data_DXT
#
_chem_comp.id DXT
_chem_comp.name
(4S,4AR,5S,5AR,6R,12AS)-4-(DIMETHYLAMINO)-3,5,10,12,12A-PENTAHYDROXY-6-METHYL-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C22 H24 N2 O8"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "DOXYTETRACYCLINE; DOXYCYCLINE"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2006-12-27
_chem_comp.pdbx_modified_date 2020-05-27
_chem_comp.pdbx_ambiguous_flag ?
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 444.435
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code DXT
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details "OpenEye/OEToolkits V1.4.2"
_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
DXT C1 C1 C 0 1 N N N N N N 18.480 32.379 33.691 6.393 -4.070 4.542 C1 DXT 1
DXT O1 O1 O 0 1 N N N N N N 17.808 32.926 32.754 5.386 -4.660 4.935 O1 DXT 2
DXT C2 C2 C 0 1 N N N N N N 18.168 31.162 34.333 7.257 -3.356 5.534 C2 DXT 3
DXT O21 O21 O 0 1 N N N N N N 16.474 29.589 34.773 7.413 -4.295 7.689 O21 DXT 4
DXT C21 C21 C 0 1 N N N N N N 16.939 30.498 34.026 6.955 -3.411 6.973 C21 DXT 5
DXT N21 N21 N 0 1 N N N N N N 16.214 30.785 32.944 6.134 -2.395 7.393 N21 DXT 6
DXT C3 C3 C 0 1 N N N N N N 18.809 30.827 35.464 8.332 -2.662 5.119 C3 DXT 7
DXT O3 O3 O 0 1 N N N N N N 18.723 29.640 36.046 9.153 -2.008 6.025 O3 DXT 8
DXT C4 C4 C 0 1 N N R N N N 19.650 31.805 36.291 8.727 -2.492 3.668 C4 DXT 9
DXT N4 N4 N 0 1 N N N N N N 20.808 31.035 36.953 9.913 -3.313 3.382 N4 DXT 10
DXT C41 C41 C 0 1 N N N N N N 21.445 31.793 38.109 11.026 -2.900 4.232 C41 DXT 11
DXT C42 C42 C 0 1 N N N N N N 21.989 30.639 36.081 10.270 -3.204 1.971 C42 DXT 12
DXT C4A C4A C 0 1 N N S N N N 20.001 33.053 35.516 7.556 -2.799 2.688 C4A DXT 13
DXT C5 C5 C 0 1 N N S N N N 19.160 34.247 35.961 6.564 -1.611 2.602 C5 DXT 14
DXT O5 O5 O 0 1 N N N N N N 18.890 34.276 37.322 7.306 -0.512 2.054 O5 DXT 15
DXT C5A C5A C 0 1 N N R N N N 19.495 35.576 35.335 5.327 -1.881 1.702 C5A DXT 16
DXT C6 C6 C 0 1 N N R N N N 18.444 36.660 35.469 4.029 -1.152 2.188 C6 DXT 17
DXT C61 C61 C 0 1 N N N N N N 17.962 36.804 36.897 4.259 0.341 2.478 C61 DXT 18
DXT C6A C6A C 0 1 Y N N N N N 19.043 37.894 34.911 2.890 -1.400 1.193 C6A DXT 19
DXT C7 C7 C 0 1 Y N N N N N 18.696 39.122 35.412 1.837 -0.484 1.018 C7 DXT 20
DXT C8 C8 C 0 1 Y N N N N N 19.260 40.259 34.873 0.796 -0.729 0.118 C8 DXT 21
DXT C9 C9 C 0 1 Y N N N N N 20.163 40.229 33.831 0.777 -1.904 -0.621 C9 DXT 22
DXT C10 C10 C 0 1 Y N N N N N 20.516 39.028 33.293 1.792 -2.841 -0.453 C10 DXT 23
DXT O10 O10 O 0 1 N N N N N N 21.369 38.991 32.283 1.705 -3.978 -1.202 O10 DXT 24
