data_M8E
#
_chem_comp.id M8E
_chem_comp.name "5'-{[4-(aminooxy)butyl](methyl)amino}-5'-deoxy-8-ethenyladenosine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C17 H27 N7 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2008-07-31
_chem_comp.pdbx_modified_date 2011-06-04
_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 393.441
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code M8E
_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 3DZ6
_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
M8E N1 N1 N 0 1 N N N N N N -22.185 -5.882 10.147 -8.776 2.844 -0.633 N1 M8E 1
M8E O1 O1 O 0 1 N N N N N N -20.972 -6.721 9.947 -7.919 1.919 0.110 O1 M8E 2
M8E C6 C6 C 0 1 N N N N N N -18.461 -7.632 8.901 -4.684 0.110 -0.499 C6 M8E 3
M8E C7 C7 C 0 1 N N N N N N -17.251 -8.684 8.642 -3.868 -0.851 0.369 C7 M8E 4
M8E N2 N2 N 0 1 N N N N N N -16.701 -8.478 7.270 -2.666 -1.272 -0.364 N2 M8E 5
M8E C8 C8 C 0 1 N N N N N N -16.596 -9.829 6.600 -3.022 -2.079 -1.538 C8 M8E 6
M8E "C5'" "C5'" C 0 1 N N N N N N -15.354 -7.823 7.387 -1.742 -2.001 0.515 "C5'" M8E 7
M8E "C4'" "C4'" C 0 1 N N R N N N -14.661 -7.556 6.057 -0.407 -2.204 -0.204 "C4'" M8E 8
M8E "O4'" "O4'" O 0 1 N N N N N N -15.630 -6.985 5.100 0.237 -0.936 -0.408 "O4'" M8E 9
M8E "C1'" "C1'" C 0 1 N N R N N N -15.156 -5.704 4.670 1.658 -1.162 -0.299 "C1'" M8E 10
M8E N6 N6 N 0 1 Y N N N N N -16.370 -4.879 4.414 2.357 0.087 0.014 N6 M8E 11
M8E C13 C13 C 0 1 Y N N N N N -17.479 -4.809 5.219 3.524 0.530 -0.556 C13 M8E 12
M8E N3 N3 N 0 1 Y N N N N N -17.697 -5.461 6.390 4.350 0.058 -1.484 N3 M8E 13
M8E C9 C9 C 0 1 Y N N N N N -18.907 -5.147 6.909 5.425 0.734 -1.832 C9 M8E 14
M8E N4 N4 N 0 1 Y N N N N N -19.859 -4.305 6.408 5.739 1.896 -1.291 N4 M8E 15
M8E C10 C10 C 0 1 Y N N N N N -19.598 -3.670 5.225 4.975 2.449 -0.355 C10 M8E 16
M8E N7 N7 N 0 1 N N N N N N -20.529 -2.839 4.725 5.312 3.668 0.207 N7 M8E 17
M8E C11 C11 C 0 1 Y N N N N N -18.351 -3.920 4.585 3.813 1.766 0.052 C11 M8E 18
M8E N5 N5 N 0 1 Y N N N N N -17.805 -3.447 3.420 2.832 2.016 0.946 N5 M8E 19
M8E C12 C12 C 0 1 Y N N N N N -16.645 -4.025 3.350 1.963 1.033 0.928 C12 M8E 20
M8E "C2'" "C2'" C 0 1 N N R N N N -14.234 -5.246 5.822 1.776 -2.163 0.879 "C2'" M8E 21
M8E "O2'" "O2'" O 0 1 N N N N N N -13.386 -4.165 5.493 2.979 -2.928 0.780 "O2'" M8E 22
M8E "C3'" "C3'" C 0 1 N N S N N N -13.535 -6.553 6.193 0.532 -3.061 0.667 "C3'" M8E 23
M8E "O3'" "O3'" O 0 1 N N N N N N -12.554 -6.863 5.234 0.893 -4.262 -0.019 "O3'" M8E 24
M8E C5 C5 C 0 1 N N N N N N -19.773 -8.168 8.342 -5.935 0.549 0.265 C5 M8E 25
M8E C4 C4 C 0 1 N N N N N N -20.909 -7.158 8.581 -6.751 1.509 -0.603 C4 M8E 26
M8E C15 C15 C 0 1 N N N N N N -14.689 -3.184 2.200 0.470 1.933 2.616 C15 M8E 27
M8E C14 C14 C 0 1 N N N N N N -15.642 -3.826 2.241 0.753 0.954 1.762 C14 M8E 28
M8E HN1 HN1 H 0 1 N N N N N N -22.304 -5.694 11.122 -9.048 2.451 -1.522 HN1 M8E 29
