data_Y5D
#
_chem_comp.id Y5D
_chem_comp.name
{1-(ethylsulfonyl)-3-[4-(2-{[3-fluoro-4-(1-methylpiperidin-4-yl)phenyl]amino}-7H-pyrrolo[2,3-d]pyrimidin-4-yl)-1H-pyrazol-1-yl]azetidin-3-yl}acetonitrile
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C28 H32 F N9 O2 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-02-04
_chem_comp.pdbx_modified_date 2022-01-07
_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 577.676
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code Y5D
_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 7LL4
_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
Y5D C10 C1 C 0 1 Y N N N N N 11.713 -16.514 5.496 -3.076 -0.769 0.809 C10 Y5D 1
Y5D C13 C2 C 0 1 Y N N N N N 10.434 -19.415 5.833 -0.088 -2.399 -0.713 C13 Y5D 2
Y5D C15 C3 C 0 1 Y N N N N N 11.752 -21.226 6.043 0.688 -4.289 -1.663 C15 Y5D 3
Y5D C17 C4 C 0 1 Y N N N N N 9.677 -20.548 6.154 1.320 -2.364 -0.699 C17 Y5D 4
Y5D C21 C5 C 0 1 Y N N N N N 5.425 -18.162 6.122 3.288 0.860 0.771 C21 Y5D 5
Y5D C22 C6 C 0 1 Y N N N N N 4.082 -18.444 6.386 3.940 0.339 -0.340 C22 Y5D 6
Y5D C24 C7 C 0 1 Y N N N N N 3.507 -16.152 5.924 6.047 1.005 0.583 C24 Y5D 7
Y5D C26 C8 C 0 1 N N N N N N 1.967 -14.853 7.116 7.935 1.882 -0.768 C26 Y5D 8
Y5D C04 C9 C 0 1 N N N N N N 14.130 -14.862 4.682 -5.622 0.955 1.448 C04 Y5D 9
Y5D C05 C10 C 0 1 N N N N N N 12.927 -14.344 5.365 -5.541 -0.562 1.197 C05 Y5D 10
Y5D C06 C11 C 0 1 N N N N N N 13.133 -13.902 6.820 -5.770 -1.407 2.451 C06 Y5D 11
Y5D C07 C12 C 0 1 N N N N N N 13.315 -15.088 7.762 -5.631 -2.833 2.114 C07 Y5D 12
Y5D C11 C13 C 0 1 Y N N N N N 10.385 -16.857 5.380 -2.277 -1.302 -0.164 C11 Y5D 13
Y5D C12 C14 C 0 1 Y N N N N N 9.728 -18.211 5.638 -0.797 -1.313 -0.173 C12 Y5D 14
Y5D C14 C15 C 0 1 Y N N N N N 11.778 -19.862 5.737 -0.458 -3.663 -1.347 C14 Y5D 15
Y5D C19 C16 C 0 1 Y N N N N N 7.764 -19.279 6.142 1.221 -0.300 0.326 C19 Y5D 16
Y5D C23 C17 C 0 1 Y N N N N N 3.108 -17.442 6.275 5.316 0.414 -0.431 C23 Y5D 17
Y5D C25 C18 C 0 1 N N N N N N 2.578 -14.922 5.803 7.548 1.084 0.481 C25 Y5D 18
Y5D C27 C19 C 0 1 N N N N N N 1.010 -13.656 7.227 9.459 1.907 -0.900 C27 Y5D 19
Y5D C29 C20 C 0 1 N N N N N N 0.330 -11.877 6.167 9.448 -0.135 -2.201 C29 Y5D 20
Y5D C30 C21 C 0 1 N N N N N N 0.818 -13.543 4.833 9.648 -0.239 0.210 C30 Y5D 21
