data_DN0
#
_chem_comp.id DN0
_chem_comp.name 2-[5-[4-(2-morpholin-4-ylethoxy)phenyl]pyridin-2-yl]-~{N}-(phenylmethyl)ethanamide
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C26 H29 N3 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-08-15
_chem_comp.pdbx_modified_date 2019-10-18
_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 431.527
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code DN0
_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 6KNZ
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
#
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
DN0 C10 C1 C 0 1 Y N N N N N 15.712 67.360 44.716 -4.105 -0.920 0.491 C10 DN0 1
DN0 C13 C2 C 0 1 Y N N N N N 15.623 66.262 42.059 -1.360 -1.133 0.180 C13 DN0 2
DN0 C15 C3 C 0 1 Y N N N N N 14.753 67.799 43.775 -3.258 -0.527 1.519 C15 DN0 3
DN0 C17 C4 C 0 1 Y N N N N N 15.411 66.335 39.493 0.653 -1.748 -1.173 C17 DN0 4
DN0 C21 C5 C 0 1 Y N N N N N 16.041 64.314 40.493 0.971 -0.854 1.036 C21 DN0 5
DN0 C22 C6 C 0 1 N N N N N N 16.047 63.543 36.763 4.317 -1.532 -0.323 C22 DN0 6
DN0 C26 C7 C 0 1 N N N N N N 17.410 65.222 34.551 6.863 1.281 0.185 C26 DN0 7
DN0 C28 C8 C 0 1 Y N N N N N 18.081 63.127 33.130 8.985 1.409 -1.138 C28 DN0 8
DN0 C01 C9 C 0 1 N N N N N N 19.816 72.173 48.037 -8.125 2.594 -0.983 C01 DN0 9
DN0 C03 C10 C 0 1 N N N N N N 19.720 72.548 45.893 -9.591 2.096 0.845 C03 DN0 10
DN0 C04 C11 C 0 1 N N N N N N 19.224 71.166 45.492 -9.361 0.595 0.635 C04 DN0 11
DN0 C06 C12 C 0 1 N N N N N N 19.464 70.691 48.002 -7.881 1.100 -1.211 C06 DN0 12
DN0 C07 C13 C 0 1 N N N N N N 18.051 69.039 46.621 -7.739 -1.047 -0.099 C07 DN0 13
DN0 C08 C14 C 0 1 N N N N N N 16.530 69.119 46.162 -6.263 -1.238 -0.454 C08 DN0 14
DN0 C11 C15 C 0 1 Y N N N N N 16.613 66.382 44.298 -3.579 -1.424 -0.691 C11 DN0 15
DN0 C12 C16 C 0 1 Y N N N N N 16.562 65.864 43.014 -2.213 -1.531 -0.848 C12 DN0 16
DN0 C14 C17 C 0 1 Y N N N N N 14.720 67.256 42.470 -1.892 -0.631 1.367 C14 DN0 17
DN0 C16 C18 C 0 1 Y N N N N N 15.657 65.655 40.694 0.109 -1.246 0.013 C16 DN0 18
DN0 C18 C19 C 0 1 Y N N N N N 15.512 65.688 38.237 2.030 -1.839 -1.277 C18 DN0 19
DN0 C19 C20 C 0 1 Y N N N N N 15.822 64.316 38.142 2.817 -1.434 -0.214 C19 DN0 20
DN0 C23 C21 C 0 1 N N N N N N 17.544 64.059 36.770 4.930 -0.183 -0.045 C23 DN0 21
DN0 C27 C22 C 0 1 Y N N N N N 18.020 64.529 33.263 8.363 1.183 0.076 C27 DN0 22
DN0 C29 C23 C 0 1 Y N N N N N 18.595 62.494 31.987 10.360 1.314 -1.238 C29 DN0 23
DN0 C30 C24 C 0 1 Y N N N N N 19.074 63.237 30.919 11.114 0.993 -0.125 C30 DN0 24
DN0 C31 C25 C 0 1 Y N N N N N 19.029 64.626 31.015 10.493 0.768 1.089 C31 DN0 25
DN0 C32 C26 C 0 1 Y N N N N N 18.517 65.256 32.165 9.118 0.869 1.191 C32 DN0 26
DN0 N05 N1 N 0 1 N N N N N N 18.486 70.539 46.791 -8.022 0.385 0.066 N05 DN0 27
DN0 N20 N2 N 0 1 Y N N N N N 16.132 63.674 39.307 2.275 -0.965 0.893 N20 DN0 28