M8E HN1A HN1A H 0 0 N N N N N N -22.079 -5.020 9.652 -9.585 3.103 -0.089 HN1A M8E 30
M8E H6 H6 H 0 1 N N N N N N -18.571 -7.472 9.984 -4.079 0.984 -0.739 H6 M8E 31
M8E H6A H6A H 0 1 N N N N N N -18.221 -6.686 8.394 -4.978 -0.394 -1.420 H6A M8E 32
M8E H7 H7 H 0 1 N N N N N N -16.456 -8.520 9.385 -3.574 -0.347 1.290 H7 M8E 33
M8E H7A H7A H 0 1 N N N N N N -17.631 -9.712 8.735 -4.472 -1.725 0.610 H7A M8E 34
M8E H8 H8 H 0 1 N N N N N N -16.570 -9.696 5.508 -3.651 -1.490 -2.207 H8 M8E 35
M8E H8A H8A H 0 1 N N N N N N -15.675 -10.331 6.930 -2.114 -2.378 -2.063 H8A M8E 36
M8E H8B H8B H 0 1 N N N N N N -17.467 -10.443 6.874 -3.566 -2.968 -1.218 H8B M8E 37
M8E "H5'" "H5'" H 0 1 N N N N N N -15.493 -6.857 7.894 -1.579 -1.427 1.427 "H5'" M8E 38
M8E "H5'A" "H5'A" H 0 0 N N N N N N -14.711 -8.522 7.942 -2.170 -2.971 0.768 "H5'A" M8E 39
M8E "H4'" "H4'" H 0 1 N N N N N N -14.256 -8.518 5.710 -0.575 -2.693 -1.164 "H4'" M8E 40
M8E "H1'" "H1'" H 0 1 N N N N N N -14.571 -5.657 3.739 2.049 -1.599 -1.218 "H1'" M8E 41
M8E H9 H9 H 0 1 N N N N N N -19.153 -5.627 7.845 6.076 0.321 -2.589 H9 M8E 42
M8E HN7 HN7 H 0 1 N N N N N N -21.206 -2.633 5.431 6.115 4.129 -0.081 HN7 M8E 43
M8E HN7A HN7A H 0 0 N N N N N N -20.092 -1.991 4.425 4.746 4.061 0.889 HN7A M8E 44
M8E "H2'" "H2'" H 0 1 N N N N N N -14.768 -4.798 6.674 1.723 -1.645 1.836 "H2'" M8E 45
M8E "HO2'" "HO2'" H 0 0 N N N N N N -13.196 -3.662 6.276 3.098 -3.568 1.495 "HO2'" M8E 46
M8E "H3'" "H3'" H 0 1 N N N N N N -13.046 -6.526 7.178 0.062 -3.292 1.622 "H3'" M8E 47
M8E "HO3'" "HO3'" H 0 0 N N N N N N -12.959 -6.933 4.377 1.485 -4.839 0.484 "HO3'" M8E 48
M8E H5 H5 H 0 1 N N N N N N -19.662 -8.338 7.261 -6.539 -0.326 0.505 H5 M8E 49
M8E H5A H5A H 0 1 N N N N N N -20.020 -9.111 8.851 -5.641 1.052 1.186 H5A M8E 50
M8E H4 H4 H 0 1 N N N N N N -21.864 -7.639 8.323 -7.045 1.006 -1.524 H4 M8E 51
M8E H4A H4A H 0 1 N N N N N N -20.715 -6.276 7.953 -6.147 2.384 -0.844 H4A M8E 52
M8E H15 H15 H 0 1 N N N N N N -14.166 -3.244 1.257 1.128 2.785 2.697 H15 M8E 53
M8E H15A H15A H 0 0 N N N N N N -14.349 -2.578 3.027 -0.418 1.875 3.228 H15A M8E 54
M8E H14 H14 H 0 1 N N N N N N -15.854 -4.377 1.337 0.095 0.101 1.681 H14 M8E 55
#
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
M8E N1 O1 SING N N 1
M8E O1 C4 SING N N 2
M8E C6 C7 SING N N 3
M8E C6 C5 SING N N 4
M8E C7 N2 SING N N 5
M8E N2 C8 SING N N 6
M8E N2 "C5'" SING N N 7
M8E "C5'" "C4'" SING N N 8
M8E "C4'" "O4'" SING N N 9
M8E "C4'" "C3'" SING N N 10
M8E "O4'" "C1'" SING N N 11
M8E "C1'" N6 SING N N 12
M8E "C1'" "C2'" SING N N 13
M8E N6 C13 SING Y N 14
M8E N6 C12 SING Y N 15
M8E C13 N3 DOUB Y N 16
M8E C13 C11 SING Y N 17
M8E N3 C9 SING Y N 18
M8E C9 N4 DOUB Y N 19
M8E N4 C10 SING Y N 20
M8E C10 N7 SING N N 21
M8E C10 C11 DOUB Y N 22
M8E C11 N5 SING Y N 23
M8E N5 C12 DOUB Y N 24
M8E C12 C14 SING N N 25
M8E "C2'" "O2'" SING N N 26
M8E "C2'" "C3'" SING N N 27
M8E "C3'" "O3'" SING N N 28
M8E C5 C4 SING N N 29
M8E C15 C14 DOUB N N 30