Y5D C31 C22 C 0 1 N N N N N N 1.643 -14.832 4.713 8.129 -0.328 0.375 C31 Y5D 22
Y5D C32 C23 C 0 1 Y N N N N N 4.847 -15.907 5.665 5.400 1.531 1.690 C32 Y5D 23
Y5D C34 C24 C 0 1 Y N N N N N 5.810 -16.890 5.759 4.023 1.459 1.786 C34 Y5D 24
Y5D C36 C25 C 0 1 Y N N N N N 9.645 -15.697 5.202 -3.121 -1.841 -1.157 C36 Y5D 25
Y5D C38 C26 C 0 1 N N N N N N 12.876 -13.167 4.500 -6.801 -0.384 0.330 C38 Y5D 26
Y5D C39 C27 C 0 1 N N N N N N 15.682 -11.956 2.275 -8.150 3.045 -0.371 C39 Y5D 27
Y5D C40 C28 C 0 1 N N N N N N 14.935 -10.783 2.914 -8.507 4.171 -1.343 C40 Y5D 28
Y5D F33 F1 F 0 1 N N N N N N 5.275 -14.650 5.336 6.116 2.114 2.676 F33 Y5D 29
Y5D N03 N1 N 0 1 N N N N N N 14.147 -13.609 3.906 -6.380 1.023 0.184 N03 Y5D 30
Y5D N08 N2 N 0 1 N N N N N N 13.430 -16.010 8.440 -5.524 -3.934 1.853 N08 Y5D 31
Y5D N09 N3 N 0 1 Y N N N N N 11.769 -15.197 5.279 -4.355 -0.972 0.440 N09 Y5D 32
Y5D N16 N4 N 0 1 Y N N N N N 10.500 -21.600 6.287 1.758 -3.524 -1.276 N16 Y5D 33
Y5D N18 N5 N 0 1 Y N N N N N 8.328 -20.454 6.331 1.926 -1.302 -0.173 N18 Y5D 34
Y5D N20 N6 N 0 1 N N N N N N 6.349 -19.268 6.281 1.895 0.786 0.864 N20 Y5D 35
Y5D N28 N7 N 0 1 N N N N N N 1.087 -12.821 6.052 9.966 0.532 -0.999 N28 Y5D 36
Y5D N35 N8 N 0 1 Y N N N N N 8.422 -18.180 5.812 -0.105 -0.293 0.332 N35 Y5D 37
Y5D N37 N9 N 0 1 Y N N N N N 10.511 -14.673 5.114 -4.358 -1.637 -0.791 N37 Y5D 38
Y5D O01 O1 O 0 1 N N N N N N 15.219 -14.598 1.793 -6.908 1.488 -2.146 O01 Y5D 39
Y5D O41 O2 O 0 1 N N N N N N 13.380 -13.171 1.584 -5.522 3.061 -0.832 O41 Y5D 40
Y5D S02 S1 S 0 1 N N N N N N 14.600 -13.407 2.310 -6.650 2.204 -0.945 S02 Y5D 41
Y5D H101 H1 H 0 0 N N N N N N 12.539 -17.174 5.717 -2.742 -0.279 1.711 H101 Y5D 42
Y5D H151 H2 H 0 0 N N N N N N 12.615 -21.875 6.076 0.755 -5.254 -2.144 H151 Y5D 43
Y5D H221 H3 H 0 0 N N N N N N 3.792 -19.443 6.678 3.371 -0.124 -1.132 H221 Y5D 44
Y5D H261 H4 H 0 0 N N N N N N 1.403 -15.780 7.298 7.501 1.410 -1.650 H261 Y5D 45
Y5D H262 H5 H 0 0 N N N N N N 2.758 -14.750 7.874 7.560 2.902 -0.680 H262 Y5D 46
Y5D H042 H6 H 0 0 N N N N N N 13.963 -15.770 4.084 -6.208 1.224 2.327 H042 Y5D 47
Y5D H041 H7 H 0 0 N N N N N N 15.002 -15.009 5.336 -4.656 1.459 1.411 H041 Y5D 48
Y5D H061 H8 H 0 0 N N N N N N 14.029 -13.266 6.874 -5.034 -1.140 3.209 H061 Y5D 49
Y5D H062 H9 H 0 0 N N N N N N 12.254 -13.325 7.143 -6.773 -1.221 2.837 H062 Y5D 50
