data_K3K
#
_chem_comp.id K3K
_chem_comp.name
(2~{R},3~{R},4~{S},5~{R})-2-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-5-(hydroxymethyl)oxolane-3,4-diol
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C23 H26 N10 O8"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-04-16
_chem_comp.pdbx_modified_date 2020-02-14
_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 570.515
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code K3K
_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 6RG9
_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
K3K C2 C1 C 0 1 Y N N N N N 22.701 11.534 12.833 7.644 2.363 1.092 C2 K3K 1
K3K C4 C2 C 0 1 Y N N N N N 20.545 11.104 12.949 5.807 1.239 0.287 C4 K3K 2
K3K N1 N1 N 0 1 Y N N N N N 22.504 12.616 12.162 7.588 3.269 0.132 N1 K3K 3
K3K C8 C3 C 0 1 Y N N N N N 18.464 11.308 12.717 4.096 0.738 -1.021 C8 K3K 4
K3K C6 C4 C 0 1 Y N N N N N 21.299 13.040 11.887 6.648 3.220 -0.806 C6 K3K 5
K3K N3 N2 N 0 1 Y N N N N N 21.759 10.767 13.225 6.786 1.369 1.177 N3 K3K 6
K3K C5 C5 C 0 1 Y N N N N N 20.271 12.254 12.272 5.706 2.175 -0.758 C5 K3K 7
K3K N6 N3 N 0 1 N N N N N N 21.131 14.161 11.253 6.597 4.174 -1.806 N6 K3K 8
K3K N7 N4 N 0 1 Y N N N N N 18.994 12.316 12.169 4.647 1.821 -1.518 N7 K3K 9
K3K "C1'" C6 C 0 1 N N R N N N 19.380 9.283 13.910 4.485 -0.820 0.939 "C1'" K3K 10
K3K C1B C7 C 0 1 Y N N N N N 18.463 4.084 7.382 -7.533 2.946 0.678 C1B K3K 11
K3K C1P C8 C 0 1 N N R N N N 16.917 8.319 8.966 -4.198 -0.566 -0.056 C1P K3K 12
K3K "C2'" C9 C 0 1 N N R N N N 18.384 9.109 15.024 3.247 -0.548 1.832 "C2'" K3K 13
K3K C2P C10 C 0 1 N N R N N N 16.781 9.457 7.941 -4.883 -1.765 -0.748 C2P K3K 14
K3K "C3'" C11 C 0 1 N N S N N N 18.472 7.642 15.086 2.731 -1.980 2.115 "C3'" K3K 15
K3K C3B C12 C 0 1 Y N N N N N 19.947 5.307 8.481 -7.566 1.276 2.271 C3B K3K 16
K3K C3P C13 C 0 1 N N S N N N 15.479 10.110 8.324 -3.709 -2.583 -1.330 C3P K3K 17
K3K "C4'" C14 C 0 1 N N R N N N 18.722 7.304 13.618 3.337 -2.831 0.982 "C4'" K3K 18
K3K C4P C15 C 0 1 N N R N N N 15.452 9.777 9.812 -2.453 -1.782 -0.921 C4P K3K 19
K3K "C5'" C16 C 0 1 N N N N N N 17.557 6.535 13.101 2.221 -3.513 0.190 "C5'" K3K 20
K3K C5B C17 C 0 1 Y N N N N N 17.925 6.186 8.234 -6.011 1.078 0.590 C5B K3K 21
K3K C5P C18 C 0 1 N N N N N N 14.093 9.965 10.536 -1.407 -1.824 -2.036 C5P K3K 22
K3K C6B C19 C 0 1 Y N N N N N 17.556 5.079 7.575 -6.478 2.280 0.032 C6B K3K 23
K3K C81 C20 C 0 1 N N N N N N 17.090 11.111 12.729 2.951 0.071 -1.563 C81 K3K 24
K3K C82 C21 C 0 1 N N N N N N 15.937 10.910 12.761 2.012 -0.476 -2.008 C82 K3K 25