DXT C6B C6B C 0 1 Y N N N N N 19.962 37.854 33.869 2.838 -2.597 0.452 C6B DXT 25
DXT C11 C11 C 0 1 N N N N N N 20.436 36.559 33.333 3.866 -3.650 0.621 C11 DXT 26
DXT O11 O11 O 0 1 N N N N N N 21.065 36.588 32.240 3.788 -4.707 0.007 O11 DXT 27
DXT C5B C5B C 0 1 N N N N N N 20.080 35.433 33.958 4.993 -3.348 1.550 C5B DXT 28
DXT C12 C12 C 0 1 N N N N N N 20.265 34.185 33.356 5.641 -4.348 2.179 C12 DXT 29
DXT O12 O12 O 0 1 N N N N N N 20.852 34.082 32.228 5.298 -5.685 2.073 O12 DXT 30
DXT C4B C4B C 0 1 N N S N N N 19.851 32.902 34.024 6.830 -4.098 3.073 C4B DXT 31
DXT O13 O13 O 0 1 N N N N N N 20.806 31.881 33.574 7.747 -5.187 2.968 O13 DXT 32
DXT H10 H10 H 0 1 N N N N N N 20.889 38.982 31.463 1.704 -4.757 -0.625 H10 DXT 33
DXT H12 H12 H 0 1 N N N N N N 20.204 34.056 31.534 4.860 -5.839 1.232 H12 DXT 34
DXT H13 H13 H 0 1 N N N N N N 21.012 32.022 32.657 7.505 -5.817 3.663 H13 DXT 35
DXT H211 1H21 H 0 0 N N N N N N 16.652 31.509 32.411 5.873 -2.355 8.373 H211 DXT 36
DXT H212 2H21 H 0 0 N N N N N N 15.353 30.339 32.700 5.775 -1.682 6.765 H212 DXT 37
DXT HO3 HO3 H 0 1 N N N N N N 18.702 28.962 35.381 8.615 -1.498 6.634 HO3 DXT 38
DXT H4 H4 H 0 1 N N N N N N 19.067 32.223 37.125 9.042 -1.452 3.526 H4 DXT 39
DXT H411 1H41 H 0 0 N N N N N N 21.599 31.109 38.956 10.730 -2.938 5.283 H411 DXT 40
DXT H412 2H41 H 0 0 N N N N N N 22.414 32.203 37.789 11.329 -1.879 3.988 H412 DXT 41
DXT H413 3H41 H 0 0 N N N N N N 20.782 32.615 38.417 11.881 -3.565 4.083 H413 DXT 42
DXT H421 1H42 H 0 0 N N N N N N 21.658 30.543 35.036 10.951 -4.013 1.693 H421 DXT 43
DXT H422 2H42 H 0 0 N N N N N N 22.770 31.411 36.149 10.763 -2.247 1.779 H422 DXT 44
DXT H423 3H42 H 0 0 N N N N N N 22.393 29.676 36.427 9.374 -3.268 1.349 H423 DXT 45
DXT H4A H4A H 0 1 N N N N N N 21.064 33.227 35.739 8.009 -2.920 1.691 H4A DXT 46
DXT H5 H5 H 0 1 N N N N N N 18.183 34.043 35.499 6.241 -1.311 3.605 H5 DXT 47
DXT HO5 HO5 H 0 1 N N N N N N 19.707 34.283 37.807 7.864 -0.885 1.355 HO5 DXT 48
DXT H5A H5A H 0 1 N N N N N N 20.301 35.977 35.967 5.569 -1.499 0.698 H5A DXT 49
DXT H6 H6 H 0 1 N N N N N N 17.531 36.410 34.909 3.710 -1.604 3.138 H6 DXT 50
DXT H7 H7 H 0 1 N N N N N N 17.986 39.198 36.223 1.811 0.442 1.588 H7 DXT 51
DXT H8 H8 H 0 1 N N N N N N 18.982 41.217 35.286 0.001 0.001 -0.001 H8 DXT 52
DXT H9 H9 H 0 1 N N N N N N 20.585 41.146 33.446 -0.029 -2.099 -1.322 H9 DXT 53
DXT H611 1H61 H 0 0 N N N N N N 18.828 36.839 37.575 5.144 0.479 3.107 H611 DXT 54
DXT H612 2H61 H 0 0 N N N N N N 17.381 37.733 36.996 4.410 0.895 1.547 H612 DXT 55
