 C24 F1 1
017 C25 F1 1
017 O26 F1 1
017 C27 F1 1
017 C31 F1 1
017 O28 F1 1
017 C30 F1 2
017 C29 F1 2
017 O28 F1 2
017 C27 F1 2
017 C31 F1 2
017 O26 F1 2
017 C2 F2 1
017 C3 F2 1
017 C4 F2 1
017 C5 F2 1
017 C6 F2 1
017 C7 F2 1
017 C33 F2 2
017 C34 F2 2
017 C35 F2 2
017 C36 F2 2
017 C37 F2 2
017 C38 F2 2
017 C12 F3 1
017 N11 F3 1
017 C16 F3 1
017 C17 F3 1
017 O18 F3 1
017 S8 F3 1
017 O9 F3 1
017 O10 F3 1
017 C5 F3 1
017 C4 F3 1
017 C3 F3 1
017 C2 F3 1
017 N1 F3 1
017 C7 F3 1
017 C6 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 017
_pdbe_chem_comp_rdkit_properties.exactmw 547.235
_pdbe_chem_comp_rdkit_properties.amw 547.674
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 10
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 15
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 8
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 38
_pdbe_chem_comp_rdkit_properties.NumAtoms 75
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 11
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.519
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 5
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 275.902
_pdbe_chem_comp_rdkit_properties.tpsa 140.420
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.832
_pdbe_chem_comp_rdkit_properties.CrippenMR 141.076
_pdbe_chem_comp_rdkit_properties.chi0v 18.924
_pdbe_chem_comp_rdkit_properties.chi1v 10.911
_pdbe_chem_comp_rdkit_properties.chi2v 5.225
_pdbe_chem_comp_rdkit_properties.chi3v 5.225
_pdbe_chem_comp_rdkit_properties.chi4v 3.296
_pdbe_chem_comp_rdkit_properties.chi0n 55.108
_pdbe_chem_comp_rdkit_properties.chi1n 27.721
_pdbe_chem_comp_rdkit_properties.chi2n 3.842
_pdbe_chem_comp_rdkit_properties.chi3n 3.842
_pdbe_chem_comp_rdkit_properties.chi4n 2.339
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.700
_pdbe_chem_comp_rdkit_properties.kappa1 7.324
_pdbe_chem_comp_rdkit_properties.kappa2 12.437
_pdbe_chem_comp_rdkit_properties.kappa3 7.030
_pdbe_chem_comp_rdkit_properties.Phi 2.397
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
017 UniChem DrugBank DB01264
017 UniChem 'Guide to Pharmacology' 11243
017 UniChem 'PubChem DOTF' 12015589
017 UniChem ChEBI 367163
017 UniChem ZINC ZINC000003955219
017 UniChem eMolecules 36557635
017 UniChem fdasrs YO603Y8113
017 UniChem PharmGKB PA163522472
017 UniChem HMDB HMDB0015393
017 UniChem 'PubChem TPHARMA' 14788134
017 UniChem LINCS LSM-45520
017 UniChem ACTor 206361-99-1
017 UniChem ACTor 618109-00-5
017 UniChem Nikkaji J2.037.394F
017 UniChem BindingDb 8125
017 UniChem 'EPA CompTox Dashboard' DTXSID0046779
017 UniChem DrugCentral 4143
017 UniChem BRENDA 164283
017 UniChem BRENDA 164284
017 UniChem BRENDA 1901
017 UniChem BRENDA 23670
017 UniChem ChemicalBook CB51176244
017 UniChem DailyMed DARUNAVIR
017 UniChem ClinicalTrials DARUNAVIR
017 UniChem ClinicalTrials 'DARUNAVIR ETHANOLATE'
017 UniChem ClinicalTrials PREZISTA
017 UniChem ClinicalTrials REZOLSTA
017 UniChem ClinicalTrials 'TMC 114'
017 UniChem ClinicalTrials TMC-114
017 UniChem ClinicalTrials TMC-41629
017 UniChem ClinicalTrials TMC114
017 UniChem ClinicalTrials UIC-94017
017 UniChem rxnorm DARUNAVIR
017 UniChem rxnorm 'DARUNAVIR ETHANOLATE'