M8E N1 HN1 SING N N 31
M8E N1 HN1A SING N N 32
M8E C6 H6 SING N N 33
M8E C6 H6A SING N N 34
M8E C7 H7 SING N N 35
M8E C7 H7A SING N N 36
M8E C8 H8 SING N N 37
M8E C8 H8A SING N N 38
M8E C8 H8B SING N N 39
M8E "C5'" "H5'" SING N N 40
M8E "C5'" "H5'A" SING N N 41
M8E "C4'" "H4'" SING N N 42
M8E "C1'" "H1'" SING N N 43
M8E C9 H9 SING N N 44
M8E N7 HN7 SING N N 45
M8E N7 HN7A SING N N 46
M8E "C2'" "H2'" SING N N 47
M8E "O2'" "HO2'" SING N N 48
M8E "C3'" "H3'" SING N N 49
M8E "O3'" "HO3'" SING N N 50
M8E C5 H5 SING N N 51
M8E C5 H5A SING N N 52
M8E C4 H4 SING N N 53
M8E C4 H4A SING N N 54
M8E C15 H15 SING N N 55
M8E C15 H15A SING N N 56
M8E C14 H14 SING N N 57
#
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
M8E SMILES ACDLabs 10.04 n2c1c(ncnc1n(c2\C=C)C3OC(C(O)C3O)CN(CCCCON)C)N
M8E SMILES_CANONICAL CACTVS 3.341 CN(CCCCON)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2c(C=C)nc3c(N)ncnc23
M8E SMILES CACTVS 3.341 CN(CCCCON)C[CH]1O[CH]([CH](O)[CH]1O)n2c(C=C)nc3c(N)ncnc23
M8E SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[N@@](CCCCON)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2c(nc3c2ncnc3N)C=C)O)O
M8E SMILES "OpenEye OEToolkits" 1.5.0 CN(CCCCON)CC1C(C(C(O1)n2c(nc3c2ncnc3N)C=C)O)O
M8E InChI InChI 1.03 InChI=1S/C17H27N7O4/c1-3-11-22-12-15(18)20-9-21-16(12)24(11)17-14(26)13(25)10(28-17)8-23(2)6-4-5-7-27-19/h3,9-10,13-14,17,25-26H,1,4-8,19H2,2H3,(H2,18,20,21)/t10-,13-,14-,17-/m1/s1
M8E InChIKey InChI 1.03 XUKYGMIDWKBMIW-IWCJZZDYSA-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
M8E "SYSTEMATIC NAME" ACDLabs 10.04 "5'-{[4-(aminooxy)butyl](methyl)amino}-5'-deoxy-8-ethenyladenosine"
M8E "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (2R,3R,4S,5R)-2-(6-amino-8-ethenyl-purin-9-yl)-5-[(4-aminooxybutyl-methyl-amino)methyl]oxolane-3,4-diol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
M8E 'Create component' 2008-07-31 RCSB
M8E 'Modify aromatic_flag' 2011-06-04 RCSB
M8E 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id M8E
_pdbe_chem_comp_drugbank_details.drugbank_id DB08163
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name "5'-{[4-(aminooxy)butyl](methyl)amino}-5'-deoxy-8-ethenyladenosine"
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_drugbank_classification.comp_id M8E
_pdbe_chem_comp_drugbank_classification.drugbank_id DB08163
_pdbe_chem_comp_drugbank_classification.parent "5'-deoxyribonucleosides"
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class "5'-deoxyribonucleosides"
_pdbe_chem_comp_drugbank_classification.superclass 'Nucleosides, nucleotides, and analogues'
_pdbe_chem_comp_drugbank_classification.description
"This compound belongs to the class of organic compounds known as 5'-deoxyribonucleosides. These are nucleosides in which the oxygen atom at the 5'position of the ribose moiety has been replaced by another atom. The nucleobases here are limited to purine, pyrimidine, and pyridine derivatives."