Y5D H141 H10 H 0 0 N N N N N N 12.644 -19.270 5.480 -1.459 -4.024 -1.525 H141 Y5D 51
Y5D H231 H11 H 0 0 N N N N N N 2.067 -17.665 6.458 5.823 0.009 -1.294 H231 Y5D 52
Y5D H251 H12 H 0 0 N N N N N N 3.247 -14.053 5.720 7.948 1.578 1.366 H251 Y5D 53
Y5D H272 H13 H 0 0 N N N N N N 1.281 -13.059 8.111 9.737 2.461 -1.796 H272 Y5D 54
Y5D H271 H14 H 0 0 N N N N N N -0.019 -14.028 7.337 9.891 2.391 -0.024 H271 Y5D 55
Y5D H291 H15 H 0 0 N N N N N N 0.551 -11.341 7.101 8.365 -0.233 -2.123 H291 Y5D 56
Y5D H293 H16 H 0 0 N N N N N N 0.461 -11.196 5.313 9.697 0.457 -3.081 H293 Y5D 57
Y5D H292 H17 H 0 0 N N N N N N -0.708 -12.240 6.190 9.896 -1.125 -2.289 H292 Y5D 58
Y5D H302 H18 H 0 0 N N N N N N 1.056 -12.892 3.979 10.079 0.255 1.080 H302 Y5D 59
Y5D H301 H19 H 0 0 N N N N N N -0.250 -13.805 4.808 10.062 -1.243 0.120 H301 Y5D 60
Y5D H312 H20 H 0 0 N N N N N N 0.968 -15.700 4.740 7.893 -0.887 1.280 H312 Y5D 61
Y5D H311 H21 H 0 0 N N N N N N 2.194 -14.825 3.761 7.698 -0.835 -0.489 H311 Y5D 62
Y5D H341 H22 H 0 0 N N N N N N 6.846 -16.667 5.552 3.518 1.870 2.648 H341 Y5D 63
Y5D H361 H23 H 0 0 N N N N N N 8.569 -15.629 5.145 -2.800 -2.336 -2.062 H361 Y5D 64
Y5D H382 H24 H 0 0 N N N N N N 12.931 -12.206 5.033 -6.777 -0.949 -0.601 H382 Y5D 65
Y5D H381 H25 H 0 0 N N N N N N 12.027 -13.151 3.801 -7.734 -0.511 0.880 H381 Y5D 66
Y5D H392 H26 H 0 0 N N N N N N 16.602 -12.164 2.842 -7.976 3.463 0.621 H392 Y5D 67
Y5D H391 H27 H 0 0 N N N N N N 15.940 -11.710 1.234 -8.972 2.331 -0.325 H391 Y5D 68
Y5D H402 H28 H 0 0 N N N N N N 15.576 -9.889 2.903 -7.685 4.886 -1.389 H402 Y5D 69
Y5D H403 H29 H 0 0 N N N N N N 14.015 -10.581 2.346 -8.682 3.754 -2.335 H403 Y5D 70
Y5D H401 H30 H 0 0 N N N N N N 14.676 -11.035 3.953 -9.409 4.677 -0.998 H401 Y5D 71
Y5D H161 H31 H 0 0 N N N N N N 10.214 -22.526 6.533 2.690 -3.767 -1.399 H161 Y5D 72
Y5D H201 H32 H 0 0 N N N N N N 5.933 -20.145 6.522 1.401 1.494 1.304 H201 Y5D 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
Y5D O41 S02 DOUB N N 1
Y5D O01 S02 DOUB N N 2
Y5D C39 S02 SING N N 3
Y5D C39 C40 SING N N 4
Y5D S02 N03 SING N N 5
Y5D N03 C38 SING N N 6
Y5D N03 C04 SING N N 7
Y5D C38 C05 SING N N 8
Y5D C04 C05 SING N N 9
Y5D C31 C30 SING N N 10
Y5D C31 C25 SING N N 11
Y5D C30 N28 SING N N 12
Y5D N37 C36 DOUB Y N 13
Y5D N37 N09 SING Y N 14
Y5D C36 C11 SING Y N 15
Y5D N09 C05 SING N N 16
