data_YNY
#
_chem_comp.id YNY
_chem_comp.name
"methyl (8R)-8-{[(4P)-6-amino-3H-purin-3-yl]methyl}-4-hydroxy-6-(5,6,7-trimethoxy-1H-indole-2-carbonyl)-3,6,7,8-tetrahydropyrrolo[3,2-e]indole-2-carboxylate"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C30 H28 N8 O7"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-03-15
_chem_comp.pdbx_modified_date 2021-11-12
_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 612.593
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code YNY
_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 7LXJ
_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
YNY C20 C1 C 0 1 Y N N N N N -36.948 -7.916 15.632 0.240 2.606 -1.098 C20 YNY 1
YNY C21 C2 C 0 1 N N N N N N -36.077 -5.373 18.052 -0.378 -0.175 0.396 C21 YNY 2
YNY C23 C3 C 0 1 N N N N N N -34.493 -3.389 17.552 0.300 -2.530 -0.075 C23 YNY 3
YNY C25 C4 C 0 1 Y N N N N N -35.376 -2.474 16.826 1.722 -2.169 -0.001 C25 YNY 4
YNY C18 C5 C 0 1 Y N N N N N -36.778 -7.131 13.623 1.917 2.322 -2.422 C18 YNY 5
YNY C16 C6 C 0 1 Y N N N N N -38.134 -8.233 14.914 1.191 3.625 -0.867 C16 YNY 6
YNY C10 C7 C 0 1 N N N N N N -35.613 -7.978 17.752 -1.926 1.569 -0.557 C10 YNY 7
YNY C26 C8 C 0 1 Y N N N N N -36.724 -2.414 16.900 2.761 -2.992 -0.305 C26 YNY 8
YNY C27 C9 C 0 1 Y N N N N N -37.151 -1.346 16.053 3.960 -2.267 -0.105 C27 YNY 9
YNY C14 C10 C 0 1 Y N N N N N -39.154 -8.955 15.521 0.912 4.589 0.117 C14 YNY 10
YNY C28 C11 C 0 1 Y N N N N N -38.416 -0.839 15.740 5.317 -2.594 -0.256 C28 YNY 11
YNY N17 N1 N 0 1 Y N N N N N -38.010 -7.704 13.622 2.207 3.395 -1.716 N17 YNY 12
YNY O24 O1 O 0 1 N N N N N N -33.323 -3.076 17.563 -0.025 -3.681 -0.296 O24 YNY 13
YNY C01 C12 C 0 1 N N N N N N -34.146 -12.385 22.364 -10.025 0.490 0.358 C01 YNY 14
YNY C03 C13 C 0 1 N N N N N N -33.012 -10.252 22.483 -7.637 0.436 0.391 C03 YNY 15
YNY C05 C14 C 0 1 Y N N N N N -33.154 -9.000 21.708 -6.344 -0.250 0.272 C05 YNY 16
YNY C06 C15 C 0 1 Y N N N N N -34.208 -8.655 20.887 -5.125 0.335 0.415 C06 YNY 17
YNY C07 C16 C 0 1 Y N N N N N -33.945 -7.361 20.357 -4.141 -0.666 0.225 C07 YNY 18
YNY C08 C17 C 0 1 Y N N N N N -34.599 -6.512 19.501 -2.739 -0.650 0.254 C08 YNY 19
YNY C09 C18 C 0 1 N N R N N N -35.858 -6.736 18.761 -1.765 0.479 0.505 C09 YNY 20
YNY C12 C19 C 0 1 Y N N N N N -37.886 -9.031 17.439 -1.110 3.564 0.574 C12 YNY 21
YNY C29 C20 C 0 1 Y N N N N N -38.524 0.215 14.867 6.283 -1.653 0.022 C29 YNY 22