#
_pdbe_chem_comp_drugbank_targets.comp_id M8E
_pdbe_chem_comp_drugbank_targets.drugbank_id DB08163
_pdbe_chem_comp_drugbank_targets.name 'S-adenosylmethionine decarboxylase proenzyme'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P17707
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
M8E N1 N 3.624 7.303 1
M8E O1 O 5.090 6.989 2
M8E C6 C 7.479 3.820 3
M8E C7 C 8.946 3.506 4
M8E N2 N 9.407 2.078 5
M8E C8 C 8.401 0.965 6
M8E "C5'" C 10.873 1.764 7
M8E "C4'" C 11.335 0.337 8
M8E "O4'" O 10.451 -0.876 9
M8E "C1'" C 11.330 -2.091 10
M8E N6 N 10.864 -3.516 11
M8E C13 C 9.445 -3.974 12
M8E N3 N 8.146 -3.224 13
M8E C9 C 6.847 -3.974 14
M8E N4 N 6.847 -5.473 15
M8E C10 C 8.146 -6.223 16
M8E N7 N 8.146 -7.723 17
M8E C11 C 9.445 -5.473 18
M8E N5 N 10.864 -5.931 19
M8E C12 C 11.740 -4.723 20
M8E "C2'" C 12.758 -1.630 21
M8E "O2'" O 13.970 -2.513 22
M8E "C3'" C 12.760 -0.130 23
M8E "O3'" O 13.975 0.750 24
M8E C5 C 7.018 5.247 25
M8E C4 C 5.551 5.562 26
M8E C15 C 13.990 -6.022 27
M8E C14 C 13.240 -4.723 28
#
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
M8E N1 O1 SINGLE NONE 1
M8E O1 C4 SINGLE NONE 2
M8E C6 C7 SINGLE NONE 3
M8E C6 C5 SINGLE NONE 4
M8E C7 N2 SINGLE NONE 5
M8E N2 C8 SINGLE NONE 6
M8E N2 "C5'" SINGLE NONE 7
M8E "C4'" "C5'" SINGLE BEGINDASH 8
M8E "C4'" "O4'" SINGLE NONE 9
M8E "C4'" "C3'" SINGLE NONE 10
M8E "O4'" "C1'" SINGLE NONE 11
M8E "C1'" N6 SINGLE BEGINDASH 12
M8E "C1'" "C2'" SINGLE NONE 13
M8E N6 C13 SINGLE NONE 14
M8E N6 C12 SINGLE NONE 15
M8E C13 N3 DOUBLE NONE 16
M8E C13 C11 SINGLE NONE 17
M8E N3 C9 SINGLE NONE 18
M8E C9 N4 DOUBLE NONE 19
M8E N4 C10 SINGLE NONE 20
M8E C10 N7 SINGLE NONE 21
M8E C10 C11 DOUBLE NONE 22
M8E C11 N5 SINGLE NONE 23
M8E N5 C12 DOUBLE NONE 24
M8E C12 C14 SINGLE NONE 25
M8E "C2'" "O2'" SINGLE BEGINWEDGE 26
M8E "C2'" "C3'" SINGLE NONE 27
M8E "C3'" "O3'" SINGLE BEGINWEDGE 28
M8E C5 C4 SINGLE NONE 29
M8E C15 C14 DOUBLE NONE 30
#
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
M8E MurckoScaffold S1 scaffold 'c1ncc2ncn([C@H]3CCCO3)c2n1' InChI=1S/C9H10N4O/c1-2-8(14-3-1)13-6-12-7-4-10-5-11-9(7)13/h4-6,8H,1-3H2/t8-/m1/s1 DAKONNSVCLKUJN-MRVPVSSYSA-N
M8E adenine F1 fragment 'Nc1ncnc2nc[nH]c12' InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10) GFFGJBXGBJISGV-UHFFFAOYSA-N
M8E imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
M8E purine F3 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
