data_M8M
#
_chem_comp.id M8M
_chem_comp.name "5'-{[2-(aminooxy)ethyl](methyl)amino}-5'-deoxy-8-methyladenosine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C14 H23 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 2024-09-27
_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 353.377
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code M8M
_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 3DZ5
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_chem_comp.pdbx_pcm Y
#
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
M8M N1 N1 N 0 1 N N N N N N -21.012 -10.251 9.476 -2.770 3.941 0.377 N1 M8M 1
M8M O2 O2 O 0 1 N N N N N N -19.731 -9.753 9.810 -3.405 2.839 -0.347 O2 M8M 2
M8M C4 C4 C 0 1 N N N N N N -18.988 -9.341 8.554 -4.242 2.015 0.467 C4 M8M 3
M8M C5 C5 C 0 1 N N N N N N -17.618 -8.795 8.823 -4.850 0.903 -0.389 C5 M8M 4
M8M N2 N2 N 0 1 N N N N N N -16.824 -8.707 7.553 -3.782 0.020 -0.877 N2 M8M 5
M8M C6 C6 C 0 1 N N N N N N -16.252 -10.048 7.284 -4.259 -0.824 -1.980 C6 M8M 6
M8M "C5'" "C5'" C 0 1 N N N N N N -15.711 -7.710 7.687 -3.236 -0.798 0.214 "C5'" M8M 7
M8M "C4'" "C4'" C 0 1 N N R N N N -14.865 -7.612 6.426 -1.973 -1.514 -0.269 "C4'" M8M 8
M8M "O4'" "O4'" O 0 1 N N N N N N -15.633 -7.218 5.233 -0.937 -0.553 -0.533 "O4'" M8M 9
M8M "C1'" "C1'" C 0 1 N N R N N N -15.234 -5.924 5.062 0.317 -1.180 -0.186 "C1'" M8M 10
M8M N5 N5 N 0 1 Y N N N N N -16.528 -5.076 4.783 1.347 -0.168 0.067 N5 M8M 11
M8M C11 C11 C 0 1 Y N N N N N -17.657 -5.294 5.574 2.645 -0.203 -0.376 C11 M8M 12
M8M N4 N4 N 0 1 Y N N N N N -17.812 -6.172 6.593 3.366 -1.049 -1.104 N4 M8M 13
M8M C10 C10 C 0 1 Y N N N N N -19.044 -6.096 7.123 4.630 -0.797 -1.370 C10 M8M 14
M8M N3 N3 N 0 1 Y N N N N N -20.067 -5.296 6.774 5.242 0.290 -0.937 N3 M8M 15
M8M C9 C9 C 0 1 Y N N N N N -19.884 -4.424 5.747 4.602 1.194 -0.202 C9 M8M 16
M8M N7 N7 N 0 1 N N N N N N -20.896 -3.628 5.398 5.252 2.330 0.248 N7 M8M 17
M8M C12 C12 C 0 1 Y N N N N N -18.623 -4.407 5.098 3.250 0.969 0.108 C12 M8M 18
M8M N6 N6 N 0 1 Y N N N N N -18.128 -3.654 4.042 2.308 1.645 0.808 N6 M8M 19
M8M C7 C7 C 0 1 Y N N N N N -16.894 -4.084 3.892 1.189 0.982 0.780 C7 M8M 20
M8M "C2'" "C2'" C 0 1 N N R N N N -14.396 -5.376 5.953 -0.014 -1.958 1.112 "C2'" M8M 21
M8M "O2'" "O2'" O 0 1 N N N N N N -13.509 -4.335 5.600 0.882 -3.057 1.290 "O2'" M8M 22
M8M "C3'" "C3'" C 0 1 N N S N N N -13.726 -6.614 6.502 -1.452 -2.458 0.833 "C3'" M8M 23
M8M "O3'" "O3'" O 0 1 N N N N N N -12.657 -6.999 5.637 -1.431 -3.808 0.366 "O3'" M8M 24
M8M C8 C8 C 0 1 N N N N N N -15.905 -3.597 2.873 -0.093 1.420 1.442 C8 M8M 25
M8M HN1 HN1 H 0 1 N N N N N N -21.552 -10.369 10.309 -2.238 3.598 1.162 HN1 M8M 26
M8M HN1A HN1A H 0 0 N N N N N N -21.473 -9.604 8.869 -2.191 4.492 -0.239 HN1A M8M 27