YNY C31 C21 C 0 1 N N N N N N -40.504 1.182 15.679 7.900 -3.294 -0.570 C31 YNY 23
YNY C32 C22 C 0 1 Y N N N N N -37.370 0.810 14.279 5.920 -0.375 0.454 C32 YNY 24
YNY C34 C23 C 0 1 N N N N N N -38.145 3.005 13.789 7.383 0.586 2.065 C34 YNY 25
YNY C35 C24 C 0 1 Y N N N N N -36.110 0.312 14.594 4.586 -0.038 0.608 C35 YNY 26
YNY C37 C25 C 0 1 N N N N N N -34.219 1.619 14.956 3.956 2.179 0.019 C37 YNY 27
YNY C38 C26 C 0 1 Y N N N N N -36.001 -0.778 15.480 3.595 -0.979 0.330 C38 YNY 28
YNY C40 C27 C 0 1 Y N N N N N -34.044 -5.294 19.176 -2.025 -1.807 0.029 C40 YNY 29
YNY C41 C28 C 0 1 Y N N N N N -32.787 -4.865 19.696 -2.714 -3.002 -0.230 C41 YNY 30
YNY C42 C29 C 0 1 Y N N N N N -32.118 -5.725 20.565 -4.090 -3.035 -0.262 C42 YNY 31
YNY C44 C30 C 0 1 Y N N N N N -32.692 -6.942 20.909 -4.823 -1.868 -0.036 C44 YNY 32
YNY N11 N2 N 0 1 Y N N N N N -36.809 -8.322 16.930 -0.914 2.607 -0.349 N11 YNY 33
YNY N13 N3 N 0 1 Y N N N N N -38.991 -9.349 16.810 -0.236 4.511 0.796 N13 YNY 34
YNY N15 N4 N 0 1 N N N N N N -40.327 -9.278 14.897 1.807 5.596 0.376 N15 YNY 35
YNY N19 N5 N 0 1 Y N N N N N -36.070 -7.202 14.796 0.733 1.842 -2.061 N19 YNY 36
YNY N22 N6 N 0 1 N N N N N N -34.818 -4.566 18.285 -0.645 -1.585 0.101 N22 YNY 37
YNY N39 N7 N 0 1 Y N N N N N -34.916 -1.476 15.969 2.218 -0.937 0.382 N39 YNY 38
YNY N45 N8 N 0 1 Y N N N N N -32.226 -7.948 21.739 -6.172 -1.593 -0.004 N45 YNY 39
YNY O02 O2 O 0 1 N N N N N N -34.113 -11.002 22.665 -8.785 -0.253 0.227 O02 YNY 40
YNY O04 O3 O 0 1 N N N N N N -31.938 -10.602 22.964 -7.674 1.626 0.637 O04 YNY 41
YNY O30 O4 O 0 1 N N N N N N -39.764 0.704 14.571 7.597 -1.970 -0.125 O30 YNY 42
YNY O33 O5 O 0 1 N N N N N N -37.410 1.863 13.407 6.884 0.545 0.726 O33 YNY 43
YNY O36 O6 O 0 1 N N N N N N -34.960 0.822 14.073 4.242 1.209 1.029 O36 YNY 44
YNY O43 O7 O 0 1 N N N N N N -30.896 -5.382 21.148 -4.736 -4.204 -0.516 O43 YNY 45
YNY H211 H1 H 0 0 N N N N N N -36.947 -4.855 18.483 0.193 0.280 -0.413 H211 YNY 46
YNY H212 H2 H 0 0 N N N N N N -36.238 -5.526 16.975 0.160 -0.080 1.339 H212 YNY 47
YNY H181 H3 H 0 0 N N N N N N -36.377 -6.645 12.746 2.549 1.898 -3.189 H181 YNY 48
YNY H101 H4 H 0 0 N N N N N N -35.334 -8.860 18.347 -1.801 1.132 -1.548 H101 YNY 49
YNY H102 H5 H 0 0 N N N N N N -34.787 -7.718 17.073 -2.920 2.009 -0.478 H102 YNY 50
YNY H261 H6 H 0 0 N N N N N N -37.361 -3.055 17.491 2.685 -4.016 -0.639 H261 YNY 51
YNY H281 H7 H 0 0 N N N N N N -39.301 -1.273 16.181 5.602 -3.581 -0.590 H281 YNY 52