K3K C83 C22 C 0 1 N N N N N N 14.509 10.601 12.824 0.835 -1.162 -2.565 C83 K3K 26
K3K C8B C23 C 0 1 Y N N N N N 15.943 6.441 7.686 -4.869 1.563 -1.232 C8B K3K 27
K3K N1B N5 N 0 1 N N N N N N 18.202 3.015 6.749 -8.038 4.131 0.172 N1B K3K 28
K3K N2B N6 N 0 1 Y N N N N N 19.657 4.244 7.857 -8.038 2.409 1.784 N2B K3K 29
K3K N4B N7 N 0 1 Y N N N N N 19.125 6.250 8.672 -6.579 0.618 1.700 N4B K3K 30
K3K N7B N8 N 0 1 Y N N N N N 16.329 5.273 7.249 -5.738 2.519 -1.078 N7B K3K 31
K3K N9 N9 N 0 1 Y N N N N N 19.424 10.547 13.211 4.783 0.345 0.102 N9 K3K 32
K3K N9B N10 N 0 1 Y N N N N N 16.923 6.996 8.326 -4.997 0.650 -0.228 N9B K3K 33
K3K "O2'" O1 O 0 1 N N N N N N 18.933 9.562 16.205 3.628 0.106 3.044 "O2'" K3K 34
K3K O2P O2 O 0 1 N N N N N N 17.836 10.340 8.028 -5.613 -2.543 0.203 O2P K3K 35
K3K "O3'" O3 O 0 1 N N N N N N 19.656 7.354 15.777 3.196 -2.437 3.387 "O3'" K3K 36
K3K O3P O4 O 0 1 N N N N N N 15.416 11.478 8.091 -3.677 -3.892 -0.757 O3P K3K 37
K3K "O4'" O5 O 0 1 N N N N N N 18.833 8.503 13.021 4.074 -1.941 0.127 "O4'" K3K 38
K3K O4P O6 O 0 1 N N N N N N 15.792 8.444 9.773 -2.925 -0.431 -0.725 O4P K3K 39
K3K "O5'" O7 O 0 1 N N N N N N 16.517 7.347 12.635 2.794 -4.390 -0.783 "O5'" K3K 40
K3K O5P O8 O 0 1 N N N N N N 14.048 9.571 11.893 -0.212 -1.178 -1.593 O5P K3K 41
K3K H1 H1 H 0 1 N N N N N N 23.717 11.261 13.077 8.427 2.438 1.832 H1 K3K 42
K3K H2 H2 H 0 1 N N N N N N 22.022 14.568 11.052 7.251 4.889 -1.829 H2 K3K 43
K3K H3 H3 H 0 1 N N N N N N 20.642 13.990 10.397 5.906 4.128 -2.486 H3 K3K 44
K3K H4 H4 H 0 1 N N N N N N 20.382 8.963 14.231 5.348 -1.083 1.549 H4 K3K 45
K3K H5 H5 H 0 1 N N N N N N 17.841 8.463 9.545 -4.050 -0.774 1.004 H5 K3K 46
K3K H6 H6 H 0 1 N N N N N N 17.381 9.491 14.782 2.500 0.036 1.294 H6 K3K 47
K3K H7 H7 H 0 1 N N N N N N 16.696 9.027 6.932 -5.543 -1.420 -1.544 H7 K3K 48
K3K H8 H8 H 0 1 N N N N N N 17.569 7.160 15.488 1.642 -2.008 2.075 H8 K3K 49
K3K H9 H9 H 0 1 N N N N N N 20.948 5.414 8.871 -8.005 0.875 3.172 H9 K3K 50
K3K H10 H10 H 0 1 N N N N N N 14.650 9.587 7.825 -3.786 -2.643 -2.416 H10 K3K 51
K3K H11 H11 H 0 1 N N N N N N 19.640 6.705 13.529 4.007 -3.582 1.401 H11 K3K 52
K3K H12 H12 H 0 1 N N N N N N 16.218 10.372 10.331 -2.036 -2.178 0.005 H12 K3K 53
K3K H13 H13 H 0 1 N N N N N N 17.169 5.903 13.913 1.591 -4.087 0.870 H13 K3K 54
K3K H14 H14 H 0 1 N N N N N N 17.900 5.898 12.272 1.618 -2.757 -0.313 H14 K3K 55
K3K H15 H15 H 0 1 N N N N N N 13.832 11.033 10.488 -1.187 -2.861 -2.289 H15 K3K 56
K3K H16 H16 H 0 1 N N N N N N 13.339 9.378 9.991 -1.793 -1.310 -2.916 H16 K3K 57
K3K H17 H17 H 0 1 N N N N N N 13.952 11.525 12.610 0.495 -0.634 -3.457 H17 K3K 58