M8E pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
M8E Z1362754425 F5 fragment Cc1nccn1CC(C)O InChI=1S/C7H12N2O/c1-6(10)5-9-4-3-8-7(9)2/h3-4,6,10H,5H2,1-2H3 VUFBCWUJICCKDU-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
M8E "C4'" S1 1
M8E "O4'" S1 1
M8E "C1'" S1 1
M8E N6 S1 1
M8E C13 S1 1
M8E N3 S1 1
M8E C9 S1 1
M8E N4 S1 1
M8E C10 S1 1
M8E C11 S1 1
M8E N5 S1 1
M8E C12 S1 1
M8E "C2'" S1 1
M8E "C3'" S1 1
M8E N4 F1 1
M8E C10 F1 1
M8E C11 F1 1
M8E C13 F1 1
M8E N3 F1 1
M8E C9 F1 1
M8E N6 F1 1
M8E C12 F1 1
M8E N5 F1 1
M8E N7 F1 1
M8E C13 F2 1
M8E C11 F2 1
M8E N5 F2 1
M8E C12 F2 1
M8E N6 F2 1
M8E N5 F3 1
M8E C12 F3 1
M8E N6 F3 1
M8E C13 F3 1
M8E C11 F3 1
M8E C10 F3 1
M8E N4 F3 1
M8E C9 F3 1
M8E N3 F3 1
M8E C11 F4 1
M8E C13 F4 1
M8E N3 F4 1
M8E C9 F4 1
M8E N4 F4 1
M8E C10 F4 1
M8E "C3'" F5 1
M8E "C2'" F5 1
M8E "O2'" F5 1
M8E "C1'" F5 1
M8E N6 F5 1
M8E C13 F5 1
M8E C11 F5 1
M8E N5 F5 1
M8E C12 F5 1
M8E C14 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id M8E
_pdbe_chem_comp_rdkit_properties.exactmw 393.212
_pdbe_chem_comp_rdkit_properties.amw 393.448
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 11
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 14
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 11
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 28
_pdbe_chem_comp_rdkit_properties.NumAtoms 55
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 11
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.588
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_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 4
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 200.424
_pdbe_chem_comp_rdkit_properties.tpsa 157.800
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.591
_pdbe_chem_comp_rdkit_properties.CrippenMR 99.324
_pdbe_chem_comp_rdkit_properties.chi0v 13.263
_pdbe_chem_comp_rdkit_properties.chi1v 6.860
_pdbe_chem_comp_rdkit_properties.chi2v 3.037
_pdbe_chem_comp_rdkit_properties.chi3v 3.037
_pdbe_chem_comp_rdkit_properties.chi4v 1.986
_pdbe_chem_comp_rdkit_properties.chi0n 40.263
_pdbe_chem_comp_rdkit_properties.chi1n 19.965
_pdbe_chem_comp_rdkit_properties.chi2n 3.037
_pdbe_chem_comp_rdkit_properties.chi3n 3.037
_pdbe_chem_comp_rdkit_properties.chi4n 1.986
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.150
_pdbe_chem_comp_rdkit_properties.kappa1 5.306
_pdbe_chem_comp_rdkit_properties.kappa2 8.901
_pdbe_chem_comp_rdkit_properties.kappa3 3.992