YNY H013 H9 H 0 0 N N N N N N -35.144 -12.787 22.592 -10.053 1.286 -0.386 H013 YNY 53
YNY H011 H10 H 0 0 N N N N N N -33.926 -12.533 21.296 -10.869 -0.182 0.203 H011 YNY 54
YNY H012 H11 H 0 0 N N N N N N -33.393 -12.910 22.970 -10.084 0.924 1.357 H012 YNY 55
YNY H061 H12 H 0 0 N N N N N N -35.079 -9.260 20.683 -4.940 1.376 0.634 H061 YNY 56
YNY H091 H13 H 0 0 N N N N N N -36.696 -6.963 19.437 -1.912 0.896 1.502 H091 YNY 57
YNY H121 H14 H 0 0 N N N N N N -37.806 -9.357 18.466 -2.021 3.550 1.153 H121 YNY 58
YNY H311 H15 H 0 0 N N N N N N -41.482 1.552 15.336 8.981 -3.414 -0.644 H311 YNY 59
YNY H312 H16 H 0 0 N N N N N N -40.654 0.365 16.400 7.502 -4.016 0.143 H312 YNY 60
YNY H313 H17 H 0 0 N N N N N N -39.952 2.001 16.163 7.448 -3.461 -1.548 H313 YNY 61
YNY H343 H18 H 0 0 N N N N N N -38.086 3.763 12.994 6.565 0.807 2.751 H343 YNY 62
YNY H341 H19 H 0 0 N N N N N N -39.196 2.726 13.953 7.819 -0.380 2.319 H341 YNY 63
YNY H342 H20 H 0 0 N N N N N N -37.726 3.417 14.719 8.145 1.361 2.146 H342 YNY 64
YNY H372 H21 H 0 0 N N N N N N -33.313 1.984 14.449 4.801 2.252 -0.665 H372 YNY 65
YNY H371 H22 H 0 0 N N N N N N -34.830 2.476 15.277 3.066 1.876 -0.533 H371 YNY 66
YNY H373 H23 H 0 0 N N N N N N -33.933 1.023 15.835 3.781 3.149 0.486 H373 YNY 67
YNY H411 H24 H 0 0 N N N N N N -32.368 -3.907 19.426 -2.156 -3.910 -0.406 H411 YNY 68
YNY H151 H25 H 0 0 N N N N N N -40.913 -9.784 15.530 2.639 5.646 -0.121 H151 YNY 69
YNY H152 H26 H 0 0 N N N N N N -40.792 -8.441 14.609 1.608 6.258 1.057 H152 YNY 70
YNY H391 H28 H 0 0 N N N N N N -33.958 -1.296 15.745 1.685 -0.171 0.646 H391 YNY 71
YNY H451 H29 H 0 0 N N N N N N -31.377 -7.928 22.268 -6.884 -2.235 -0.149 H451 YNY 72
YNY H431 H30 H 0 0 N N N N N N -30.600 -6.092 21.705 -5.007 -4.684 0.279 H431 YNY 73
#
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
YNY O33 C34 SING N N 1
YNY O33 C32 SING N N 2
YNY N17 C18 DOUB Y N 3
YNY N17 C16 SING Y N 4
YNY C18 N19 SING Y N 5
YNY O36 C35 SING N N 6
YNY O36 C37 SING N N 7
YNY C32 C35 DOUB Y N 8
YNY C32 C29 SING Y N 9
YNY O30 C29 SING N N 10
YNY O30 C31 SING N N 11
YNY C35 C38 SING Y N 12
YNY N19 C20 DOUB Y N 13
YNY C29 C28 DOUB Y N 14
YNY N15 C14 SING N N 15
YNY C16 C14 DOUB Y N 16
YNY C16 C20 SING Y N 17
YNY C38 N39 SING Y N 18
YNY C38 C27 DOUB Y N 19
YNY C14 N13 SING Y N 20
YNY C20 N11 SING Y N 21
YNY C28 C27 SING Y N 22
YNY N39 C25 SING Y N 23
YNY C27 C26 SING Y N 24