DN0 N25 N3 N 0 1 N N N N N N 18.136 64.912 35.789 6.268 -0.030 -0.086 N25 DN0 29
DN0 O02 O1 O 0 1 N N N N N N 20.565 72.435 46.931 -9.419 2.777 -0.400 O02 DN0 30
DN0 O09 O2 O 0 1 N N N N N N 15.840 67.843 46.013 -5.451 -0.815 0.644 O09 DN0 31
DN0 O24 O3 O 0 1 N N N N N N 18.153 63.857 37.759 4.218 0.764 0.216 O24 DN0 32
DN0 H151 H1 H 0 0 N N N N N N 14.038 68.558 44.056 -3.671 -0.139 2.439 H151 DN0 33
DN0 H171 H2 H 0 0 N N N N N N 15.137 67.379 39.526 0.014 -2.061 -1.986 H171 DN0 34
DN0 H211 H3 H 0 0 N N N N N N 16.287 63.741 41.375 0.564 -0.465 1.958 H211 DN0 35
DN0 H222 H4 H 0 0 N N N N N N 15.440 63.918 35.926 4.687 -2.256 0.403 H222 DN0 36
DN0 H221 H5 H 0 0 N N N N N N 15.942 62.450 36.831 4.589 -1.854 -1.328 H221 DN0 37
DN0 H261 H6 H 0 0 N N N N N N 17.429 66.312 34.401 6.592 1.603 1.190 H261 DN0 38
DN0 H262 H7 H 0 0 N N N N N N 16.369 64.886 34.666 6.493 2.005 -0.541 H262 DN0 39
DN0 H281 H8 H 0 0 N N N N N N 17.717 62.514 33.941 8.395 1.655 -2.009 H281 DN0 40
DN0 H012 H9 H 0 0 N N N N N N 20.392 72.402 48.945 -7.364 2.989 -0.310 H012 DN0 41
DN0 H011 H10 H 0 0 N N N N N N 18.898 72.779 48.023 -8.078 3.120 -1.936 H011 DN0 42
DN0 H032 H11 H 0 0 N N N N N N 20.243 73.011 45.043 -10.604 2.262 1.213 H032 DN0 43
DN0 H031 H12 H 0 0 N N N N N N 18.864 73.175 46.183 -8.873 2.477 1.571 H031 DN0 44
DN0 H041 H13 H 0 0 N N N N N N 18.515 71.246 44.655 -9.435 0.079 1.592 H041 DN0 45
DN0 H042 H14 H 0 0 N N N N N N 20.072 70.531 45.195 -10.113 0.204 -0.050 H042 DN0 46
DN0 H061 H15 H 0 0 N N N N N N 18.972 70.388 48.938 -8.610 0.717 -1.925 H061 DN0 47
DN0 H062 H16 H 0 0 N N N N N N 20.367 70.082 47.849 -6.875 0.951 -1.603 H062 DN0 48
DN0 H072 H17 H 0 0 N N N N N N 18.142 68.497 47.574 -8.360 -1.451 -0.898 H072 DN0 49
DN0 H071 H18 H 0 0 N N N N N N 18.663 68.540 45.855 -7.959 -1.570 0.832 H071 DN0 50
DN0 H082 H19 H 0 0 N N N N N N 16.498 69.634 45.191 -6.073 -2.290 -0.662 H082 DN0 51
DN0 H081 H20 H 0 0 N N N N N N 15.983 69.712 46.910 -6.021 -0.643 -1.334 H081 DN0 52
DN0 H111 H21 H 0 0 N N N N N N 17.363 66.022 44.986 -4.240 -1.733 -1.487 H111 DN0 53
DN0 H121 H22 H 0 0 N N N N N N 17.287 65.113 42.737 -1.804 -1.921 -1.769 H121 DN0 54
DN0 H141 H23 H 0 0 N N N N N N 13.980 67.615 41.770 -1.234 -0.321 2.165 H141 DN0 55
DN0 H181 H24 H 0 0 N N N N N N 15.348 66.257 37.334 2.485 -2.222 -2.178 H181 DN0 56
DN0 H291 H25 H 0 0 N N N N N N 18.618 61.415 31.939 10.846 1.490 -2.187 H291 DN0 57
DN0 H301 H26 H 0 0 N N N N N N 19.470 62.753 30.039 12.188 0.914 -0.205 H301 DN0 58
DN0 H311 H27 H 0 0 N N N N N N 19.392 65.228 30.195 11.082 0.517 1.959 H311 DN0 59
DN0 H321 H28 H 0 0 N N N N N N 18.505 66.335 32.206 8.632 0.693 2.140 H321 DN0 60
DN0 H251 H30 H 0 0 N N N N N N 19.045 65.298 35.945 6.837 -0.787 -0.294 H251 DN0 61
#
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
DN0 C30 C31 DOUB Y N 1
DN0 C30 C29 SING Y N 2
DN0 C31 C32 SING Y N 3
DN0 C29 C28 DOUB Y N 4