Y5D N09 C10 SING Y N 17
Y5D F33 C32 SING N N 18
Y5D C05 C06 SING N N 19
Y5D C11 C10 DOUB Y N 20
Y5D C11 C12 SING N N 21
Y5D C12 N35 DOUB Y N 22
Y5D C12 C13 SING Y N 23
Y5D C32 C34 DOUB Y N 24
Y5D C32 C24 SING Y N 25
Y5D C14 C13 SING Y N 26
Y5D C14 C15 DOUB Y N 27
Y5D C34 C21 SING Y N 28
Y5D C25 C24 SING N N 29
Y5D C25 C26 SING N N 30
Y5D N35 C19 SING Y N 31
Y5D C13 C17 DOUB Y N 32
Y5D C24 C23 DOUB Y N 33
Y5D C15 N16 SING Y N 34
Y5D N28 C29 SING N N 35
Y5D N28 C27 SING N N 36
Y5D C21 N20 SING N N 37
Y5D C21 C22 DOUB Y N 38
Y5D C19 N20 SING N N 39
Y5D C19 N18 DOUB Y N 40
Y5D C17 N16 SING Y N 41
Y5D C17 N18 SING Y N 42
Y5D C23 C22 SING Y N 43
Y5D C06 C07 SING N N 44
Y5D C26 C27 SING N N 45
Y5D C07 N08 TRIP N N 46
Y5D C10 H101 SING N N 47
Y5D C15 H151 SING N N 48
Y5D C22 H221 SING N N 49
Y5D C26 H261 SING N N 50
Y5D C26 H262 SING N N 51
Y5D C04 H042 SING N N 52
Y5D C04 H041 SING N N 53
Y5D C06 H061 SING N N 54
Y5D C06 H062 SING N N 55
Y5D C14 H141 SING N N 56
Y5D C23 H231 SING N N 57
Y5D C25 H251 SING N N 58
Y5D C27 H272 SING N N 59
Y5D C27 H271 SING N N 60
Y5D C29 H291 SING N N 61
Y5D C29 H293 SING N N 62
Y5D C29 H292 SING N N 63
Y5D C30 H302 SING N N 64
Y5D C30 H301 SING N N 65
Y5D C31 H312 SING N N 66
Y5D C31 H311 SING N N 67
Y5D C34 H341 SING N N 68
Y5D C36 H361 SING N N 69
Y5D C38 H382 SING N N 70
Y5D C38 H381 SING N N 71
Y5D C39 H392 SING N N 72
Y5D C39 H391 SING N N 73
Y5D C40 H402 SING N N 74
Y5D C40 H403 SING N N 75
Y5D C40 H401 SING N N 76
Y5D N16 H161 SING N N 77
Y5D N20 H201 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
Y5D SMILES ACDLabs 12.01 "c5c(c4c1c(ncc1)nc(Nc3ccc(C2CCN(C)CC2)c(c3)F)n4)cnn5C6(CN(C6)S(CC)(=O)=O)CC#N"
Y5D InChI InChI 1.03 InChI=1S/C28H32FN9O2S/c1-3-41(39,40)37-17-28(18-37,9-10-30)38-16-20(15-32-38)25-23-6-11-31-26(23)35-27(34-25)33-21-4-5-22(24(29)14-21)19-7-12-36(2)13-8-19/h4-6,11,14-16,19H,3,7-9,12-13,17-18H2,1-2H3,(H2,31,33,34,35)
Y5D InChIKey InChI 1.03 KODVAIZRONHLFN-UHFFFAOYSA-N
Y5D SMILES_CANONICAL CACTVS 3.385 "CC[S](=O)(=O)N1CC(CC#N)(C1)n2cc(cn2)c3nc(Nc4ccc(C5CCN(C)CC5)c(F)c4)nc6[nH]ccc36"
Y5D SMILES CACTVS 3.385 "CC[S](=O)(=O)N1CC(CC#N)(C1)n2cc(cn2)c3nc(Nc4ccc(C5CCN(C)CC5)c(F)c4)nc6[nH]ccc36"
Y5D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCS(=O)(=O)N1CC(C1)(CC#N)n2cc(cn2)c3c4cc[nH]c4nc(n3)Nc5ccc(c(c5)F)C6CCN(CC6)C"