YNY N13 C12 DOUB Y N 25
YNY C25 C26 DOUB Y N 26
YNY C25 C23 SING N N 27
YNY N11 C12 SING Y N 28
YNY N11 C10 SING N N 29
YNY C23 O24 DOUB N N 30
YNY C23 N22 SING N N 31
YNY C10 C09 SING N N 32
YNY C21 N22 SING N N 33
YNY C21 C09 SING N N 34
YNY N22 C40 SING N N 35
YNY C09 C08 SING N N 36
YNY C40 C08 DOUB Y N 37
YNY C40 C41 SING Y N 38
YNY C08 C07 SING Y N 39
YNY C41 C42 DOUB Y N 40
YNY C07 C06 SING Y N 41
YNY C07 C44 DOUB Y N 42
YNY C42 C44 SING Y N 43
YNY C42 O43 SING N N 44
YNY C06 C05 DOUB Y N 45
YNY C44 N45 SING Y N 46
YNY C05 N45 SING Y N 47
YNY C05 C03 SING N N 48
YNY C01 O02 SING N N 49
YNY C03 O02 SING N N 50
YNY C03 O04 DOUB N N 51
YNY C21 H211 SING N N 52
YNY C21 H212 SING N N 53
YNY C18 H181 SING N N 54
YNY C10 H101 SING N N 55
YNY C10 H102 SING N N 56
YNY C26 H261 SING N N 57
YNY C28 H281 SING N N 58
YNY C01 H013 SING N N 59
YNY C01 H011 SING N N 60
YNY C01 H012 SING N N 61
YNY C06 H061 SING N N 62
YNY C09 H091 SING N N 63
YNY C12 H121 SING N N 64
YNY C31 H311 SING N N 65
YNY C31 H312 SING N N 66
YNY C31 H313 SING N N 67
YNY C34 H343 SING N N 68
YNY C34 H341 SING N N 69
YNY C34 H342 SING N N 70
YNY C37 H372 SING N N 71
YNY C37 H371 SING N N 72
YNY C37 H373 SING N N 73
YNY C41 H411 SING N N 74
YNY N15 H151 SING N N 75
YNY N15 H152 SING N N 76
YNY N39 H391 SING N N 77
YNY N45 H451 SING N N 78
YNY O43 H431 SING N N 79
#
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
YNY SMILES ACDLabs 12.01 COc1cc2cc([NH]c2c(OC)c1OC)C(=O)N1CC(CN2C=NC(N)=C3N=CN=C32)c2c1cc(O)c1[NH]c(cc12)C(=O)OC
YNY InChI InChI 1.03 InChI=1S/C30H28N8O7/c1-42-20-6-13-5-16(35-22(13)26(44-3)25(20)43-2)29(40)38-10-14(9-37-12-34-27(31)24-28(37)33-11-32-24)21-15-7-17(30(41)45-4)36-23(15)19(39)8-18(21)38/h5-8,11-12,14,35-36,39H,9-10,31H2,1-4H3/t14-/m1/s1
YNY InChIKey InChI 1.03 AZHBDEJKEVQJNC-CQSZACIVSA-N
YNY SMILES_CANONICAL CACTVS 3.385 COC(=O)c1[nH]c2c(O)cc3N(C[C@@H](Cn4cnc(N)c5ncnc45)c3c2c1)C(=O)c6[nH]c7c(c6)cc(OC)c(OC)c7OC
YNY SMILES CACTVS 3.385 COC(=O)c1[nH]c2c(O)cc3N(C[CH](Cn4cnc(N)c5ncnc45)c3c2c1)C(=O)c6[nH]c7c(c6)cc(OC)c(OC)c7OC
YNY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 COc1cc2cc([nH]c2c(c1OC)OC)C(=O)N3C[C@H](c4c3cc(c5c4cc([nH]5)C(=O)OC)O)Cn6cnc(c-7ncnc67)N
YNY SMILES "OpenEye OEToolkits" 2.0.7 COc1cc2cc([nH]c2c(c1OC)OC)C(=O)N3CC(c4c3cc(c5c4cc([nH]5)C(=O)OC)O)Cn6cnc(c-7ncnc67)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