M8M H4 H4 H 0 1 N N N N N N -18.884 -10.227 7.911 -3.649 1.574 1.268 H4 M8M 28
M8M H4A H4A H 0 1 N N N N N N -19.571 -8.539 8.078 -5.040 2.620 0.897 H4A M8M 29
M8M H5 H5 H 0 1 N N N N N N -17.711 -7.789 9.259 -5.553 0.325 0.211 H5 M8M 30
M8M H5A H5A H 0 1 N N N N N N -17.098 -9.469 9.520 -5.374 1.342 -1.238 H5A M8M 31
M8M H6 H6 H 0 1 N N N N N N -16.110 -10.176 6.201 -4.540 -0.195 -2.825 H6 M8M 32
M8M H6A H6A H 0 1 N N N N N N -15.282 -10.142 7.794 -3.466 -1.507 -2.284 H6A M8M 33
M8M H6B H6B H 0 1 N N N N N N -16.939 -10.821 7.658 -5.125 -1.397 -1.651 H6B M8M 34
M8M "H5'" "H5'" H 0 1 N N N N N N -16.150 -6.722 7.891 -2.989 -0.157 1.061 "H5'" M8M 35
M8M "H5'A" "H5'A" H 0 0 N N N N N N -15.057 -8.043 8.506 -3.977 -1.536 0.521 "H5'A" M8M 36
M8M "H4'" "H4'" H 0 1 N N N N N N -14.476 -8.638 6.344 -2.191 -2.082 -1.173 "H4'" M8M 37
M8M "H1'" "H1'" H 0 1 N N N N N N -14.547 -5.924 4.203 0.636 -1.861 -0.975 "H1'" M8M 38
M8M H10 H10 H 0 1 N N N N N N -19.240 -6.771 7.943 5.188 -1.506 -1.964 H10 M8M 39
M8M HN7 HN7 H 0 1 N N N N N N -21.457 -3.429 6.202 6.186 2.474 0.027 HN7 M8M 40
M8M HN7A HN7A H 0 0 N N N N N N -20.534 -2.774 5.024 4.774 2.983 0.783 HN7A M8M 41
M8M "H2'" "H2'" H 0 1 N N N N N N -14.965 -4.750 6.656 0.008 -1.297 1.978 "H2'" M8M 42
M8M "HO2'" "HO2'" H 0 0 N N N N N N -13.310 -3.814 6.369 0.715 -3.575 2.090 "HO2'" M8M 43
M8M "H3'" "H3'" H 0 1 N N N N N N -13.287 -6.507 7.505 -2.066 -2.373 1.730 "H3'" M8M 44
M8M "HO3'" "HO3'" H 0 0 N N N N N N -12.983 -7.084 4.749 -1.112 -4.445 1.019 "HO3'" M8M 45
M8M H8 H8 H 0 1 N N N N N N -16.407 -3.478 1.902 -0.127 1.031 2.460 H8 M8M 46
M8M H8A H8A H 0 1 N N N N N N -15.494 -2.628 3.194 -0.135 2.509 1.468 H8A M8M 47
M8M H8B H8B H 0 1 N N N N N N -15.089 -4.328 2.776 -0.943 1.037 0.878 H8B M8M 48
#
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
M8M N1 O2 SING N N 1
M8M O2 C4 SING N N 2
M8M C4 C5 SING N N 3
M8M C5 N2 SING N N 4
M8M N2 C6 SING N N 5
M8M N2 "C5'" SING N N 6
M8M "C5'" "C4'" SING N N 7
M8M "C4'" "O4'" SING N N 8
M8M "C4'" "C3'" SING N N 9
M8M "O4'" "C1'" SING N N 10
M8M "C1'" N5 SING N N 11
M8M "C1'" "C2'" SING N N 12
M8M N5 C11 SING Y N 13
M8M N5 C7 SING Y N 14
M8M C11 N4 DOUB Y N 15
M8M C11 C12 SING Y N 16
M8M N4 C10 SING Y N 17
M8M C10 N3 DOUB Y N 18
M8M N3 C9 SING Y N 19
M8M C9 N7 SING N N 20
M8M C9 C12 DOUB Y N 21
M8M C12 N6 SING Y N 22
M8M N6 C7 DOUB Y N 23
M8M C7 C8 SING N N 24
M8M "C2'" "O2'" SING N N 25
M8M "C2'" "C3'" SING N N 26
M8M "C3'" "O3'" SING N N 27
M8M N1 HN1 SING N N 28
M8M N1 HN1A SING N N 29
M8M C4 H4 SING N N 30
M8M C4 H4A SING N N 31
M8M C5 H5 SING N N 32
M8M C5 H5A SING N N 33
M8M C6 H6 SING N N 34
M8M C6 H6A SING N N 35
M8M C6 H6B SING N N 36
M8M "C5'" "H5'" SING N N 37
M8M "C5'" "H5'A" SING N N 38
M8M "C4'" "H4'" SING N N 39