K3K H18 H18 H 0 1 N N N N N N 14.280 10.262 13.845 1.102 -2.185 -2.829 H18 K3K 59
K3K H19 H19 H 0 1 N N N N N N 14.965 6.874 7.538 -4.152 1.502 -2.038 H19 K3K 60
K3K H20 H20 H 0 1 N N N N N N 19.017 2.436 6.721 -7.663 4.511 -0.638 H20 K3K 61
K3K H21 H21 H 0 1 N N N N N N 17.462 2.526 7.211 -8.766 4.582 0.627 H21 K3K 62
K3K H22 H22 H 0 1 N N N N N N 18.305 9.453 16.909 2.888 0.297 3.637 H22 K3K 63
K3K H23 H23 H 0 1 N N N N N N 18.640 9.899 7.781 -6.013 -3.342 -0.167 H23 K3K 64
K3K H24 H24 H 0 1 N N N N N N 19.541 7.552 16.699 2.902 -3.329 3.616 H24 K3K 65
K3K H25 H25 H 0 1 N N N N N N 14.566 11.807 8.359 -4.470 -4.418 -0.932 H25 K3K 66
K3K H26 H26 H 0 1 N N N N N N 15.806 6.802 12.320 2.142 -4.857 -1.323 H26 K3K 67
#
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
K3K N1B C1B SING N N 1
K3K N7B C6B SING Y N 2
K3K N7B C8B DOUB Y N 3
K3K C1B C6B DOUB Y N 4
K3K C1B N2B SING Y N 5
K3K C6B C5B SING Y N 6
K3K C8B N9B SING Y N 7
K3K N2B C3B DOUB Y N 8
K3K C2P O2P SING N N 9
K3K C2P C3P SING N N 10
K3K C2P C1P SING N N 11
K3K O3P C3P SING N N 12
K3K C5B N9B SING Y N 13
K3K C5B N4B DOUB Y N 14
K3K C3P C4P SING N N 15
K3K N9B C1P SING N N 16
K3K C3B N4B SING Y N 17
K3K C1P O4P SING N N 18
K3K O4P C4P SING N N 19
K3K C4P C5P SING N N 20
K3K C5P O5P SING N N 21
K3K N6 C6 SING N N 22
K3K C6 N1 DOUB Y N 23
K3K C6 C5 SING Y N 24
K3K O5P C83 SING N N 25
K3K N1 C2 SING Y N 26
K3K N7 C5 SING Y N 27
K3K N7 C8 DOUB Y N 28
K3K C5 C4 DOUB Y N 29
K3K "O5'" "C5'" SING N N 30
K3K C8 C81 SING N N 31
K3K C8 N9 SING Y N 32
K3K C81 C82 TRIP N N 33
K3K C82 C83 SING N N 34
K3K C2 N3 DOUB Y N 35
K3K C4 N9 SING Y N 36
K3K C4 N3 SING Y N 37
K3K "O4'" "C4'" SING N N 38
K3K "O4'" "C1'" SING N N 39
K3K "C5'" "C4'" SING N N 40
K3K N9 "C1'" SING N N 41
K3K "C4'" "C3'" SING N N 42
K3K "C1'" "C2'" SING N N 43
K3K "C2'" "C3'" SING N N 44
K3K "C2'" "O2'" SING N N 45
K3K "C3'" "O3'" SING N N 46
K3K C2 H1 SING N N 47
K3K N6 H2 SING N N 48
K3K N6 H3 SING N N 49
K3K "C1'" H4 SING N N 50
K3K C1P H5 SING N N 51
K3K "C2'" H6 SING N N 52
K3K C2P H7 SING N N 53
K3K "C3'" H8 SING N N 54
K3K C3B H9 SING N N 55
K3K C3P H10 SING N N 56
K3K "C4'" H11 SING N N 57
K3K C4P H12 SING N N 58
K3K "C5'" H13 SING N N 59
K3K "C5'" H14 SING N N 60
K3K C5P H15 SING N N 61
K3K C5P H16 SING N N 62
K3K C83 H17 SING N N 63
K3K C83 H18 SING N N 64
K3K C8B H19 SING N N 65
K3K N1B H20 SING N N 66
K3K N1B H21 SING N N 67
K3K "O2'" H22 SING N N 68
K3K O2P H23 SING N N 69
K3K "O3'" H24 SING N N 70
K3K O3P H25 SING N N 71
K3K "O5'" H26 SING N N 72
#
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