DXT H613 3H61 H 0 0 N N N N N N 17.327 35.945 37.158 3.397 0.769 2.998 H613 DXT 56
#
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
DXT C1 C4B SING N N 1
DXT C1 O1 DOUB N N 2
DXT C1 C2 SING N N 3
DXT C2 C21 SING N N 4
DXT C2 C3 DOUB N N 5
DXT O21 C21 DOUB N N 6
DXT C21 N21 SING N N 7
DXT N21 H211 SING N N 8
DXT N21 H212 SING N N 9
DXT C3 O3 SING N N 10
DXT C3 C4 SING N N 11
DXT O3 HO3 SING N N 12
DXT C4 H4 SING N N 13
DXT C4 N4 SING N N 14
DXT C4 C4A SING N N 15
DXT N4 C41 SING N N 16
DXT N4 C42 SING N N 17
DXT C41 H411 SING N N 18
DXT C41 H412 SING N N 19
DXT C41 H413 SING N N 20
DXT C42 H421 SING N N 21
DXT C42 H422 SING N N 22
DXT C42 H423 SING N N 23
DXT C4A C4B SING N N 24
DXT C4A H4A SING N N 25
DXT C4A C5 SING N N 26
DXT C5 H5 SING N N 27
DXT C5 O5 SING N N 28
DXT C5 C5A SING N N 29
DXT O5 HO5 SING N N 30
DXT C5A C5B SING N N 31
DXT C5A H5A SING N N 32
DXT C5A C6 SING N N 33
DXT C6 H6 SING N N 34
DXT C6 C6A SING N N 35
DXT C6 C61 SING N N 36
DXT C61 H611 SING N N 37
DXT C61 H612 SING N N 38
DXT C61 H613 SING N N 39
DXT C6A C6B SING Y N 40
DXT C6A C7 DOUB Y N 41
DXT C7 H7 SING N N 42
DXT C7 C8 SING Y N 43
DXT C8 H8 SING N N 44
DXT C8 C9 DOUB Y N 45
DXT C9 C10 SING Y N 46
DXT C9 H9 SING N N 47
DXT C10 O10 SING N N 48
DXT C10 C6B DOUB Y N 49
DXT O10 H10 SING N N 50
DXT C6B C11 SING N N 51
DXT C11 O11 DOUB N N 52
DXT C11 C5B SING N N 53
DXT C5B C12 DOUB N N 54
DXT C12 O12 SING N N 55
DXT C12 C4B SING N N 56
DXT O12 H12 SING N N 57
DXT C4B O13 SING N N 58
DXT O13 H13 SING N N 59
#
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
DXT SMILES ACDLabs 10.04 O=C3C2=C(O)C1(O)C(=O)C(=C(O)C(N(C)C)C1C(O)C2C(c4cccc(O)c34)C)C(=O)N
DXT SMILES_CANONICAL CACTVS 3.341 C[C@@H]1[C@H]2[C@H](O)[C@H]3[C@H](N(C)C)C(=C(C(N)=O)C(=O)[C@@]3(O)C(=C2C(=O)c4c(O)cccc14)O)O
DXT SMILES CACTVS 3.341 C[CH]1[CH]2[CH](O)[CH]3[CH](N(C)C)C(=C(C(N)=O)C(=O)[C]3(O)C(=C2C(=O)c4c(O)cccc14)O)O
DXT SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[C@H]1c2cccc(c2C(=O)C3=C([C@]4([C@@H]([C@H]([C@H]13)O)[C@@H](C(=C(C4=O)C(=O)N)O)N(C)C)O)O)O
DXT SMILES "OpenEye OEToolkits" 1.5.0 CC1c2cccc(c2C(=O)C3=C(C4(C(C(C13)O)C(C(=C(C4=O)C(=O)N)O)N(C)C)O)O)O
DXT InChI InChI 1.03 InChI=1S/C22H24N2O8/c1-7-8-5-4-6-9(25)11(8)16(26)12-10(7)17(27)14-15(24(2)3)18(28)13(21(23)31)20(30)22(14,32)19(12)29/h4-7,10,14-15,17,25,27-29,32H,1-3H3,(H2,23,31)/t7-,10+,14+,15-,17-,22-/m0/s1
DXT InChIKey InChI 1.03 JBIWCJUYHHGXTC-AKNGSSGZSA-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