M8M "C1'" "H1'" SING N N 40
M8M C10 H10 SING N N 41
M8M N7 HN7 SING N N 42
M8M N7 HN7A SING N N 43
M8M "C2'" "H2'" SING N N 44
M8M "O2'" "HO2'" SING N N 45
M8M "C3'" "H3'" SING N N 46
M8M "O3'" "HO3'" SING N N 47
M8M C8 H8 SING N N 48
M8M C8 H8A SING N N 49
M8M C8 H8B SING N N 50
#
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
M8M SMILES ACDLabs 10.04 'n2c1c(ncnc1n(c2C)C3OC(C(O)C3O)CN(CCON)C)N'
M8M SMILES_CANONICAL CACTVS 3.341 'CN(CCON)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2c(C)nc3c(N)ncnc23'
M8M SMILES CACTVS 3.341 'CN(CCON)C[CH]1O[CH]([CH](O)[CH]1O)n2c(C)nc3c(N)ncnc23'
M8M SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'Cc1nc2c(ncnc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)C[N@@](C)CCON)O)O)N'
M8M SMILES 'OpenEye OEToolkits' 1.5.0 'Cc1nc2c(ncnc2n1C3C(C(C(O3)CN(C)CCON)O)O)N'
M8M InChI InChI 1.03 'InChI=1S/C14H23N7O4/c1-7-19-9-12(15)17-6-18-13(9)21(7)14-11(23)10(22)8(25-14)5-20(2)3-4-24-16/h6,8,10-11,14,22-23H,3-5,16H2,1-2H3,(H2,15,17,18)/t8-,10-,11-,14-/m1/s1'
M8M InChIKey InChI 1.03 MIGFZONTOHGZMB-IDTAVKCVSA-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
M8M 'SYSTEMATIC NAME' ACDLabs 10.04 "5'-{[2-(aminooxy)ethyl](methyl)amino}-5'-deoxy-8-methyladenosine"
M8M 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2R,3R,4S,5R)-2-(6-amino-8-methyl-purin-9-yl)-5-[(2-aminooxyethyl-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
M8M 'Create component' 2008-07-31 RCSB
M8M 'Modify aromatic_flag' 2011-06-04 RCSB
M8M 'Modify descriptor' 2011-06-04 RCSB
M8M 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id M8M
_pdbx_chem_comp_pcm.modified_residue_id PYR
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Covalent chemical modification'
_pdbx_chem_comp_pcm.position 'Amino-acid backbone'
_pdbx_chem_comp_pcm.polypeptide_position N-terminal
_pdbx_chem_comp_pcm.comp_id_linking_atom N1
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom CA
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
_pdbx_chem_comp_pcm.first_instance_model_db_code 3DZ5
#
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
M8M N1 N 3.624 6.433 1
M8M O2 O 5.090 6.118 2
M8M C4 C 5.551 4.691 3
M8M C5 C 7.018 4.376 4
M8M N2 N 7.479 2.949 5
M8M C6 C 6.473 1.836 6
M8M "C5'" C 8.946 2.635 7
M8M "C4'" C 9.407 1.207 8
M8M "O4'" O 8.523 -0.005 9
M8M "C1'" C 9.402 -1.220 10
M8M N5 N 8.937 -2.646 11
M8M C11 C 7.517 -3.103 12
M8M N4 N 6.218 -2.353 13
M8M C10 C 4.919 -3.103 14
M8M N3 N 4.919 -4.603 15
M8M C9 C 6.218 -5.353 16
M8M N7 N 6.218 -6.853 17
M8M C12 C 7.517 -4.603 18
M8M N6 N 8.937 -5.060 19
M8M C7 C 9.812 -3.853 20
M8M "C2'" C 10.830 -0.759 21
M8M "O2'" O 12.042 -1.643 22
M8M "C3'" C 10.832 0.741 23
M8M "O3'" O 12.048 1.621 24
M8M C8 C 11.312 -3.853 25
#
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