K3K InChI InChI 1.03 InChI=1S/C23H26N10O8/c24-18-12-20(28-6-26-18)32(8-30-12)22-16(37)15(36)10(41-22)5-39-3-1-2-11-31-13-19(25)27-7-29-21(13)33(11)23-17(38)14(35)9(4-34)40-23/h6-10,14-17,22-23,34-38H,3-5H2,(H2,24,26,28)(H2,25,27,29)/t9-,10-,14-,15-,16-,17-,22-,23-/m1/s1
K3K InChIKey InChI 1.03 DDNDMZZNOIOKKS-MKWZPUSRSA-N
K3K SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](COCC#Cc4nc5c(N)ncnc5n4[C@@H]6O[C@H](CO)[C@@H](O)[C@H]6O)[C@@H](O)[C@H]3O"
K3K SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](COCC#Cc4nc5c(N)ncnc5n4[CH]6O[CH](CO)[CH](O)[CH]6O)[CH](O)[CH]3O"
K3K SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COCC#Cc4nc5c(ncnc5n4[C@H]6[C@@H]([C@@H]([C@H](O6)CO)O)O)N)O)O)N"
K3K SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COCC#Cc4nc5c(ncnc5n4C6C(C(C(O6)CO)O)O)N)O)O)N"
#
_pdbx_chem_comp_identifier.comp_id K3K
_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~{R},3~{R},4~{S},5~{R})-2-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-5-(hydroxymethyl)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
K3K 'Create component' 2019-04-16 RCSB
K3K 'Initial release' 2020-02-19 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
K3K C2 C 3.000 1.421 1
K3K C4 C 5.598 1.421 2
K3K N1 N 3.000 -0.079 3
K3K C8 C 7.893 0.671 4
K3K C6 C 4.299 -0.829 5
K3K N3 N 4.299 2.171 6
K3K C5 C 5.598 -0.079 7
K3K N6 N 4.299 -2.329 8
K3K N7 N 7.018 -0.536 9
K3K "C1'" C 7.483 3.304 10
K3K C1B C 20.980 -7.143 11
K3K C1P C 17.196 -3.551 12
K3K "C2'" C 8.911 3.765 13
K3K C2P C 15.897 -4.301 14
K3K "C3'" C 8.913 5.265 15
K3K C3B C 18.608 -8.204 16
K3K C3P C 14.783 -3.297 17
K3K "C4'" C 7.487 5.731 18
K3K C4P C 15.393 -1.927 19
K3K "C5'" C 7.027 7.159 20
K3K C5B C 18.876 -5.620 21
K3K C5P C 14.643 -0.628 22
K3K C6B C 20.368 -5.774 23
K3K C81 C 9.393 0.671 24
K3K C82 C 10.893 0.671 25
K3K C83 C 12.393 0.671 26
K3K C8B C 19.858 -3.414 27
K3K N1B N 22.472 -7.297 28
K3K N2B N 20.100 -8.358 29
K3K N4B N 17.996 -6.835 30
K3K N7B N 20.968 -4.409 31
K3K N9 N 7.018 1.878 32
K3K N9B N 18.567 -4.161 33
K3K "O2'" O 10.123 2.881 34
K3K O2P O 15.741 -5.792 35
K3K "O3'" O 10.129 6.145 36
K3K O3P O 13.316 -3.609 37
K3K "O4'" O 6.604 4.519 38
K3K O4P O 16.885 -2.083 39
K3K "O5'" O 5.560 7.473 40
K3K O5P O 13.143 -0.628 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
K3K N1B C1B SINGLE NONE 1
K3K N7B C6B SINGLE NONE 2
K3K N7B C8B DOUBLE NONE 3
K3K C1B C6B DOUBLE NONE 4
K3K C1B N2B SINGLE NONE 5
K3K C6B C5B SINGLE NONE 6
K3K C8B N9B SINGLE NONE 7
K3K N2B C3B DOUBLE NONE 8
K3K C2P O2P SINGLE BEGINDASH 9
K3K C2P C3P SINGLE NONE 10
K3K C2P C1P SINGLE NONE 11
K3K C3P O3P SINGLE BEGINDASH 12