YNY "SYSTEMATIC NAME" ACDLabs 12.01 "methyl (8R)-8-{[(4P)-6-amino-3H-purin-3-yl]methyl}-4-hydroxy-6-(5,6,7-trimethoxy-1H-indole-2-carbonyl)-3,6,7,8-tetrahydropyrrolo[3,2-e]indole-2-carboxylate"
YNY "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "methyl (8~{R})-8-[(6-azanylpurin-3-yl)methyl]-4-oxidanyl-6-[(5,6,7-trimethoxy-1~{H}-indol-2-yl)carbonyl]-7,8-dihydro-3~{H}-pyrrolo[3,2-e]indole-2-carboxylate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
YNY 'Create component' 2021-03-15 RCSB
YNY 'Initial release' 2021-11-17 RCSB
#
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
YNY C20 C 5.492 2.601 1
YNY C21 C 0.268 3.287 2
YNY C23 C -2.346 2.728 3
YNY C25 C -3.404 1.669 4
YNY C18 C 7.526 3.924 5
YNY C16 C 6.660 1.659 6
YNY C10 C 2.926 3.007 7
YNY C26 C -3.171 0.187 8
YNY C27 C -4.508 -0.496 9
YNY C14 C 6.427 0.175 10
YNY C28 C -4.895 -1.945 11
YNY N17 N 7.918 2.475 12
YNY O24 O -2.735 4.177 13
YNY C01 C 6.427 -4.812 14
YNY C03 C 5.012 -2.633 15
YNY C05 C 3.674 -1.952 16
YNY C06 C 3.438 -0.471 17
YNY C07 C 1.955 -0.239 18
YNY C08 C 1.139 1.020 19
YNY C09 C 1.526 2.468 20
YNY C12 C 3.859 0.581 21
YNY C29 C -6.344 -2.332 22
YNY C31 C -5.671 -4.843 23
YNY C32 C -7.406 -1.272 24
YNY C34 C -9.242 -3.110 25
YNY C35 C -7.017 0.176 26
YNY C37 C -7.691 2.686 27
YNY C38 C -5.568 0.566 28
YNY C40 C -0.359 0.939 29
YNY C41 C -1.037 -0.395 30
YNY C42 C -0.223 -1.655 31
YNY C44 C 1.278 -1.575 32
YNY N11 N 4.094 2.063 33
YNY N13 N 5.027 -0.360 34
YNY N15 N 7.593 -0.766 35
YNY N19 N 6.031 4.004 36
YNY N22 N -0.896 2.340 37
YNY N39 N -4.889 1.900 38
YNY N45 N 2.339 -2.636 39
YNY O02 O 5.091 -4.131 40
YNY O04 O 6.269 -1.815 41
YNY O30 O -6.732 -3.782 42
YNY O33 O -8.854 -1.661 43
YNY O36 O -8.079 1.238 44
YNY O43 O -0.902 -2.991 45
#
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
YNY O33 C34 SINGLE NONE 1
YNY O33 C32 SINGLE NONE 2
YNY N17 C18 DOUBLE NONE 3
YNY N17 C16 SINGLE NONE 4
YNY C18 N19 SINGLE NONE 5
YNY O36 C35 SINGLE NONE 6
YNY O36 C37 SINGLE NONE 7
YNY C32 C35 DOUBLE NONE 8
YNY C32 C29 SINGLE NONE 9
YNY O30 C29 SINGLE NONE 10
YNY O30 C31 SINGLE NONE 11
YNY C35 C38 SINGLE NONE 12
YNY N19 C20 DOUBLE NONE 13
YNY C29 C28 DOUBLE NONE 14
YNY N15 C14 SINGLE NONE 15
YNY C16 C14 DOUBLE NONE 16
YNY C16 C20 SINGLE NONE 17
YNY C38 N39 SINGLE NONE 18
YNY C38 C27 DOUBLE NONE 19
YNY C14 N13 SINGLE NONE 20
YNY C20 N11 SINGLE NONE 21
YNY C28 C27 SINGLE NONE 22
YNY N39 C25 SINGLE NONE 23
YNY C27 C26 SINGLE NONE 24