DN0 C32 C27 DOUB Y N 5
DN0 C28 C27 SING Y N 6
DN0 C27 C26 SING N N 7
DN0 C26 N25 SING N N 8
DN0 N25 C23 SING N N 9
DN0 C22 C23 SING N N 10
DN0 C22 C19 SING N N 11
DN0 C23 O24 DOUB N N 12
DN0 C19 C18 DOUB Y N 13
DN0 C19 N20 SING Y N 14
DN0 C18 C17 SING Y N 15
DN0 N20 C21 DOUB Y N 16
DN0 C17 C16 DOUB Y N 17
DN0 C21 C16 SING Y N 18
DN0 C16 C13 SING N N 19
DN0 C13 C14 DOUB Y N 20
DN0 C13 C12 SING Y N 21
DN0 C14 C15 SING Y N 22
DN0 C12 C11 DOUB Y N 23
DN0 C15 C10 DOUB Y N 24
DN0 C11 C10 SING Y N 25
DN0 C10 O09 SING N N 26
DN0 C04 C03 SING N N 27
DN0 C04 N05 SING N N 28
DN0 C03 O02 SING N N 29
DN0 O09 C08 SING N N 30
DN0 C08 C07 SING N N 31
DN0 C07 N05 SING N N 32
DN0 N05 C06 SING N N 33
DN0 O02 C01 SING N N 34
DN0 C06 C01 SING N N 35
DN0 C15 H151 SING N N 36
DN0 C17 H171 SING N N 37
DN0 C21 H211 SING N N 38
DN0 C22 H222 SING N N 39
DN0 C22 H221 SING N N 40
DN0 C26 H261 SING N N 41
DN0 C26 H262 SING N N 42
DN0 C28 H281 SING N N 43
DN0 C01 H012 SING N N 44
DN0 C01 H011 SING N N 45
DN0 C03 H032 SING N N 46
DN0 C03 H031 SING N N 47
DN0 C04 H041 SING N N 48
DN0 C04 H042 SING N N 49
DN0 C06 H061 SING N N 50
DN0 C06 H062 SING N N 51
DN0 C07 H072 SING N N 52
DN0 C07 H071 SING N N 53
DN0 C08 H082 SING N N 54
DN0 C08 H081 SING N N 55
DN0 C11 H111 SING N N 56
DN0 C12 H121 SING N N 57
DN0 C14 H141 SING N N 58
DN0 C18 H181 SING N N 59
DN0 C29 H291 SING N N 60
DN0 C30 H301 SING N N 61
DN0 C31 H311 SING N N 62
DN0 C32 H321 SING N N 63
DN0 N25 H251 SING N N 64
#
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
DN0 InChI InChI 1.03 InChI=1S/C26H29N3O3/c30-26(28-19-21-4-2-1-3-5-21)18-24-9-6-23(20-27-24)22-7-10-25(11-8-22)32-17-14-29-12-15-31-16-13-29/h1-11,20H,12-19H2,(H,28,30)
DN0 InChIKey InChI 1.03 HUNGUWOZPQBXGX-UHFFFAOYSA-N
DN0 SMILES_CANONICAL CACTVS 3.385 O=C(Cc1ccc(cn1)c2ccc(OCCN3CCOCC3)cc2)NCc4ccccc4
DN0 SMILES CACTVS 3.385 O=C(Cc1ccc(cn1)c2ccc(OCCN3CCOCC3)cc2)NCc4ccccc4
DN0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1ccc(cc1)CNC(=O)Cc2ccc(cn2)c3ccc(cc3)OCCN4CCOCC4
DN0 SMILES "OpenEye OEToolkits" 2.0.7 c1ccc(cc1)CNC(=O)Cc2ccc(cn2)c3ccc(cc3)OCCN4CCOCC4
#
_pdbx_chem_comp_identifier.comp_id DN0
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 2-[5-[4-(2-morpholin-4-ylethoxy)phenyl]pyridin-2-yl]-~{N}-(phenylmethyl)ethanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
DN0 'Create component' 2019-08-15 PDBJ
DN0 'Initial release' 2019-10-23 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id DN0
_pdbe_chem_comp_drugbank_details.drugbank_id DB06137
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Tirbanibulin
_pdbe_chem_comp_drugbank_details.description