DXT "SYSTEMATIC NAME" ACDLabs 10.04 (4S,4aR,5S,5aR,6R,12aS)-4-(dimethylamino)-3,5,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-1,4,4a,5,5a,6,11,12a-octahydrotetracene-2-carboxamide
DXT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (4S,4aR,5S,5aR,6R,12aS)-4-dimethylamino-3,5,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-4a,5,5a,6-tetrahydro-4H-tetracene-2-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
DXT 'Create component' 2006-12-27 RCSB
DXT 'Modify descriptor' 2011-06-04 RCSB
DXT 'Modify synonyms' 2020-05-27 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 DXT DOXYTETRACYCLINE ? ?
2 DXT DOXYCYCLINE ? ?
#
_pdbe_chem_comp_drugbank_details.comp_id DXT
_pdbe_chem_comp_drugbank_details.drugbank_id DB00254
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Doxycycline
_pdbe_chem_comp_drugbank_details.description
'Doxycycline is a broad-spectrum antibiotic synthetically derived from [oxytetracycline].[L42880] It is a second-generation tetracycline that was first discovered in 1967.[A19429] Second-generation tetracyclines exhibit lesser toxicity than first-generation tetracyclines.[A174034] Doxycycline is used to treat a wide variety of gram-positive and gram-negative bacterial infections. It is also used to treat acne and malaria.[A251730]'
_pdbe_chem_comp_drugbank_details.cas_number 564-25-0
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'Protein synthesis is essential for survival and functioning of cells, including bacteria.[A251725] Doxycycline inhibits bacterial protein synthesis by allosterically binding to the 30S prokaryotic ribosomal subunit.[A251730, L42870] The drug blocks the association charged aminoacyl-tRNA (aa-tRNA) with the ribosomal A site, which is the acceptor site on the mRNA-ribosome complex. Doxycycline ultimately impedes the elongation phase of protein synthesis and halts the production of essential proteins for bacterial survival and functioning.[A251725, A251730]  Doxycycline mediates anti-inflammatory actions by preventing calcium-dependent microtubular assembly and lymphocytic proliferation, thereby inhibiting leukocyte movement during inflammation.[A251730] It also inhibits nitric oxide synthase, which is an enzyme that produces nitric oxide, an inflammatory signaling molecule.[A251730]'
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
DXT DOXYTETRACYCLINE wwPDB ?
DXT DOXYCYCLINE wwPDB ?
DXT '5-hydroxy-α-6-deoxytetracycline' DrugBank ?
DXT 6-alpha-deoxy-5-oxytetracycline DrugBank ?
DXT 6alpha-deoxy-5-oxytetracycline DrugBank ?
DXT '6α-deoxy-5-oxytetracycline' DrugBank ?
DXT 'Anhydrous doxycycline' DrugBank ?