YNY N13 C12 DOUBLE NONE 25
YNY C25 C26 DOUBLE NONE 26
YNY C25 C23 SINGLE NONE 27
YNY N11 C12 SINGLE NONE 28
YNY N11 C10 SINGLE NONE 29
YNY C23 O24 DOUBLE NONE 30
YNY C23 N22 SINGLE NONE 31
YNY C09 C10 SINGLE BEGINWEDGE 32
YNY C21 N22 SINGLE NONE 33
YNY C21 C09 SINGLE NONE 34
YNY N22 C40 SINGLE NONE 35
YNY C09 C08 SINGLE NONE 36
YNY C40 C08 DOUBLE NONE 37
YNY C40 C41 SINGLE NONE 38
YNY C08 C07 SINGLE NONE 39
YNY C41 C42 DOUBLE NONE 40
YNY C07 C06 SINGLE NONE 41
YNY C07 C44 DOUBLE NONE 42
YNY C42 C44 SINGLE NONE 43
YNY C42 O43 SINGLE NONE 44
YNY C06 C05 DOUBLE NONE 45
YNY C44 N45 SINGLE NONE 46
YNY C05 N45 SINGLE NONE 47
YNY C05 C03 SINGLE NONE 48
YNY C01 O02 SINGLE NONE 49
YNY C03 O02 SINGLE NONE 50
YNY C03 O04 DOUBLE NONE 51
#
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
YNY MurckoScaffold S1 scaffold 'O=C(c1cc2ccccc2[nH]1)N1C[C@@H](Cn2cncc3ncnc2-3)c2c1ccc1[nH]ccc21' InChI=1S/C25H19N7O/c33-25(20-9-15-3-1-2-4-18(15)30-20)32-12-16(11-31-14-26-10-21-24(31)29-13-28-21)23-17-7-8-27-19(17)5-6-22(23)32/h1-10,13-14,16,27,30H,11-12H2/t16-/m1/s1 NECOIHDQYJERLF-MRXNPFEDSA-N
YNY amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
YNY indole F2 fragment 'c1ccc2[nH]ccc2c1' InChI=1S/C8H7N/c1-2-4-8-7(3-1)5-6-9-8/h1-6,9H SIKJAQJRHWYJAI-UHFFFAOYSA-N
YNY phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
YNY pyrrole F4 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-UHFFFAOYSA-N
YNY Z2856434814 F5 fragment CCN(CC)c1cccc(O)c1 InChI=1S/C10H15NO/c1-3-11(4-2)9-6-5-7-10(12)8-9/h5-8,12H,3-4H2,1-2H3 WAVOOWVINKGEHS-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
YNY C20 S1 1
YNY C21 S1 1
YNY C23 S1 1
YNY C25 S1 1
YNY C18 S1 1
YNY C16 S1 1
YNY C10 S1 1
YNY C26 S1 1
YNY C27 S1 1
YNY C14 S1 1
YNY C28 S1 1
YNY N17 S1 1
YNY O24 S1 1
YNY C05 S1 1
YNY C06 S1 1
YNY C07 S1 1
YNY C08 S1 1
YNY C09 S1 1
YNY C12 S1 1
YNY C29 S1 1
YNY C32 S1 1
YNY C35 S1 1
YNY C38 S1 1
YNY C40 S1 1
YNY C41 S1 1
YNY C42 S1 1
YNY C44 S1 1
YNY N11 S1 1
YNY N13 S1 1
YNY N19 S1 1
YNY N22 S1 1
YNY N39 S1 1
YNY N45 S1 1
YNY N22 F1 1
YNY C23 F1 1
YNY O24 F1 1
YNY C25 F1 1
YNY C38 F2 1
YNY C27 F2 1
YNY C26 F2 1
YNY C25 F2 1
YNY N39 F2 1
YNY C28 F2 1
YNY C29 F2 1
YNY C32 F2 1
YNY C35 F2 1
YNY C44 F2 2
YNY C07 F2 2
YNY C06 F2 2
YNY C05 F2 2
YNY N45 F2 2
YNY C08 F2 2
YNY C40 F2 2
YNY C41 F2 2
YNY C42 F2 2
YNY C27 F3 1
YNY C38 F3 1
YNY C35 F3 1
YNY C32 F3 1
YNY C29 F3 1
YNY C28 F3 1
YNY C07 F3 2
YNY C08 F3 2
YNY C40 F3 2