'Tirbanibulin (KX-O1 or KX2–391) is a dual inhibitor of Src Kinase and tubulin.[A225726] On December 14, 2020, tirbanibulin was approved by the FDA for the topical treatment of actinic keratosis on the face or scalp. It is marketed under the brand name Klisyri.[L27806] Actinic keratosis is a chronic condition characterized by lesions, which can potentially transform into invasive squamous cell carcinoma with a risk of 1% over 10 years.[A225721,A225741] Tirbanibulin blocks the molecular pathways that promote the proliferation, survival, and metastasis of malignant cells. Tirbanibulin exhibits antitumour effects in vitro and in vivo [A225791] and has been investigated for its antitumor efficacy in the management of various cancers, such as prostate cancer and breast cancer.[A225726,A225731,A225736]'
_pdbe_chem_comp_drugbank_details.cas_number 897016-82-9
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'Src tyrosine kinases regulate normal cell growth: the expression of Src kinase is upregulated during the normal hair cycle during the proliferative anagen phase. Additionally, Src tyrosine kinases act as key modulators of cancer cell proliferation, survival, angiogenesis, migration, invasion and metastasis. Src is frequently upregulated in various epithelial tumours including colon, breast and pancreas compared with the adjacent normal tissues. The expression and activity of Src are also enhanced in human actinic keratosis, which is characterized by hyperproliferative premalignant skin lesions.[A225746] The pathogenesis of actinic keratosis commonly involves skin inflammation, oxidative stress, immunosuppression, impaired apoptosis, mutagenesis, dysregulation of keratinocyte growth and proliferation, and tissue remodelling.[A225741] _In vitro_ studies suggest that Src plays a predominant role in the early stages of human skin tumour development, rather than at later stages of tumour progression.[A225746]   The exact mechanism of tirbanibulin as a topical treatment of actinic keratosis has not been fully elucidated;[L27786] however, it mainly works by inhibiting fast proliferating cells.[A225721] Tirbanibulin is a non-ATP competitive Src kinase inhibitor and tubulin polymerization inhibitor. It binds to the peptide substrate binding site of Src, a primary target of tirbanibulin, and blocking its downstream signalling pathways that promote cancer cell migration, proliferation, and survival.[A225721,A225731] Tublin is responsible for cell migration, protein transport, and mitosis: tibranibulin directly binds to the colchicine-binding site of beta-tubulin and causes induces tubulin depolymerization.[A225716] It is also hypothesized that inhibition of Src can also contribute to the inhibitory effects on microtubule polymerization.[A225791] At low nanomolar concentrations, tirbanibulin induces G2/M phase cell cycle arrest in a reversible [A225716,A225731] and dose-dependent manner. By inhibiting microtubule polymerization, tirbanibulin also induces mitotic catastrophe.[A225791]'
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
DN0 KX2-391 ChEMBL 'Research Code'
DN0 Tirbanibulin DrugBank ?