DXT Doxycycline DrugBank ?
DXT 'Doxycycline (anhydrous)' DrugBank ?
DXT 'Doxycycline anhydrous' DrugBank ?
DXT Doxycyclinum DrugBank ?
DXT Doxy DrugBank 'International brand'
DXT Doxycin DrugBank 'International brand'
DXT Doxylin DrugBank 'International brand'
DXT Jenacyclin DrugBank 'International brand'
DXT Microdox DrugBank 'International brand'
DXT NicAzelDoxyKit DrugBank 'International brand'
DXT Nu-Doxycycline DrugBank 'International brand'
DXT Supracyclin DrugBank 'International brand'
DXT Vibramycin DrugBank 'International brand'
#
_pdbe_chem_comp_drugbank_classification.comp_id DXT
_pdbe_chem_comp_drugbank_classification.drugbank_id DB00254
_pdbe_chem_comp_drugbank_classification.parent Tetracyclines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Tetracyclines
_pdbe_chem_comp_drugbank_classification.superclass 'Phenylpropanoids and polyketides'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as tetracyclines. These are polyketides having an octahydrotetracene-2-carboxamide skeleton, substituted with many hydroxy and other groups.'
#
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
DXT C1 C 2.599 1.451 1
DXT O1 O 2.600 2.951 2
DXT C2 C 3.898 0.700 3
DXT O21 O 6.496 0.698 4
DXT C21 C 5.197 1.449 5
DXT N21 N 5.198 2.949 6
DXT C3 C 3.896 -0.800 7
DXT O3 O 5.195 -1.551 8
DXT C4 C 2.597 -1.549 9
DXT N4 N 2.596 -3.049 10
DXT C41 C 1.296 -3.798 11
DXT C42 C 3.894 -3.800 12
DXT C4A C 1.298 -0.798 13
DXT C5 C -0.001 -1.547 14
DXT O5 O -0.002 -3.047 15
DXT C5A C -1.300 -0.796 16
DXT C6 C -2.599 -1.545 17
DXT C61 C -2.600 -3.045 18
DXT C6A C -3.898 -0.794 19
DXT C7 C -5.197 -1.543 20
DXT C8 C -6.496 -0.792 21
DXT C9 C -6.494 0.708 22
DXT C10 C -5.195 1.457 23
DXT O10 O -5.194 2.957 24
DXT C6B C -3.896 0.706 25
DXT C11 C -2.597 1.455 26
DXT O11 O -2.596 2.955 27
DXT C5B C -1.298 0.704 28
DXT C12 C 0.001 1.453 29
DXT O12 O 0.002 2.953 30
DXT C4B C 1.300 0.702 31
DXT O13 O 1.301 2.202 32
#
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
DXT C1 C4B SINGLE NONE 1
DXT C1 O1 DOUBLE NONE 2
DXT C1 C2 SINGLE NONE 3
DXT C2 C21 SINGLE NONE 4
DXT C2 C3 DOUBLE NONE 5
DXT O21 C21 DOUBLE NONE 6
DXT C21 N21 SINGLE NONE 7
DXT C3 O3 SINGLE NONE 8
DXT C3 C4 SINGLE NONE 9
DXT C4 N4 SINGLE BEGINWEDGE 10
DXT C4 C4A SINGLE NONE 11
DXT N4 C41 SINGLE NONE 12
DXT N4 C42 SINGLE NONE 13
DXT C4A C4B SINGLE NONE 14
DXT C4A C5 SINGLE NONE 15
DXT C5 O5 SINGLE BEGINWEDGE 16
DXT C5 C5A SINGLE NONE 17
DXT C5A C5B SINGLE NONE 18