M8M N1 O2 SINGLE NONE 1
M8M O2 C4 SINGLE NONE 2
M8M C4 C5 SINGLE NONE 3
M8M C5 N2 SINGLE NONE 4
M8M N2 C6 SINGLE NONE 5
M8M N2 "C5'" SINGLE NONE 6
M8M "C4'" "C5'" SINGLE BEGINDASH 7
M8M "C4'" "O4'" SINGLE NONE 8
M8M "C4'" "C3'" SINGLE NONE 9
M8M "O4'" "C1'" SINGLE NONE 10
M8M "C1'" N5 SINGLE BEGINDASH 11
M8M "C1'" "C2'" SINGLE NONE 12
M8M N5 C11 SINGLE NONE 13
M8M N5 C7 SINGLE NONE 14
M8M C11 N4 DOUBLE NONE 15
M8M C11 C12 SINGLE NONE 16
M8M N4 C10 SINGLE NONE 17
M8M C10 N3 DOUBLE NONE 18
M8M N3 C9 SINGLE NONE 19
M8M C9 N7 SINGLE NONE 20
M8M C9 C12 DOUBLE NONE 21
M8M C12 N6 SINGLE NONE 22
M8M N6 C7 DOUBLE NONE 23
M8M C7 C8 SINGLE NONE 24
M8M "C2'" "O2'" SINGLE BEGINWEDGE 25
M8M "C2'" "C3'" SINGLE NONE 26
M8M "C3'" "O3'" SINGLE BEGINWEDGE 27
#
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
M8M 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
M8M 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
M8M imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
M8M 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
M8M pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
M8M 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
M8M "C4'" S1 1
M8M "O4'" S1 1
M8M "C1'" S1 1
M8M N5 S1 1
M8M C11 S1 1
M8M N4 S1 1
M8M C10 S1 1
M8M N3 S1 1
M8M C9 S1 1
M8M C12 S1 1
M8M N6 S1 1
M8M C7 S1 1
M8M "C2'" S1 1
M8M "C3'" S1 1
M8M N3 F1 1
M8M C9 F1 1
M8M C12 F1 1
M8M C11 F1 1
M8M N4 F1 1
M8M C10 F1 1
M8M N5 F1 1
M8M C7 F1 1
M8M N6 F1 1
M8M N7 F1 1
M8M C11 F2 1
M8M C12 F2 1
M8M N6 F2 1
M8M C7 F2 1
M8M N5 F2 1
M8M N6 F3 1
M8M C7 F3 1
M8M N5 F3 1
M8M C11 F3 1
M8M C12 F3 1
M8M C9 F3 1
M8M N3 F3 1
M8M C10 F3 1
M8M N4 F3 1
M8M C12 F4 1
M8M C11 F4 1
M8M N4 F4 1
M8M C10 F4 1
M8M N3 F4 1
M8M C9 F4 1
M8M "C3'" F5 1
M8M "C2'" F5 1
M8M "O2'" F5 1
M8M "C1'" F5 1
M8M N5 F5 1
M8M C11 F5 1
M8M C12 F5 1
M8M N6 F5 1
M8M C7 F5 1
M8M C8 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id M8M
_pdbe_chem_comp_rdkit_properties.exactmw 353.181
_pdbe_chem_comp_rdkit_properties.amw 353.383
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 11
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 12
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 11
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 25
_pdbe_chem_comp_rdkit_properties.NumAtoms 48
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 11
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.643
_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 176.399
_pdbe_chem_comp_rdkit_properties.tpsa 157.800
_pdbe_chem_comp_rdkit_properties.CrippenClogP -2.706
_pdbe_chem_comp_rdkit_properties.CrippenMR 84.736
_pdbe_chem_comp_rdkit_properties.chi0v 11.763
_pdbe_chem_comp_rdkit_properties.chi1v 6.110
_pdbe_chem_comp_rdkit_properties.chi2v 2.802