#
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
DN0 DB06137 'Tubulin beta chain' Humans P07437 yes 1
DN0 DB06137 'Proto-oncogene tyrosine-protein kinase Src' Humans P12931 yes 2
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 '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
DN0 C10 C 18.588 3.000 1
DN0 C13 C 15.990 1.500 2
DN0 C15 C 18.588 1.500 3
DN0 C17 C 13.392 1.500 4
DN0 C21 C 14.691 -0.750 5
DN0 C22 C 10.794 -1.500 6
DN0 C26 C 6.897 -0.750 7
DN0 C28 C 5.598 -3.000 8
DN0 C01 C 25.084 0.750 9
DN0 C03 C 26.383 3.000 10
DN0 C04 C 25.084 3.750 11
DN0 C06 C 23.785 1.500 12
DN0 C07 C 22.486 3.750 13
DN0 C08 C 21.187 3.000 14
DN0 C11 C 17.290 3.750 15
DN0 C12 C 15.990 3.000 16
DN0 C14 C 17.290 0.750 17
DN0 C16 C 14.691 0.750 18
DN0 C18 C 12.093 0.750 19
DN0 C19 C 12.093 -0.750 20
DN0 C23 C 9.495 -0.750 21
DN0 C27 C 5.598 -1.500 22
DN0 C29 C 4.299 -3.750 23
DN0 C30 C 3.000 -3.000 24
DN0 C31 C 3.000 -1.500 25
DN0 C32 C 4.299 -0.750 26
DN0 N05 N 23.785 3.000 27
DN0 N20 N 13.392 -1.500 28
DN0 N25 N 8.196 -1.500 29
DN0 O02 O 26.383 1.500 30
DN0 O09 O 19.887 3.750 31
DN0 O24 O 9.495 0.750 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
DN0 C30 C31 DOUBLE NONE 1
DN0 C30 C29 SINGLE NONE 2
DN0 C31 C32 SINGLE NONE 3
DN0 C29 C28 DOUBLE NONE 4
DN0 C32 C27 DOUBLE NONE 5
DN0 C28 C27 SINGLE NONE 6
DN0 C27 C26 SINGLE NONE 7
DN0 C26 N25 SINGLE NONE 8
DN0 N25 C23 SINGLE NONE 9
DN0 C22 C23 SINGLE NONE 10
DN0 C22 C19 SINGLE NONE 11
DN0 C23 O24 DOUBLE NONE 12
DN0 C19 C18 SINGLE NONE 13
DN0 C19 N20 DOUBLE NONE 14
DN0 C18 C17 DOUBLE NONE 15
DN0 N20 C21 SINGLE NONE 16
DN0 C17 C16 SINGLE NONE 17
DN0 C21 C16 DOUBLE NONE 18
DN0 C16 C13 SINGLE NONE 19
DN0 C13 C14 SINGLE NONE 20
DN0 C13 C12 DOUBLE NONE 21
DN0 C14 C15 DOUBLE NONE 22
DN0 C12 C11 SINGLE NONE 23
DN0 C15 C10 SINGLE NONE 24
DN0 C11 C10 DOUBLE NONE 25
DN0 C10 O09 SINGLE NONE 26
DN0 C04 C03 SINGLE NONE 27
DN0 C04 N05 SINGLE NONE 28
DN0 C03 O02 SINGLE NONE 29
DN0 O09 C08 SINGLE NONE 30
DN0 C08 C07 SINGLE NONE 31
DN0 C07 N05 SINGLE NONE 32
DN0 N05 C06 SINGLE NONE 33
DN0 O02 C01 SINGLE NONE 34
DN0 C06 C01 SINGLE NONE 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
DN0 MurckoScaffold S1 scaffold O=C(Cc1ccc(-c2ccc(OCCN3CCOCC3)cc2)cn1)NCc1ccccc1 InChI=1S/C26H29N3O3/c30-26(28-19-21-4-2-1-3-5-21)18-24-9-6-23(20-27-24)22-7-10-25(11-8-22)32-17-14-29-12-15-31-16-13-29/h1-11,20H,12-19H2,(H,28,30) HUNGUWOZPQBXGX-UHFFFAOYSA-N
DN0 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
DN0 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
DN0 pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
DN0 Z2856434843 F4 fragment OCCN1CCOCC1 InChI=1S/C6H13NO2/c8-4-1-7-2-5-9-6-3-7/h8H,1-6H2 KKFDCBRMNNSAAW-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