K3K C5B N9B SINGLE NONE 13
K3K C5B N4B DOUBLE NONE 14
K3K C3P C4P SINGLE NONE 15
K3K C1P N9B SINGLE BEGINWEDGE 16
K3K C3B N4B SINGLE NONE 17
K3K C1P O4P SINGLE NONE 18
K3K O4P C4P SINGLE NONE 19
K3K C4P C5P SINGLE BEGINWEDGE 20
K3K C5P O5P SINGLE NONE 21
K3K N6 C6 SINGLE NONE 22
K3K C6 N1 SINGLE NONE 23
K3K C6 C5 DOUBLE NONE 24
K3K O5P C83 SINGLE NONE 25
K3K N1 C2 DOUBLE NONE 26
K3K N7 C5 SINGLE NONE 27
K3K N7 C8 DOUBLE NONE 28
K3K C5 C4 SINGLE NONE 29
K3K "O5'" "C5'" SINGLE NONE 30
K3K C8 C81 SINGLE NONE 31
K3K C8 N9 SINGLE NONE 32
K3K C81 C82 TRIPLE NONE 33
K3K C82 C83 SINGLE NONE 34
K3K C2 N3 SINGLE NONE 35
K3K C4 N9 SINGLE NONE 36
K3K C4 N3 DOUBLE NONE 37
K3K "O4'" "C4'" SINGLE NONE 38
K3K "O4'" "C1'" SINGLE NONE 39
K3K "C4'" "C5'" SINGLE BEGINDASH 40
K3K "C1'" N9 SINGLE BEGINDASH 41
K3K "C4'" "C3'" SINGLE NONE 42
K3K "C1'" "C2'" SINGLE NONE 43
K3K "C2'" "C3'" SINGLE NONE 44
K3K "C2'" "O2'" SINGLE BEGINWEDGE 45
K3K "C3'" "O3'" SINGLE BEGINWEDGE 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
K3K MurckoScaffold S1 scaffold 'C(#Cc1nc2cncnc2n1[C@H]1CCCO1)COC[C@@H]1CC[C@H](n2cnc3cncnc32)O1' InChI=1S/C22H22N8O3/c1(3-18-28-17-10-24-13-26-22(17)30(18)20-4-2-8-32-20)7-31-11-15-5-6-19(33-15)29-14-27-16-9-23-12-25-21(16)29/h9-10,12-15,19-20H,2,4-8,11H2/t15-,19+,20+/m0/s1 SRZSOZXMOIRXJV-CWFSZBLJSA-N
K3K 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
K3K imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
K3K 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
K3K pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
K3K ribose F5 fragment OCC1OCC(O)C1O InChI=1S/C5H10O4/c6-1-4-5(8)3(7)2-9-4/h3-8H,1-2H2 KZVAAIRBJJYZOW-UHFFFAOYSA-N
K3K Z1362754425 F6 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
K3K C2 S1 1
K3K C4 S1 1
K3K N1 S1 1
K3K C8 S1 1
K3K C6 S1 1
K3K N3 S1 1
K3K C5 S1 1
K3K N7 S1 1
K3K "C1'" S1 1
K3K C1B S1 1
K3K C1P S1 1
K3K "C2'" S1 1
K3K C2P S1 1
K3K "C3'" S1 1
K3K C3B S1 1
K3K C3P S1 1
K3K "C4'" S1 1
K3K C4P S1 1
K3K C5B S1 1
K3K C5P S1 1
K3K C6B S1 1
K3K C81 S1 1
K3K C82 S1 1
K3K C83 S1 1
K3K C8B S1 1
K3K N2B S1 1
K3K N4B S1 1
K3K N7B S1 1
K3K N9 S1 1
K3K N9B S1 1
K3K "O4'" S1 1
K3K O4P S1 1
K3K O5P S1 1
K3K N1 F1 1
K3K C6 F1 1
K3K C5 F1 1
K3K C4 F1 1
K3K N3 F1 1
K3K C2 F1 1
K3K N9 F1 1
K3K C8 F1 1
K3K N7 F1 1
K3K N6 F1 1
K3K N2B F1 2
K3K C1B F1 2
K3K C6B F1 2
K3K C5B F1 2
K3K N4B F1 2
K3K C3B F1 2
K3K N9B F1 2
K3K C8B F1 2
K3K N7B F1 2
K3K N1B F1 2
K3K C4 F2 1
K3K C5 F2 1
K3K N7 F2 1
K3K C8 F2 1
K3K N9 F2 1
K3K C5B F2 2
K3K C6B F2 2
K3K N7B F2 2
K3K C8B F2 2
K3K N9B F2 2
K3K N7 F3 1
K3K C8 F3 1
K3K N9 F3 1
K3K C4 F3 1
K3K C5 F3 1