DXT C5A C6 SINGLE NONE 19
DXT C6 C6A SINGLE NONE 20
DXT C6 C61 SINGLE BEGINWEDGE 21
DXT C6A C6B DOUBLE NONE 22
DXT C6A C7 SINGLE NONE 23
DXT C7 C8 DOUBLE NONE 24
DXT C8 C9 SINGLE NONE 25
DXT C9 C10 DOUBLE NONE 26
DXT C10 O10 SINGLE NONE 27
DXT C10 C6B SINGLE NONE 28
DXT C6B C11 SINGLE NONE 29
DXT C11 O11 DOUBLE NONE 30
DXT C11 C5B SINGLE NONE 31
DXT C5B C12 DOUBLE NONE 32
DXT C12 O12 SINGLE NONE 33
DXT C12 C4B SINGLE NONE 34
DXT C4B O13 SINGLE BEGINWEDGE 35
#
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
DXT MurckoScaffold S1 scaffold 'O=C1C2=CC3C(=O)C=CC[C@@H]3C[C@@H]2Cc2ccccc21' InChI=1S/C18H16O2/c19-17-7-3-5-12-9-13-8-11-4-1-2-6-14(11)18(20)16(13)10-15(12)17/h1-4,6-7,10,12-13,15H,5,8-9H2/t12-,13+,15+/m1/s1 KRZVXWRCQRFOLN-IPYPFGDCSA-N
DXT amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
DXT phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
DXT C1 S1 1
DXT O1 S1 1
DXT C2 S1 1
DXT C3 S1 1
DXT C4 S1 1
DXT C4A S1 1
DXT C5 S1 1
DXT C5A S1 1
DXT C6 S1 1
DXT C6A S1 1
DXT C7 S1 1
DXT C8 S1 1
DXT C9 S1 1
DXT C10 S1 1
DXT C6B S1 1
DXT C11 S1 1
DXT O11 S1 1
DXT C5B S1 1
DXT C12 S1 1
DXT C4B S1 1
DXT N21 F1 1
DXT C21 F1 1
DXT O21 F1 1
DXT C2 F1 1
DXT C6A F2 1
DXT C6B F2 1
DXT C10 F2 1
DXT C9 F2 1
DXT C8 F2 1
DXT C7 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id DXT
_pdbe_chem_comp_rdkit_properties.exactmw 444.153
_pdbe_chem_comp_rdkit_properties.amw 444.440
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 10
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 7
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 10
_pdbe_chem_comp_rdkit_properties.NumHBD 6
_pdbe_chem_comp_rdkit_properties.NumHBA 9
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 32
_pdbe_chem_comp_rdkit_properties.NumAtoms 56
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 10
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.409
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 3
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 6
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 216.698
_pdbe_chem_comp_rdkit_properties.tpsa 181.620
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.919
_pdbe_chem_comp_rdkit_properties.CrippenMR 108.633
_pdbe_chem_comp_rdkit_properties.chi0v 15.160
_pdbe_chem_comp_rdkit_properties.chi1v 8.277
_pdbe_chem_comp_rdkit_properties.chi2v 5.061
_pdbe_chem_comp_rdkit_properties.chi3v 5.061
_pdbe_chem_comp_rdkit_properties.chi4v 3.709
_pdbe_chem_comp_rdkit_properties.chi0n 39.160