DN0 C10 S1 1
DN0 C13 S1 1
DN0 C15 S1 1
DN0 C17 S1 1
DN0 C21 S1 1
DN0 C22 S1 1
DN0 C26 S1 1
DN0 C28 S1 1
DN0 C01 S1 1
DN0 C03 S1 1
DN0 C04 S1 1
DN0 C06 S1 1
DN0 C07 S1 1
DN0 C08 S1 1
DN0 C11 S1 1
DN0 C12 S1 1
DN0 C14 S1 1
DN0 C16 S1 1
DN0 C18 S1 1
DN0 C19 S1 1
DN0 C23 S1 1
DN0 C27 S1 1
DN0 C29 S1 1
DN0 C30 S1 1
DN0 C31 S1 1
DN0 C32 S1 1
DN0 N05 S1 1
DN0 N20 S1 1
DN0 N25 S1 1
DN0 O02 S1 1
DN0 O09 S1 1
DN0 O24 S1 1
DN0 N25 F1 1
DN0 C23 F1 1
DN0 O24 F1 1
DN0 C22 F1 1
DN0 C10 F2 1
DN0 C15 F2 1
DN0 C14 F2 1
DN0 C13 F2 1
DN0 C12 F2 1
DN0 C11 F2 1
DN0 C28 F2 2
DN0 C29 F2 2
DN0 C30 F2 2
DN0 C31 F2 2
DN0 C32 F2 2
DN0 C27 F2 2
DN0 C21 F3 1
DN0 C16 F3 1
DN0 C17 F3 1
DN0 C18 F3 1
DN0 C19 F3 1
DN0 N20 F3 1
DN0 O09 F4 1
DN0 C08 F4 1
DN0 C07 F4 1
DN0 N05 F4 1
DN0 C04 F4 1
DN0 C03 F4 1
DN0 O02 F4 1
DN0 C01 F4 1
DN0 C06 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id DN0
_pdbe_chem_comp_rdkit_properties.exactmw 431.221
_pdbe_chem_comp_rdkit_properties.amw 431.536
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 9
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 32
_pdbe_chem_comp_rdkit_properties.NumAtoms 61
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.308
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 229.544
_pdbe_chem_comp_rdkit_properties.tpsa 63.690
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.367
_pdbe_chem_comp_rdkit_properties.CrippenMR 121.956
_pdbe_chem_comp_rdkit_properties.chi0v 15.566
_pdbe_chem_comp_rdkit_properties.chi1v 8.336
_pdbe_chem_comp_rdkit_properties.chi2v 3.160
_pdbe_chem_comp_rdkit_properties.chi3v 3.160
_pdbe_chem_comp_rdkit_properties.chi4v 1.852
_pdbe_chem_comp_rdkit_properties.chi0n 44.566
_pdbe_chem_comp_rdkit_properties.chi1n 22.783
_pdbe_chem_comp_rdkit_properties.chi2n 3.160
_pdbe_chem_comp_rdkit_properties.chi3n 3.160
_pdbe_chem_comp_rdkit_properties.chi4n 1.852
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.220
_pdbe_chem_comp_rdkit_properties.kappa1 6.012
_pdbe_chem_comp_rdkit_properties.kappa2 11.413
_pdbe_chem_comp_rdkit_properties.kappa3 6.638
_pdbe_chem_comp_rdkit_properties.Phi 2.144
#
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
DN0 UniChem ChEMBL CHEMBL571546
DN0 UniChem DrugBank DB06137
DN0 UniChem PDBe DN0
DN0 UniChem 'Guide to Pharmacology' 7957
DN0 UniChem ZINC ZINC000043152787
DN0 UniChem fdasrs 4V9848RS5G
DN0 UniChem HMDB HMDB0304857
DN0 UniChem Selleck kx2-391
DN0 UniChem LINCS LSM-45890
DN0 UniChem BindingDb 50303801
DN0 UniChem 'EPA CompTox Dashboard' DTXSID30237862
DN0 UniChem DrugCentral 5431
DN0 UniChem ChemicalBook CB02561484
DN0 UniChem ClinicalTrials KLISYRI
DN0 UniChem ClinicalTrials KX-01
DN0 UniChem ClinicalTrials KX-2-391