_pdbe_chem_comp_rdkit_properties.Phi 1.687
#
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
M8E UniChem DrugBank DB08163
M8E UniChem PDBe M8E
M8E UniChem ZINC ZINC000053683388
M8E UniChem PubChem 25181315
M8E UniChem 'Probes And Drugs' PD004686
#
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
M8E N1 6.587 -2.150 -1.125 ETKDGv3 1
M8E O1 6.449 -1.031 -0.369 ETKDGv3 2
M8E C6 4.866 1.280 0.529 ETKDGv3 3
M8E C7 3.656 1.243 -0.420 ETKDGv3 4
M8E N2 2.428 0.809 0.289 ETKDGv3 5
M8E C8 1.774 1.963 0.937 ETKDGv3 6
M8E "C5'" 1.503 0.120 -0.641 ETKDGv3 7
M8E "C4'" 0.394 -0.645 0.109 ETKDGv3 8
M8E "O4'" -0.633 0.232 0.504 ETKDGv3 9
M8E "C1'" -1.784 -0.563 0.661 ETKDGv3 10
M8E N6 -2.987 0.239 0.428 ETKDGv3 11
M8E C13 -4.225 0.087 1.095 ETKDGv3 12
M8E N3 -4.488 -0.633 2.142 ETKDGv3 13
M8E C9 -5.865 -0.692 2.584 ETKDGv3 14
M8E N4 -6.806 -0.070 1.911 ETKDGv3 15
M8E C10 -6.501 0.689 0.718 ETKDGv3 16
M8E N7 -7.540 1.309 -0.038 ETKDGv3 17
M8E C11 -5.223 0.760 0.351 ETKDGv3 18
M8E N5 -4.632 1.323 -0.811 ETKDGv3 19
M8E C12 -3.362 1.005 -0.747 ETKDGv3 20
M8E "C2'" -1.705 -1.745 -0.313 ETKDGv3 21
M8E "O2'" -2.032 -2.947 0.336 ETKDGv3 22
M8E "C3'" -0.256 -1.719 -0.773 ETKDGv3 23
M8E "O3'" 0.390 -2.967 -0.670 ETKDGv3 24
M8E C5 5.073 -0.020 1.329 ETKDGv3 25
M8E C4 5.329 -1.250 0.452 ETKDGv3 26
M8E C15 -2.765 2.102 -2.870 ETKDGv3 27
M8E C14 -2.407 1.378 -1.811 ETKDGv3 28
M8E HN1 7.563 -2.493 -0.980 ETKDGv3 29
M8E HN1A 6.524 -1.848 -2.124 ETKDGv3 30
M8E H6 5.781 1.501 -0.063 ETKDGv3 31
M8E H6A 4.748 2.119 1.247 ETKDGv3 32
M8E H7 3.518 2.247 -0.884 ETKDGv3 33
M8E H7A 3.915 0.558 -1.257 ETKDGv3 34
M8E H8 1.265 2.615 0.192 ETKDGv3 35
M8E H8A 2.510 2.578 1.496 ETKDGv3 36
M8E H8B 1.041 1.613 1.691 ETKDGv3 37
M8E "H5'" 2.071 -0.638 -1.227 ETKDGv3 38
M8E "H5'A" 1.062 0.836 -1.371 ETKDGv3 39
M8E "H4'" 0.836 -1.109 1.021 ETKDGv3 40
M8E "H1'" -1.796 -0.935 1.711 ETKDGv3 41
M8E H9 -6.121 -1.258 3.468 ETKDGv3 42
M8E HN7 -7.328 1.853 -0.904 ETKDGv3 43
M8E HN7A -8.533 1.224 0.273 ETKDGv3 44
M8E "H2'" -2.372 -1.599 -1.195 ETKDGv3 45
M8E "HO2'" -3.016 -2.939 0.464 ETKDGv3 46
M8E "H3'" -0.233 -1.400 -1.839 ETKDGv3 47
M8E "HO3'" 0.444 -3.214 0.290 ETKDGv3 48
M8E H5 4.189 -0.210 1.975 ETKDGv3 49
M8E H5A 5.945 0.120 2.005 ETKDGv3 50
M8E H4 4.424 -1.467 -0.159 ETKDGv3 51
M8E H4A 5.514 -2.120 1.123 ETKDGv3 52
M8E H15 -3.780 2.458 -2.998 ETKDGv3 53
M8E H15A -2.031 2.349 -3.627 ETKDGv3 54
M8E H14 -1.381 1.052 -1.743 ETKDGv3 55
#