Y5D SMILES "OpenEye OEToolkits" 2.0.7 "CCS(=O)(=O)N1CC(C1)(CC#N)n2cc(cn2)c3c4cc[nH]c4nc(n3)Nc5ccc(c(c5)F)C6CCN(CC6)C"
#
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
Y5D "SYSTEMATIC NAME" ACDLabs 12.01 {1-(ethylsulfonyl)-3-[4-(2-{[3-fluoro-4-(1-methylpiperidin-4-yl)phenyl]amino}-7H-pyrrolo[2,3-d]pyrimidin-4-yl)-1H-pyrazol-1-yl]azetidin-3-yl}acetonitrile
Y5D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 2-[1-ethylsulfonyl-3-[4-[2-[[3-fluoranyl-4-(1-methylpiperidin-4-yl)phenyl]amino]-7~{H}-pyrrolo[2,3-d]pyrimidin-4-yl]pyrazol-1-yl]azetidin-3-yl]ethanenitrile
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Y5D 'Create component' 2021-02-04 RCSB
Y5D 'Initial release' 2022-01-12 RCSB
#
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
Y5D C10 C 9.014 4.688 1
Y5D C13 C 11.527 1.557 2
Y5D C15 C 13.821 0.806 3
Y5D C17 C 11.527 0.057 4
Y5D C21 C 7.629 -2.193 5
Y5D C22 C 6.330 -2.943 6
Y5D C24 C 7.629 -5.194 7
Y5D C26 C 6.330 -7.444 8
Y5D C04 C 7.714 8.542 9
Y5D C05 C 8.596 7.328 10
Y5D C06 C 9.809 8.210 11
Y5D C07 C 9.652 9.702 12
Y5D C11 C 10.227 3.807 13
Y5D C12 C 10.227 2.307 14
Y5D C14 C 12.946 2.014 15
Y5D C19 C 8.928 0.057 16
Y5D C23 C 6.330 -4.444 17
Y5D C25 C 7.629 -6.694 18
Y5D C27 C 6.330 -8.944 19
Y5D C29 C 7.629 -11.194 20
Y5D C30 C 8.928 -8.944 21
Y5D C31 C 8.928 -7.444 22
Y5D C32 C 8.928 -4.444 23
Y5D C34 C 8.928 -2.943 24
Y5D C36 C 11.441 4.688 25
Y5D C38 C 7.382 6.447 26
Y5D C39 C 3.538 8.129 27
Y5D C40 C 3.000 9.530 28
Y5D F33 F 10.227 -5.194 29
Y5D N03 N 6.501 7.660 30
Y5D N08 N 9.496 11.194 31
Y5D N09 N 9.477 6.115 32
Y5D N16 N 12.946 -0.401 33
Y5D N18 N 10.227 -0.694 34
Y5D N20 N 7.629 -0.694 35
Y5D N28 N 7.629 -9.694 36
Y5D N35 N 8.928 1.557 37
Y5D N37 N 10.977 6.115 38
Y5D O01 O 4.784 6.413 39
Y5D O41 O 5.254 9.376 40
Y5D S02 S 5.019 7.895 41
#
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
Y5D O41 S02 DOUBLE NONE 1
Y5D O01 S02 DOUBLE NONE 2
Y5D C39 S02 SINGLE NONE 3
Y5D C39 C40 SINGLE NONE 4
Y5D S02 N03 SINGLE NONE 5
Y5D N03 C38 SINGLE NONE 6
Y5D N03 C04 SINGLE NONE 7
Y5D C38 C05 SINGLE NONE 8
Y5D C04 C05 SINGLE NONE 9
Y5D C31 C30 SINGLE NONE 10
Y5D C31 C25 SINGLE NONE 11
Y5D C30 N28 SINGLE NONE 12
Y5D N37 C36 DOUBLE NONE 13
Y5D N37 N09 SINGLE NONE 14
Y5D C36 C11 SINGLE NONE 15
Y5D N09 C05 SINGLE NONE 16
Y5D N09 C10 SINGLE NONE 17
Y5D F33 C32 SINGLE NONE 18