K3K C6 F3 1
K3K N1 F3 1
K3K C2 F3 1
K3K N3 F3 1
K3K N7B F3 2
K3K C8B F3 2
K3K N9B F3 2
K3K C5B F3 2
K3K C6B F3 2
K3K C1B F3 2
K3K N2B F3 2
K3K C3B F3 2
K3K N4B F3 2
K3K C5 F4 1
K3K C6 F4 1
K3K N1 F4 1
K3K C2 F4 1
K3K N3 F4 1
K3K C4 F4 1
K3K C6B F4 2
K3K C1B F4 2
K3K N2B F4 2
K3K C3B F4 2
K3K N4B F4 2
K3K C5B F4 2
K3K "C2'" F5 1
K3K "C3'" F5 1
K3K "C4'" F5 1
K3K "O4'" F5 1
K3K "C1'" F5 1
K3K "C5'" F5 1
K3K "O5'" F5 1
K3K "O3'" F5 1
K3K "O2'" F5 1
K3K C2P F5 2
K3K C3P F5 2
K3K C4P F5 2
K3K O4P F5 2
K3K C1P F5 2
K3K C5P F5 2
K3K O5P F5 2
K3K O3P F5 2
K3K O2P F5 2
K3K "C3'" F6 1
K3K "C2'" F6 1
K3K "O2'" F6 1
K3K "C1'" F6 1
K3K N9 F6 1
K3K C4 F6 1
K3K C5 F6 1
K3K N7 F6 1
K3K C8 F6 1
K3K C81 F6 1
#
_pdbe_chem_comp_rdkit_properties.comp_id K3K
_pdbe_chem_comp_rdkit_properties.exactmw 570.194
_pdbe_chem_comp_rdkit_properties.amw 570.523
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 18
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 9
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 13
_pdbe_chem_comp_rdkit_properties.NumHBD 7
_pdbe_chem_comp_rdkit_properties.NumHBA 18
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 41
_pdbe_chem_comp_rdkit_properties.NumAtoms 67
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 18
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.478
_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 6
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 4
_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 8
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 266.926
_pdbe_chem_comp_rdkit_properties.tpsa 268.080
_pdbe_chem_comp_rdkit_properties.CrippenClogP -5.243
_pdbe_chem_comp_rdkit_properties.CrippenMR 129.775
_pdbe_chem_comp_rdkit_properties.chi0v 19.238
_pdbe_chem_comp_rdkit_properties.chi1v 10.468
_pdbe_chem_comp_rdkit_properties.chi2v 5.116
_pdbe_chem_comp_rdkit_properties.chi3v 5.116
_pdbe_chem_comp_rdkit_properties.chi4v 3.371
_pdbe_chem_comp_rdkit_properties.chi0n 45.238
_pdbe_chem_comp_rdkit_properties.chi1n 22.798
_pdbe_chem_comp_rdkit_properties.chi2n 5.116
_pdbe_chem_comp_rdkit_properties.chi3n 5.116
_pdbe_chem_comp_rdkit_properties.chi4n 3.371
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -4.060
_pdbe_chem_comp_rdkit_properties.kappa1 10.337
_pdbe_chem_comp_rdkit_properties.kappa2 10.732
_pdbe_chem_comp_rdkit_properties.kappa3 4.593
_pdbe_chem_comp_rdkit_properties.Phi 2.706
#
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
K3K UniChem ChEMBL CHEMBL5084513
K3K UniChem PDBe K3K
K3K UniChem 'PubChem TPHARMA' 136957744
K3K UniChem PubChem 57411421