_pdbe_chem_comp_rdkit_properties.chi1n 19.713
_pdbe_chem_comp_rdkit_properties.chi2n 5.061
_pdbe_chem_comp_rdkit_properties.chi3n 5.061
_pdbe_chem_comp_rdkit_properties.chi4n 3.709
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.210
_pdbe_chem_comp_rdkit_properties.kappa1 7.143
_pdbe_chem_comp_rdkit_properties.kappa2 6.893
_pdbe_chem_comp_rdkit_properties.kappa3 2.478
_pdbe_chem_comp_rdkit_properties.Phi 1.539
#
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
DXT UniChem DrugBank DB00254
DXT UniChem 'KEGG LIGAND' C06973
DXT UniChem ChEBI 50845
DXT UniChem ZINC ZINC000016052277
DXT UniChem atlas doxycycline
DXT UniChem fdasrs 334895S862
DXT UniChem HMDB HMDB0014399
DXT UniChem NMRShiftDB 60058700
DXT UniChem ACTor 564-25-0
DXT UniChem 'EPA CompTox Dashboard' DTXSID0037653
DXT UniChem LipidMaps LMPK07000001
DXT UniChem DrugCentral 961
DXT UniChem MetaboLights MTBLC50845
DXT UniChem BRENDA 213963
DXT UniChem BRENDA 229406
DXT UniChem BRENDA 229407
DXT UniChem BRENDA 3277
DXT UniChem ChemicalBook CB8663342
DXT UniChem DailyMed DOXYCYCLINE
DXT UniChem ClinicalTrials AB-08
DXT UniChem ClinicalTrials ACTICLATE
DXT UniChem ClinicalTrials ATRIDOX
DXT UniChem ClinicalTrials DORYX
DXT UniChem ClinicalTrials DOXY-LEMMON
DXT UniChem ClinicalTrials DOXYCHEL
DXT UniChem ClinicalTrials 'DOXYCHEL HYCLATE'
DXT UniChem ClinicalTrials DOXYCYCLINE
DXT UniChem ClinicalTrials 'DOXYCYCLINE ANHYDROUS'
DXT UniChem ClinicalTrials 'DOXYCYCLINE CALCIUM'
DXT UniChem ClinicalTrials 'DOXYCYCLINE HYCLATE'
DXT UniChem ClinicalTrials 'DOXYCYCLINE HYDROCHLORIDE'
DXT UniChem ClinicalTrials 'DOXYCYCLINE MONOHYDRATE'
DXT UniChem ClinicalTrials DOXYLIN
DXT UniChem ClinicalTrials MONODOX
DXT UniChem ClinicalTrials ORACEA
DXT UniChem ClinicalTrials PERIOSTAT
DXT UniChem ClinicalTrials TETRADOX
DXT UniChem ClinicalTrials VIBRA-TABS
DXT UniChem ClinicalTrials VIBRAMYCIN
DXT UniChem ClinicalTrials VIBRAVENOS
DXT UniChem ClinicalTrials ZADORIN
DXT UniChem rxnorm ACTICLATE
DXT UniChem rxnorm ALODOX
DXT UniChem rxnorm ATRIDOX
DXT UniChem rxnorm DORYX
DXT UniChem rxnorm DOXY
DXT UniChem rxnorm DOXYCYCLINE
DXT UniChem rxnorm 'DOXYCYCLINE ANHYDROUS'
DXT UniChem rxnorm 'DOXYCYCLINE CALCIUM'
DXT UniChem rxnorm 'DOXYCYCLINE HYCLATE'
DXT UniChem rxnorm 'DOXYCYCLINE MONOHYDRATE'
DXT UniChem rxnorm MONODOX
DXT UniChem rxnorm ORACEA
DXT UniChem rxnorm PERIOSTAT
DXT UniChem rxnorm VIBRAMYCIN
DXT UniChem MedChemExpress HY-N0565