Y5D C05 C06 SINGLE NONE 19
Y5D C11 C10 DOUBLE NONE 20
Y5D C11 C12 SINGLE NONE 21
Y5D C12 N35 SINGLE NONE 22
Y5D C12 C13 DOUBLE NONE 23
Y5D C32 C34 DOUBLE NONE 24
Y5D C32 C24 SINGLE NONE 25
Y5D C14 C13 SINGLE NONE 26
Y5D C14 C15 DOUBLE NONE 27
Y5D C34 C21 SINGLE NONE 28
Y5D C25 C24 SINGLE NONE 29
Y5D C25 C26 SINGLE NONE 30
Y5D N35 C19 DOUBLE NONE 31
Y5D C13 C17 SINGLE NONE 32
Y5D C24 C23 DOUBLE NONE 33
Y5D C15 N16 SINGLE NONE 34
Y5D N28 C29 SINGLE NONE 35
Y5D N28 C27 SINGLE NONE 36
Y5D C21 N20 SINGLE NONE 37
Y5D C21 C22 DOUBLE NONE 38
Y5D C19 N20 SINGLE NONE 39
Y5D C19 N18 SINGLE NONE 40
Y5D C17 N16 SINGLE NONE 41
Y5D C17 N18 DOUBLE NONE 42
Y5D C23 C22 SINGLE NONE 43
Y5D C06 C07 SINGLE NONE 44
Y5D C26 C27 SINGLE NONE 45
Y5D C07 N08 TRIPLE NONE 46
#
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
Y5D MurckoScaffold S1 scaffold 'c1cc2c(-c3cnn(C4CNC4)c3)nc(Nc3ccc(C4CCNCC4)cc3)nc2[nH]1' InChI=1S/C23H26N8/c1-3-18(4-2-15(1)16-5-8-24-9-6-16)28-23-29-21(20-7-10-26-22(20)30-23)17-11-27-31(14-17)19-12-25-13-19/h1-4,7,10-11,14,16,19,24-25H,5-6,8-9,12-13H2,(H2,26,28,29,30) GRVCTTAOQRZUJK-UHFFFAOYSA-N
Y5D phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
Y5D pyrazole F2 fragment 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-UHFFFAOYSA-N
Y5D pyrimidine F3 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
Y5D pyrrole F4 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-UHFFFAOYSA-N
Y5D Z54628578 F5 fragment CNc1ncccn1 InChI=1S/C5H7N3/c1-6-5-7-3-2-4-8-5/h2-4H,1H3,(H,6,7,8) BQNXHDSGGRTFNX-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
Y5D C10 S1 1
Y5D C13 S1 1
Y5D C15 S1 1
Y5D C17 S1 1
Y5D C21 S1 1
Y5D C22 S1 1
Y5D C24 S1 1
Y5D C26 S1 1
Y5D C04 S1 1
Y5D C05 S1 1
Y5D C11 S1 1
Y5D C12 S1 1
Y5D C14 S1 1
Y5D C19 S1 1
Y5D C23 S1 1
Y5D C25 S1 1
Y5D C27 S1 1
Y5D C30 S1 1
Y5D C31 S1 1
Y5D C32 S1 1
Y5D C34 S1 1
Y5D C36 S1 1
Y5D C38 S1 1
Y5D N03 S1 1
Y5D N09 S1 1
Y5D N16 S1 1
Y5D N18 S1 1
Y5D N20 S1 1
Y5D N28 S1 1
Y5D N35 S1 1
Y5D N37 S1 1
Y5D C21 F1 1
Y5D C34 F1 1
Y5D C32 F1 1
Y5D C24 F1 1
Y5D C23 F1 1
Y5D C22 F1 1
Y5D C10 F2 1
Y5D C11 F2 1
Y5D C36 F2 1
Y5D N37 F2 1
Y5D N09 F2 1
Y5D C13 F3 1
Y5D C12 F3 1
Y5D N35 F3 1
Y5D C19 F3 1
Y5D N18 F3 1
Y5D C17 F3 1
Y5D C15 F4 1
Y5D C14 F4 1
Y5D C13 F4 1
Y5D C17 F4 1
Y5D N16 F4 1
Y5D C21 F5 1
Y5D N20 F5 1
Y5D C19 F5 1
Y5D N35 F5 1