#
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
K3K C2 -5.036 -1.845 -4.594 ETKDGv3 1
K3K C4 -3.776 -1.136 -2.743 ETKDGv3 2
K3K N1 -4.196 -2.829 -4.821 ETKDGv3 3
K3K C8 -2.261 -1.231 -1.118 ETKDGv3 4
K3K C6 -3.051 -3.051 -3.967 ETKDGv3 5
K3K N3 -4.834 -0.953 -3.472 ETKDGv3 6
K3K C5 -2.863 -2.196 -2.963 ETKDGv3 7
K3K N6 -2.181 -4.161 -4.186 ETKDGv3 8
K3K N7 -1.916 -2.217 -1.905 ETKDGv3 9
K3K "C1'" -4.312 0.354 -0.737 ETKDGv3 10
K3K C1B 7.090 -2.129 0.608 ETKDGv3 11
K3K C1P 4.250 1.819 0.867 ETKDGv3 12
K3K "C2'" -5.198 -0.516 0.147 ETKDGv3 13
K3K C2P 3.710 2.167 -0.520 ETKDGv3 14
K3K "C3'" -5.536 0.419 1.290 ETKDGv3 15
K3K C3B 7.561 -0.528 -1.124 ETKDGv3 16
K3K C3P 2.221 2.048 -0.319 ETKDGv3 17
K3K "C4'" -4.398 1.461 1.240 ETKDGv3 18
K3K C4P 2.062 2.419 1.150 ETKDGv3 19
K3K "C5'" -3.543 1.418 2.513 ETKDGv3 20
K3K C5B 5.695 -0.224 0.269 ETKDGv3 21
K3K C5P 0.876 1.705 1.805 ETKDGv3 22
K3K C6B 6.017 -1.421 0.956 ETKDGv3 23
K3K C81 -1.511 -0.933 0.071 ETKDGv3 24
K3K C82 -0.861 -0.687 1.056 ETKDGv3 25
K3K C83 -0.049 -0.381 2.239 ETKDGv3 26
K3K C8B 4.393 -0.493 2.054 ETKDGv3 27
K3K N1B 7.488 -3.299 1.323 ETKDGv3 28
K3K N2B 7.871 -1.647 -0.510 ETKDGv3 29
K3K N4B 6.424 0.255 -0.692 ETKDGv3 30
K3K N7B 5.168 -1.547 2.086 ETKDGv3 31
K3K N9 -3.411 -0.463 -1.553 ETKDGv3 32
K3K N9B 4.617 0.401 0.940 ETKDGv3 33
K3K "O2'" -6.329 -1.035 -0.514 ETKDGv3 34
K3K O2P 4.073 3.486 -0.844 ETKDGv3 35
K3K "O3'" -6.800 1.025 1.137 ETKDGv3 36
K3K O3P 1.496 2.926 -1.142 ETKDGv3 37
K3K "O4'" -3.581 1.206 0.112 ETKDGv3 38
K3K O4P 3.257 2.106 1.832 ETKDGv3 39
K3K "O5'" -2.496 2.348 2.434 ETKDGv3 40
K3K O5P 1.121 0.312 1.857 ETKDGv3 41
K3K H1 -5.888 -1.705 -5.244 ETKDGv3 42
K3K H2 -1.355 -4.332 -3.570 ETKDGv3 43
K3K H3 -2.364 -4.818 -4.976 ETKDGv3 44
K3K H4 -4.928 0.991 -1.412 ETKDGv3 45
K3K H5 5.154 2.426 1.095 ETKDGv3 46
K3K H6 -4.600 -1.365 0.548 ETKDGv3 47
K3K H7 4.065 1.458 -1.304 ETKDGv3 48
K3K H8 -5.543 -0.153 2.245 ETKDGv3 49
K3K H9 8.167 -0.184 -1.951 ETKDGv3 50
K3K H10 1.906 0.993 -0.500 ETKDGv3 51
K3K H11 -4.816 2.488 1.146 ETKDGv3 52
K3K H12 1.897 3.518 1.237 ETKDGv3 53
K3K H13 -3.109 0.403 2.634 ETKDGv3 54
K3K H14 -4.174 1.627 3.406 ETKDGv3 55
K3K H15 -0.042 1.940 1.217 ETKDGv3 56
K3K H16 0.751 2.103 2.838 ETKDGv3 57
K3K H17 0.254 -1.342 2.704 ETKDGv3 58
K3K H18 -0.655 0.167 2.996 ETKDGv3 59
K3K H19 3.656 -0.305 2.823 ETKDGv3 60
K3K H20 6.935 -3.650 2.137 ETKDGv3 61
K3K H21 8.343 -3.822 1.033 ETKDGv3 62
K3K H22 -6.741 -0.316 -1.058 ETKDGv3 63
K3K H23 4.000 3.570 -1.830 ETKDGv3 64
K3K H24 -6.782 1.581 0.315 ETKDGv3 65
K3K H25 1.516 2.535 -2.055 ETKDGv3 66
K3K H26 -2.897 3.242 2.592 ETKDGv3 67
#