YNY C41 F3 2
YNY C42 F3 2
YNY C44 F3 2
YNY C25 F4 1
YNY C26 F4 1
YNY C27 F4 1
YNY C38 F4 1
YNY N39 F4 1
YNY C05 F4 2
YNY C06 F4 2
YNY C07 F4 2
YNY C44 F4 2
YNY N45 F4 2
YNY C25 F5 1
YNY C23 F5 1
YNY N22 F5 1
YNY C21 F5 1
YNY C09 F5 1
YNY C40 F5 1
YNY C08 F5 1
YNY C07 F5 1
YNY C44 F5 1
YNY C42 F5 1
YNY O43 F5 1
YNY C41 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id YNY
_pdbe_chem_comp_rdkit_properties.exactmw 612.208
_pdbe_chem_comp_rdkit_properties.amw 612.603
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 15
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 5
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 13
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 12
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 45
_pdbe_chem_comp_rdkit_properties.NumAtoms 73
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 15
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.233
_pdbe_chem_comp_rdkit_properties.NumRings 7
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 3
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 294.049
_pdbe_chem_comp_rdkit_properties.tpsa 195.730
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.727
_pdbe_chem_comp_rdkit_properties.CrippenMR 151.907
_pdbe_chem_comp_rdkit_properties.chi0v 21.435
_pdbe_chem_comp_rdkit_properties.chi1v 11.797
_pdbe_chem_comp_rdkit_properties.chi2v 6.335
_pdbe_chem_comp_rdkit_properties.chi3v 6.335
_pdbe_chem_comp_rdkit_properties.chi4v 4.473
_pdbe_chem_comp_rdkit_properties.chi0n 49.435
_pdbe_chem_comp_rdkit_properties.chi1n 25.494
_pdbe_chem_comp_rdkit_properties.chi2n 6.335
_pdbe_chem_comp_rdkit_properties.chi3n 6.335
_pdbe_chem_comp_rdkit_properties.chi4n 4.473
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -5.990
_pdbe_chem_comp_rdkit_properties.kappa1 10.573
_pdbe_chem_comp_rdkit_properties.kappa2 10.325
_pdbe_chem_comp_rdkit_properties.kappa3 4.148
_pdbe_chem_comp_rdkit_properties.Phi 2.426
#
#
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
YNY C20 -4.196 -2.316 -1.188 ETKDGv3 1
YNY C21 0.009 -0.505 -0.328 ETKDGv3 2
YNY C23 1.416 0.491 1.576 ETKDGv3 3
YNY C25 2.764 0.179 1.069 ETKDGv3 4
YNY C18 -4.791 -2.792 -3.188 ETKDGv3 5
YNY C16 -5.603 -2.350 -1.279 ETKDGv3 6
YNY C10 -2.085 -1.863 0.142 ETKDGv3 7
YNY C26 3.171 0.303 -0.196 ETKDGv3 8
YNY C27 4.583 -0.060 -0.204 ETKDGv3 9
YNY C14 -6.370 -2.048 -0.233 ETKDGv3 10
YNY C28 5.538 -0.096 -1.310 ETKDGv3 11