Y5D C12 F5 1
Y5D C13 F5 1
Y5D C17 F5 1
Y5D N18 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id Y5D
_pdbe_chem_comp_rdkit_properties.exactmw 577.238
_pdbe_chem_comp_rdkit_properties.amw 577.690
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 11
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 10
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 9
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 41
_pdbe_chem_comp_rdkit_properties.NumAtoms 73
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 13
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.429
_pdbe_chem_comp_rdkit_properties.NumRings 6
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 3
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 282.679
_pdbe_chem_comp_rdkit_properties.tpsa 135.830
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.163
_pdbe_chem_comp_rdkit_properties.CrippenMR 148.060
_pdbe_chem_comp_rdkit_properties.chi0v 20.444
_pdbe_chem_comp_rdkit_properties.chi1v 12.100
_pdbe_chem_comp_rdkit_properties.chi2v 6.110
_pdbe_chem_comp_rdkit_properties.chi3v 6.110
_pdbe_chem_comp_rdkit_properties.chi4v 3.972
_pdbe_chem_comp_rdkit_properties.chi0n 51.628
_pdbe_chem_comp_rdkit_properties.chi1n 26.555
_pdbe_chem_comp_rdkit_properties.chi2n 5.188
_pdbe_chem_comp_rdkit_properties.chi3n 5.188
_pdbe_chem_comp_rdkit_properties.chi4n 3.376
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.860
_pdbe_chem_comp_rdkit_properties.kappa1 8.825
_pdbe_chem_comp_rdkit_properties.kappa2 10.517
_pdbe_chem_comp_rdkit_properties.kappa3 5.071
_pdbe_chem_comp_rdkit_properties.Phi 2.264
#
_pdbe_chem_comp_external_mappings.comp_id Y5D
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PDBe
_pdbe_chem_comp_external_mappings.resource_id Y5D
#
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
Y5D C10 3.582 -0.678 0.142 ETKDGv3 1
Y5D C13 0.726 -2.741 1.162 ETKDGv3 2
Y5D C15 0.033 -4.817 1.737 ETKDGv3 3
Y5D C17 -0.695 -2.823 1.012 ETKDGv3 4
Y5D C21 -2.885 0.548 -0.463 ETKDGv3 5
Y5D C22 -3.616 0.172 0.600 ETKDGv3 6
Y5D C24 -5.714 0.851 -0.480 ETKDGv3 7
Y5D C26 -7.715 2.018 0.566 ETKDGv3 8
Y5D C04 6.088 1.123 -0.544 ETKDGv3 9
Y5D C05 6.110 -0.363 -0.189 ETKDGv3 10
Y5D C06 6.415 -1.302 -1.371 ETKDGv3 11
Y5D C07 6.696 -2.666 -0.905 ETKDGv3 12
Y5D C11 2.839 -1.473 0.897 ETKDGv3 13
Y5D C12 1.377 -1.632 0.789 ETKDGv3 14