017 UniChem rxnorm PREZISTA
017 UniChem MedChemExpress HY-17040
017 UniChem 'Probes And Drugs' PD009930
017 UniChem CCDC APUYOA
017 UniChem PubChem 213039
017 UniChem eMolecules 35833368
017 UniChem SureChEMBL SCHEMBL118546
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
017 N1 7.485 1.216 -2.464 ETKDGv3 1
017 C2 6.361 0.594 -1.837 ETKDGv3 2
017 C3 6.076 -0.697 -2.074 ETKDGv3 3
017 C4 4.911 -1.333 -1.425 ETKDGv3 4
017 C5 4.131 -0.624 -0.594 ETKDGv3 5
017 C6 4.450 0.796 -0.325 ETKDGv3 6
017 C7 5.503 1.374 -0.915 ETKDGv3 7
017 S8 2.724 -1.350 0.177 ETKDGv3 8
017 O9 3.061 -1.607 1.618 ETKDGv3 9
017 O10 2.382 -2.656 -0.489 ETKDGv3 10
017 N11 1.364 -0.255 0.046 ETKDGv3 11
017 C12 0.994 -0.098 -1.378 ETKDGv3 12
017 C13 0.284 1.251 -1.623 ETKDGv3 13
017 C14 1.212 2.431 -1.308 ETKDGv3 14
017 C15 -0.211 1.338 -3.071 ETKDGv3 15
017 C16 0.223 -0.745 0.854 ETKDGv3 16
017 C17 0.247 -0.111 2.270 ETKDGv3 17
017 O18 0.385 1.285 2.168 ETKDGv3 18
017 C19 -0.992 -0.460 3.158 ETKDGv3 19
017 N20 -2.233 -0.490 2.376 ETKDGv3 20
017 C21 -2.962 0.704 2.072 ETKDGv3 21
017 O22 -2.969 1.669 2.884 ETKDGv3 22
017 O23 -3.637 0.794 0.852 ETKDGv3 23
017 C24 -4.295 1.979 0.398 ETKDGv3 24
017 C25 -3.336 3.134 0.174 ETKDGv3 25
017 O26 -3.840 3.940 -0.865 ETKDGv3 26
017 C27 -4.725 3.149 -1.631 ETKDGv3 27
017 O28 -4.198 2.981 -2.929 ETKDGv3 28
017 C29 -4.204 1.603 -3.207 ETKDGv3 29
017 C30 -4.176 0.855 -1.896 ETKDGv3 30
017 C31 -4.909 1.798 -0.969 ETKDGv3 31
017 C32 -0.833 -1.747 4.006 ETKDGv3 32
017 C33 -1.605 -3.786 2.595 ETKDGv3 33
017 C34 -1.320 -4.874 1.869 ETKDGv3 34
017 C35 0.082 -5.302 1.695 ETKDGv3 35
017 C36 1.069 -4.611 2.276 ETKDGv3 36
017 C37 0.759 -3.411 3.080 ETKDGv3 37
017 C38 -0.514 -2.994 3.217 ETKDGv3 38
017 H11 8.103 0.683 -3.117 ETKDGv3 39
017 H12 7.707 2.219 -2.278 ETKDGv3 40
017 H3 6.693 -1.283 -2.744 ETKDGv3 41
017 H4 4.698 -2.374 -1.633 ETKDGv3 42
017 H6 3.830 1.372 0.350 ETKDGv3 43
017 H7 5.728 2.414 -0.715 ETKDGv3 44
017 H121 0.344 -0.943 -1.707 ETKDGv3 45
017 H122 1.896 -0.124 -2.029 ETKDGv3 46
017 H13 -0.605 1.328 -0.965 ETKDGv3 47
017 H141 1.515 2.411 -0.240 ETKDGv3 48
017 H142 2.125 2.393 -1.941 ETKDGv3 49
017 H143 0.686 3.392 -1.493 ETKDGv3 50
017 H151 -0.905 0.498 -3.289 ETKDGv3 51
017 H152 -0.764 2.289 -3.231 ETKDGv3 52
017 H153 0.642 1.293 -3.782 ETKDGv3 53
017 H161 -0.737 -0.473 0.370 ETKDGv3 54
017 H162 0.219 -1.852 0.909 ETKDGv3 55
017 H17 1.151 -0.475 2.797 ETKDGv3 56
017 H18 -0.381 1.626 1.637 ETKDGv3 57
017 H19 -1.080 0.352 3.915 ETKDGv3 58
017 H20 -2.428 -1.321 1.775 ETKDGv3 59
017 H24 -5.085 2.279 1.123 ETKDGv3 60
017 H251 -2.330 2.761 -0.115 ETKDGv3 61
017 H252 -3.235 3.741 1.099 ETKDGv3 62
017 H27 -5.702 3.674 -1.700 ETKDGv3 63
017 H291 -5.127 1.349 -3.774 ETKDGv3 64
017 H292 -3.322 1.339 -3.827 ETKDGv3 65
017 H301 -4.688 -0.129 -1.974 ETKDGv3 66
017 H302 -3.116 0.705 -1.592 ETKDGv3 67
017 H31 -5.986 1.522 -0.901 ETKDGv3 68
017 H321 -0.042 -1.576 4.769 ETKDGv3 69
017 H322 -1.772 -1.916 4.577 ETKDGv3 70
017 H33 -2.638 -3.492 2.732 ETKDGv3 71
017 H34 -2.118 -5.448 1.414 ETKDGv3 72
017 H35 0.308 -6.179 1.102 ETKDGv3 73
017 H36 2.098 -4.925 2.153 ETKDGv3 74
017 H37 1.573 -2.866 3.540 ETKDGv3 75
#