_pdbe_chem_comp_rdkit_properties.chi3v 2.802
_pdbe_chem_comp_rdkit_properties.chi4v 1.836
_pdbe_chem_comp_rdkit_properties.chi0n 34.763
_pdbe_chem_comp_rdkit_properties.chi1n 17.215
_pdbe_chem_comp_rdkit_properties.chi2n 2.802
_pdbe_chem_comp_rdkit_properties.chi3n 2.802
_pdbe_chem_comp_rdkit_properties.chi4n 1.836
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.890
_pdbe_chem_comp_rdkit_properties.kappa1 4.881
_pdbe_chem_comp_rdkit_properties.kappa2 7.155
_pdbe_chem_comp_rdkit_properties.kappa3 3.293
_pdbe_chem_comp_rdkit_properties.Phi 1.397
#
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
M8M UniChem ChEMBL CHEMBL1187584
M8M UniChem PDBe M8M
M8M UniChem ZINC ZINC000040379157
M8M UniChem SureChEMBL SCHEMBL953607
M8M UniChem 'PubChem TPHARMA' 57583416
M8M UniChem Nikkaji J3.608.244E
M8M UniChem BindingDb 28421
M8M UniChem PubChem 25181314
#
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
M8M N1 3.817 3.761 2.205 ETKDGv3 1
M8M O2 3.625 2.588 2.861 ETKDGv3 2
M8M C4 3.235 1.653 1.886 ETKDGv3 3
M8M C5 2.994 0.295 2.566 ETKDGv3 4
M8M N2 2.575 -0.781 1.637 ETKDGv3 5
M8M C6 3.635 -1.125 0.672 ETKDGv3 6
M8M "C5'" 1.279 -0.494 0.982 ETKDGv3 7
M8M "C4'" 0.561 -1.794 0.548 ETKDGv3 8
M8M "O4'" -0.836 -1.621 0.697 ETKDGv3 9
M8M "C1'" -1.448 -1.805 -0.560 ETKDGv3 10
M8M N5 -2.478 -0.783 -0.767 ETKDGv3 11
M8M C11 -2.329 0.613 -0.587 ETKDGv3 12
M8M N4 -1.367 1.244 0.014 ETKDGv3 13
M8M C10 -1.374 2.690 -0.044 ETKDGv3 14
M8M N3 -2.294 3.323 -0.735 ETKDGv3 15
M8M C9 -3.323 2.601 -1.452 ETKDGv3 16
M8M N7 -4.271 3.296 -2.262 ETKDGv3 17
M8M C12 -3.325 1.273 -1.346 ETKDGv3 18
M8M N6 -4.104 0.303 -2.030 ETKDGv3 19
M8M C7 -3.599 -0.853 -1.680 ETKDGv3 20
M8M "C2'" -0.384 -1.738 -1.645 ETKDGv3 21
M8M "O2'" -0.700 -2.585 -2.719 ETKDGv3 22
M8M "C3'" 0.861 -2.177 -0.912 ETKDGv3 23
M8M "O3'" 1.091 -3.562 -1.038 ETKDGv3 24
M8M C8 -4.125 -2.139 -2.233 ETKDGv3 25
M8M HN1 3.185 4.463 2.651 ETKDGv3 26
M8M HN1A 4.794 4.066 2.414 ETKDGv3 27
M8M H4 4.038 1.549 1.123 ETKDGv3 28
M8M H4A 2.297 1.995 1.394 ETKDGv3 29
M8M H5 2.221 0.418 3.356 ETKDGv3 30
M8M H5A 3.921 -0.014 3.097 ETKDGv3 31
M8M H6 3.452 -2.140 0.263 ETKDGv3 32
M8M H6A 4.628 -1.160 1.169 ETKDGv3 33
M8M H6B 3.677 -0.396 -0.166 ETKDGv3 34
M8M "H5'" 1.402 0.200 0.120 ETKDGv3 35
M8M "H5'A" 0.612 0.027 1.706 ETKDGv3 36
M8M "H4'" 0.877 -2.614 1.231 ETKDGv3 37
M8M "H1'" -1.925 -2.810 -0.558 ETKDGv3 38
M8M H10 -0.610 3.251 0.475 ETKDGv3 39
M8M HN7 -5.013 2.783 -2.788 ETKDGv3 40
M8M HN7A -4.232 4.337 -2.332 ETKDGv3 41
M8M "H2'" -0.258 -0.687 -1.999 ETKDGv3 42
M8M "HO2'" -0.053 -2.373 -3.442 ETKDGv3 43
M8M "H3'" 1.741 -1.642 -1.327 ETKDGv3 44
M8M "HO3'" 0.306 -4.044 -0.666 ETKDGv3 45
M8M H8 -5.116 -1.980 -2.707 ETKDGv3 46
M8M H8A -4.239 -2.880 -1.415 ETKDGv3 47
M8M H8B -3.420 -2.533 -2.993 ETKDGv3 48
#