Y5D C14 1.138 -4.066 1.624 ETKDGv3 15
Y5D C19 -0.723 -0.645 0.116 ETKDGv3 16
Y5D C23 -5.085 0.319 0.587 ETKDGv3 17
Y5D C25 -7.226 1.008 -0.501 ETKDGv3 18
Y5D C27 -9.074 1.627 1.179 ETKDGv3 19
Y5D C29 -10.502 2.037 -0.763 ETKDGv3 20
Y5D C30 -9.463 -0.176 -0.489 ETKDGv3 21
Y5D C31 -7.936 -0.347 -0.362 ETKDGv3 22
Y5D C32 -4.897 1.300 -1.642 ETKDGv3 23
Y5D C34 -3.566 1.159 -1.627 ETKDGv3 24
Y5D C36 3.758 -2.096 1.856 ETKDGv3 25
Y5D C38 7.305 0.006 0.690 ETKDGv3 26
Y5D C39 10.009 2.087 0.555 ETKDGv3 27
Y5D C40 11.250 2.583 -0.177 ETKDGv3 28
Y5D F33 -5.489 1.861 -2.726 ETKDGv3 29
Y5D N03 7.216 1.432 0.345 ETKDGv3 30
Y5D N08 6.918 -3.740 -0.538 ETKDGv3 31
Y5D N09 4.931 -0.772 0.582 ETKDGv3 32
Y5D N16 -1.159 -4.107 1.377 ETKDGv3 33
Y5D N18 -1.402 -1.863 0.504 ETKDGv3 34
Y5D N20 -1.452 0.445 -0.466 ETKDGv3 35
Y5D N28 -9.999 1.033 0.190 ETKDGv3 36
Y5D N35 0.581 -0.556 0.240 ETKDGv3 37
Y5D N37 4.965 -1.689 1.638 ETKDGv3 38
Y5D O01 8.943 1.009 -1.669 ETKDGv3 39
Y5D O41 8.332 3.323 -1.141 ETKDGv3 40
Y5D S02 8.616 1.967 -0.556 ETKDGv3 41
Y5D H101 3.237 -0.073 -0.688 ETKDGv3 42
Y5D H151 0.038 -5.857 2.036 ETKDGv3 43
Y5D H221 -3.143 -0.218 1.492 ETKDGv3 44
Y5D H261 -6.984 2.115 1.398 ETKDGv3 45
Y5D H262 -7.798 3.024 0.100 ETKDGv3 46
Y5D H042 6.285 1.327 -1.621 ETKDGv3 47
Y5D H041 5.172 1.646 -0.193 ETKDGv3 48
Y5D H061 5.539 -1.332 -2.053 ETKDGv3 49
Y5D H062 7.288 -0.943 -1.952 ETKDGv3 50
Y5D H141 2.143 -4.422 1.794 ETKDGv3 51
Y5D H231 -5.643 0.000 1.458 ETKDGv3 52
Y5D H251 -7.522 1.410 -1.495 ETKDGv3 53
Y5D H272 -8.907 0.891 1.996 ETKDGv3 54
Y5D H271 -9.538 2.517 1.659 ETKDGv3 55
Y5D H291 -11.321 1.598 -1.373 ETKDGv3 56
Y5D H293 -9.698 2.390 -1.443 ETKDGv3 57
Y5D H292 -10.929 2.908 -0.222 ETKDGv3 58
Y5D H302 -9.727 -0.185 -1.571 ETKDGv3 59
Y5D H301 -9.952 -1.070 -0.047 ETKDGv3 60
Y5D H312 -7.705 -0.805 0.625 ETKDGv3 61
Y5D H311 -7.579 -1.046 -1.150 ETKDGv3 62
Y5D H341 -2.982 1.490 -2.476 ETKDGv3 63
Y5D H361 3.501 -2.778 2.652 ETKDGv3 64
Y5D H382 7.116 -0.137 1.776 ETKDGv3 65
Y5D H381 8.254 -0.483 0.375 ETKDGv3 66
Y5D H392 10.214 1.088 0.993 ETKDGv3 67
Y5D H391 9.757 2.790 1.376 ETKDGv3 68
Y5D H402 11.068 3.591 -0.605 ETKDGv3 69
Y5D H403 11.524 1.880 -0.992 ETKDGv3 70
Y5D H401 12.099 2.648 0.535 ETKDGv3 71
Y5D H161 -2.133 -4.478 1.321 ETKDGv3 72
Y5D H201 -0.911 1.157 -1.007 ETKDGv3 73
#