DXT UniChem 'Probes And Drugs' PD010144
DXT UniChem CCDC LATQAA
DXT UniChem Nikkaji J6.511K
DXT UniChem eMolecules 4775684
DXT UniChem SureChEMBL SCHEMBL66828
DXT UniChem 'PubChem TPHARMA' 14759559
DXT UniChem 'PubChem TPHARMA' 14881664
DXT UniChem Mcule MCULE-4368118692
#
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
DXT C1 -2.223 1.547 -1.951 ETKDGv3 1
DXT O1 -2.450 2.376 -2.875 ETKDGv3 2
DXT C2 -3.231 1.351 -0.884 ETKDGv3 3
DXT O21 -5.160 2.272 -1.911 ETKDGv3 4
DXT C21 -4.420 2.231 -0.892 ETKDGv3 5
DXT N21 -4.708 3.075 0.223 ETKDGv3 6
DXT C3 -3.050 0.421 0.081 ETKDGv3 7
DXT O3 -3.998 0.248 1.096 ETKDGv3 8
DXT C4 -1.782 -0.427 0.146 ETKDGv3 9
DXT N4 -2.008 -1.790 0.708 ETKDGv3 10
DXT C41 -3.205 -2.494 0.210 ETKDGv3 11
DXT C42 -1.925 -1.833 2.176 ETKDGv3 12
DXT C4A -1.048 -0.558 -1.225 ETKDGv3 13
DXT C5 0.337 -1.292 -1.036 ETKDGv3 14
DXT O5 0.382 -2.462 -1.816 ETKDGv3 15
DXT C5A 1.568 -0.393 -1.340 ETKDGv3 16
DXT C6 2.902 -1.017 -0.822 ETKDGv3 17
DXT C61 4.081 -0.635 -1.731 ETKDGv3 18
DXT C6A 3.229 -0.615 0.604 ETKDGv3 19
DXT C7 3.958 -1.572 1.472 ETKDGv3 20
DXT C8 4.378 -1.201 2.685 ETKDGv3 21
DXT C9 4.125 0.168 3.169 ETKDGv3 22
DXT C10 3.473 1.051 2.396 ETKDGv3 23
DXT O10 3.225 2.341 2.867 ETKDGv3 24
DXT C6B 3.006 0.646 1.039 ETKDGv3 25
DXT C11 2.241 1.579 0.188 ETKDGv3 26
DXT O11 2.344 2.825 0.350 ETKDGv3 27
DXT C5B 1.321 1.015 -0.825 ETKDGv3 28
DXT C12 0.165 1.631 -1.156 ETKDGv3 29
DXT O12 -0.063 2.949 -0.742 ETKDGv3 30
DXT C4B -0.889 0.833 -1.920 ETKDGv3 31
DXT O13 -0.438 0.665 -3.246 ETKDGv3 32
DXT H10 3.528 2.643 3.786 ETKDGv3 33
DXT H12 -0.903 3.466 -0.962 ETKDGv3 34
DXT H13 -1.097 0.100 -3.729 ETKDGv3 35
DXT H211 -4.068 3.106 1.048 ETKDGv3 36
DXT H212 -5.550 3.693 0.213 ETKDGv3 37
DXT HO3 -4.917 0.672 1.092 ETKDGv3 38
DXT H4 -1.090 0.133 0.816 ETKDGv3 39
DXT H411 -3.384 -2.284 -0.864 ETKDGv3 40
DXT H412 -4.115 -2.217 0.785 ETKDGv3 41
DXT H413 -3.053 -3.589 0.313 ETKDGv3 42
DXT H421 -2.725 -1.226 2.648 ETKDGv3 43
DXT H422 -2.016 -2.882 2.533 ETKDGv3 44
DXT H423 -0.936 -1.458 2.514 ETKDGv3 45
DXT H4A -1.692 -1.181 -1.884 ETKDGv3 46
DXT H5 0.444 -1.615 0.023 ETKDGv3 47
DXT HO5 0.293 -2.190 -2.767 ETKDGv3 48
DXT H5A 1.653 -0.319 -2.446 ETKDGv3 49
DXT H6 2.816 -2.126 -0.868 ETKDGv3 50
DXT H7 4.161 -2.577 1.123 ETKDGv3 51
DXT H8 4.911 -1.903 3.314 ETKDGv3 52
DXT H9 4.468 0.451 4.156 ETKDGv3 53
DXT H611 4.206 0.468 -1.771 ETKDGv3 54
DXT H612 5.022 -1.089 -1.354 ETKDGv3 55
DXT H613 3.909 -1.014 -2.761 ETKDGv3 56
#