YNY N17 -5.955 -2.667 -2.612 ETKDGv3 12
YNY O24 1.272 0.730 2.805 ETKDGv3 13
YNY C01 -8.709 3.690 -0.791 ETKDGv3 14
YNY C03 -6.633 2.347 -0.728 ETKDGv3 15
YNY C05 -5.298 2.135 -0.154 ETKDGv3 16
YNY C06 -4.458 1.160 -0.503 ETKDGv3 17
YNY C07 -3.262 1.341 0.312 ETKDGv3 18
YNY C08 -1.963 0.649 0.300 ETKDGv3 19
YNY C09 -1.536 -0.559 -0.476 ETKDGv3 20
YNY C12 -4.413 -1.665 1.150 ETKDGv3 21
YNY C29 6.819 -0.457 -1.060 ETKDGv3 22
YNY C31 7.510 -0.199 -3.463 ETKDGv3 23
YNY C32 7.238 -0.812 0.357 ETKDGv3 24
YNY C34 9.644 -1.304 -0.238 ETKDGv3 25
YNY C35 6.314 -0.761 1.362 ETKDGv3 26
YNY C37 7.813 -1.467 3.280 ETKDGv3 27
YNY C38 4.939 -0.363 1.022 ETKDGv3 28
YNY C40 -0.956 1.160 0.989 ETKDGv3 29
YNY C41 -1.125 2.386 1.823 ETKDGv3 30
YNY C42 -2.333 2.991 1.866 ETKDGv3 31
YNY C44 -3.438 2.418 1.060 ETKDGv3 32
YNY N11 -3.542 -1.950 0.029 ETKDGv3 33
YNY N13 -5.718 -1.709 1.015 ETKDGv3 34
YNY N15 -7.794 -2.039 -0.328 ETKDGv3 35
YNY N19 -3.654 -2.567 -2.328 ETKDGv3 36
YNY N22 0.266 0.494 0.712 ETKDGv3 37
YNY N39 3.841 -0.234 1.912 ETKDGv3 38
YNY N45 -4.721 2.983 0.842 ETKDGv3 39
YNY O02 -7.405 3.426 -0.288 ETKDGv3 40
YNY O04 -7.078 1.557 -1.605 ETKDGv3 41
YNY O30 7.767 -0.505 -2.095 ETKDGv3 42
YNY O33 8.555 -1.194 0.669 ETKDGv3 43
YNY O36 6.570 -1.063 2.714 ETKDGv3 44
YNY O43 -2.543 4.139 2.627 ETKDGv3 45
YNY H211 0.450 -1.486 -0.045 ETKDGv3 46
YNY H212 0.456 -0.168 -1.286 ETKDGv3 47
YNY H181 -4.690 -3.036 -4.237 ETKDGv3 48
YNY H101 -1.782 -1.935 1.210 ETKDGv3 49
YNY H102 -1.632 -2.734 -0.381 ETKDGv3 50
YNY H261 2.592 0.655 -1.037 ETKDGv3 51
YNY H281 5.195 0.166 -2.301 ETKDGv3 52
YNY H013 -9.116 4.593 -0.291 ETKDGv3 53
YNY H011 -9.379 2.830 -0.582 ETKDGv3 54
YNY H012 -8.664 3.874 -1.885 ETKDGv3 55
YNY H061 -4.623 0.416 -1.268 ETKDGv3 56
YNY H091 -1.835 -0.466 -1.543 ETKDGv3 57
YNY H121 -3.991 -1.394 2.109 ETKDGv3 58
YNY H311 8.447 -0.326 -4.044 ETKDGv3 59
YNY H312 6.743 -0.889 -3.872 ETKDGv3 60
YNY H313 7.172 0.855 -3.562 ETKDGv3 61
YNY H343 9.425 -2.070 -1.011 ETKDGv3 62
YNY H341 10.545 -1.628 0.322 ETKDGv3 63
YNY H342 9.861 -0.318 -0.700 ETKDGv3 64
YNY H372 8.146 -2.427 2.833 ETKDGv3 65
YNY H371 7.675 -1.624 4.370 ETKDGv3 66
YNY H373 8.577 -0.674 3.139 ETKDGv3 67
YNY H411 -0.287 2.797 2.371 ETKDGv3 68
YNY H151 -8.370 -1.788 0.506 ETKDGv3 69
YNY H152 -8.280 -2.275 -1.222 ETKDGv3 70
YNY H391 3.827 -0.398 2.943 ETKDGv3 71
YNY H451 -5.112 3.862 1.246 ETKDGv3 72
YNY H431 -1.801 4.552 3.180 ETKDGv3 73
#