DN0 UniChem ClinicalTrials KX2-391
DN0 UniChem ClinicalTrials TIRBANIBULIN
DN0 UniChem MedChemExpress HY-10340
DN0 UniChem 'Probes And Drugs' PD003466
DN0 UniChem SureChEMBL SCHEMBL153779
DN0 UniChem 'PubChem TPHARMA' 46498254
DN0 UniChem PubChem 23635314
#
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
DN0 C10 -3.685 0.241 1.221 ETKDGv3 1
DN0 C13 -0.873 0.659 1.276 ETKDGv3 2
DN0 C15 -3.134 1.609 1.312 ETKDGv3 3
DN0 C17 1.490 -0.033 2.053 ETKDGv3 4
DN0 C21 1.150 1.919 0.643 ETKDGv3 5
DN0 C22 4.849 1.563 1.294 ETKDGv3 6
DN0 C26 6.402 -1.325 -0.818 ETKDGv3 7
DN0 C28 8.853 -1.280 -0.008 ETKDGv3 8
DN0 C01 -7.962 1.198 -2.044 ETKDGv3 9
DN0 C03 -8.349 -1.020 -2.610 ETKDGv3 10
DN0 C04 -7.978 -1.573 -1.221 ETKDGv3 11
DN0 C06 -7.165 0.693 -0.822 ETKDGv3 12
DN0 C07 -7.288 -0.922 1.060 ETKDGv3 13
DN0 C08 -5.765 -1.153 1.072 ETKDGv3 14
DN0 C11 -2.839 -0.806 1.171 ETKDGv3 15
DN0 C12 -1.378 -0.587 1.200 ETKDGv3 16
DN0 C14 -1.811 1.810 1.338 ETKDGv3 17
DN0 C16 0.595 0.883 1.301 ETKDGv3 18
DN0 C18 2.809 0.177 2.068 ETKDGv3 19
DN0 C19 3.370 1.331 1.333 ETKDGv3 20
DN0 C23 5.452 0.825 0.139 ETKDGv3 21
DN0 C27 7.834 -0.916 -1.024 ETKDGv3 22
DN0 C29 10.128 -0.902 -0.165 ETKDGv3 23
DN0 C30 10.526 -0.119 -1.352 ETKDGv3 24
DN0 C31 9.612 0.217 -2.270 ETKDGv3 25
DN0 C32 8.203 -0.196 -2.099 ETKDGv3 26
DN0 N05 -7.841 -0.478 -0.240 ETKDGv3 27
DN0 N20 2.573 2.119 0.668 ETKDGv3 28
DN0 N25 5.810 -0.557 0.275 ETKDGv3 29
DN0 O02 -8.931 0.264 -2.493 ETKDGv3 30
DN0 O09 -5.080 0.092 1.193 ETKDGv3 31
DN0 O24 5.602 1.417 -0.965 ETKDGv3 32
DN0 H151 -3.808 2.455 1.362 ETKDGv3 33
DN0 H171 1.081 -0.867 2.608 ETKDGv3 34
DN0 H211 0.540 2.600 0.064 ETKDGv3 35
DN0 H222 5.315 1.219 2.243 ETKDGv3 36
DN0 H221 5.059 2.651 1.198 ETKDGv3 37
DN0 H261 6.376 -2.406 -0.561 ETKDGv3 38
DN0 H262 5.796 -1.195 -1.741 ETKDGv3 39
DN0 H281 8.566 -1.852 0.866 ETKDGv3 40
DN0 H012 -7.270 1.459 -2.876 ETKDGv3 41
DN0 H011 -8.495 2.131 -1.762 ETKDGv3 42
DN0 H032 -9.079 -1.701 -3.096 ETKDGv3 43
DN0 H031 -7.451 -0.987 -3.270 ETKDGv3 44
DN0 H041 -7.043 -2.166 -1.309 ETKDGv3 45
DN0 H042 -8.786 -2.257 -0.880 ETKDGv3 46
DN0 H061 -7.088 1.507 -0.068 ETKDGv3 47
DN0 H062 -6.139 0.420 -1.156 ETKDGv3 48
DN0 H072 -7.793 -1.863 1.371 ETKDGv3 49
DN0 H071 -7.544 -0.168 1.836 ETKDGv3 50
DN0 H082 -5.515 -1.785 1.952 ETKDGv3 51
DN0 H081 -5.433 -1.683 0.157 ETKDGv3 52
DN0 H111 -3.203 -1.822 1.106 ETKDGv3 53
DN0 H121 -0.727 -1.449 1.135 ETKDGv3 54
DN0 H141 -1.433 2.821 1.422 ETKDGv3 55
DN0 H181 3.459 -0.491 2.620 ETKDGv3 56
DN0 H291 10.869 -1.169 0.577 ETKDGv3 57
DN0 H301 11.558 0.184 -1.476 ETKDGv3 58
DN0 H311 9.902 0.793 -3.140 ETKDGv3 59
DN0 H321 7.477 0.094 -2.849 ETKDGv3 60
DN0 H251 5.633 -1.041 1.184 ETKDGv3 61
#