data_LHD
# 
_chem_comp.id                                    LHD 
_chem_comp.name                                  "2-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl-[[4-azanyl-1-(methoxymethyl)-2-oxidanylidene-pyrimidin-5-yl]methyl]azanium" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H26 N9 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    1 
_chem_comp.pdbx_initial_date                     2016-09-14 
_chem_comp.pdbx_modified_date                    2017-09-15 
_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                        448.456 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     LHD 
_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        5TBJ 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
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.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 
LHD C1  C1  C 0 1 Y N N 50.841 41.269 126.139 6.713  -2.417 0.327  C1  LHD 1  
LHD C2  C2  C 0 1 Y N N 50.692 40.039 126.807 5.417  -1.882 0.242  C2  LHD 2  
LHD C3  C3  C 0 1 Y N N 50.580 40.083 128.186 5.271  -0.485 0.287  C3  LHD 3  
LHD N1  N1  N 0 1 Y N N 50.605 41.176 128.958 6.356  0.274  0.406  N1  LHD 4  
LHD C4  C4  C 0 1 Y N N 50.761 42.277 128.219 7.551  -0.272 0.482  C4  LHD 5  
LHD N2  N2  N 0 1 Y N N 50.876 42.389 126.892 7.738  -1.579 0.445  N2  LHD 6  
LHD N3  N3  N 0 1 Y N N 50.460 38.776 128.590 3.925  -0.241 0.187  N3  LHD 7  
LHD C5  C5  C 0 1 Y N N 50.512 38.025 127.450 3.298  -1.448 0.086  C5  LHD 8  
LHD N4  N4  N 0 1 Y N N 50.649 38.730 126.352 4.175  -2.409 0.119  N4  LHD 9  
LHD C6  C6  C 0 1 N N R 50.294 38.280 129.958 3.279  1.074  0.188  C6  LHD 10 
LHD O1  O1  O 0 1 N N N 51.477 37.601 130.332 1.877  0.952  0.511  O1  LHD 11 
LHD C7  C7  C 0 1 N N R 51.150 36.425 131.109 1.227  2.132  0.010  C7  LHD 12 
LHD C8  C8  C 0 1 N N S 49.640 36.467 131.321 2.068  2.652  -1.171 C8  LHD 13 
LHD C9  C9  C 0 1 N N R 49.154 37.275 130.116 3.270  1.678  -1.239 C9  LHD 14 
LHD O2  O2  O 0 1 N N N 47.914 37.925 130.375 4.484  2.384  -1.502 O2  LHD 15 
LHD O3  O3  O 0 1 N N N 49.307 37.089 132.556 2.518  3.984  -0.916 O3  LHD 16 
LHD N5  N5  N 1 1 N N N 52.744 32.953 130.476 -2.397 1.037  0.269  N5  LHD 17 
LHD C10 C10 C 0 1 N N N 53.310 31.854 131.305 -3.220 0.640  1.418  C10 LHD 18 
LHD C11 C11 C 0 1 N N N 52.204 30.870 131.502 -4.610 0.298  0.946  C11 LHD 19 
LHD N6  N6  N 0 1 N N N 50.935 41.387 124.811 6.918  -3.785 0.294  N6  LHD 20 
LHD C12 C12 C 0 1 N N N 51.323 30.877 132.641 -5.578 1.309  0.779  C12 LHD 21 
LHD N7  N7  N 0 1 N N N 50.315 30.009 132.770 -6.796 0.988  0.363  N7  LHD 22 
LHD C13 C13 C 0 1 N N N 50.081 29.069 131.816 -7.114 -0.279 0.101  C13 LHD 23 
LHD N8  N8  N 0 1 N N N 50.916 29.032 130.699 -6.212 -1.266 0.251  N8  LHD 24 
LHD C14 C14 C 0 1 N N N 51.948 29.922 130.582 -4.946 -0.984 0.671  C14 LHD 25 
LHD N9  N9  N 0 1 N N N 51.524 31.776 133.610 -5.262 2.621  1.047  N9  LHD 26 
LHD C15 C15 C 0 1 N N N 50.723 28.086 129.591 -6.591 -2.650 -0.044 C15 LHD 27 
LHD O4  O4  O 0 1 N N N 50.728 26.751 130.011 -6.655 -2.835 -1.459 O4  LHD 28 
LHD C16 C16 C 0 1 N N N 51.806 26.411 130.864 -5.382 -3.031 -2.079 C16 LHD 29 
LHD O5  O5  O 0 1 N N N 49.158 28.258 131.901 -8.241 -0.549 -0.281 O5  LHD 30 
LHD C17 C17 C 0 1 N N N 51.674 35.197 130.393 -0.184 1.784  -0.469 C17 LHD 31 
LHD C18 C18 C 0 1 N N N 52.190 34.083 131.281 -1.042 1.371  0.729  C18 LHD 32 
LHD H1  H1  H 0 1 N N N 50.800 43.205 128.769 8.412  0.373  0.578  H1  LHD 33 
LHD H2  H2  H 0 1 N N N 50.446 36.947 127.452 2.230  -1.586 -0.006 H2  LHD 34 
LHD H3  H3  H 0 1 N N N 50.112 39.127 130.636 3.780  1.745  0.886  H3  LHD 35 
LHD H4  H4  H 0 1 N N N 51.639 36.490 132.092 1.179  2.889  0.793  H4  LHD 36 
LHD H5  H5  H 0 1 N N N 49.232 35.447 131.269 1.492  2.615  -2.095 H5  LHD 37 
LHD H6  H6  H 0 1 N N N 49.095 36.629 129.228 3.102  0.905  -1.988 H6  LHD 38 
LHD H7  H7  H 0 1 N N N 47.228 37.274 130.468 4.526  2.781  -2.383 H7  LHD 39 
LHD H8  H8  H 0 1 N N N 49.626 36.557 133.275 3.053  4.362  -1.628 H8  LHD 40 
LHD H26 H9  H 0 1 N N N 52.009 32.577 129.911 -2.350 0.275  -0.391 H26 LHD 41 
LHD H9  H10 H 0 1 N N N 53.469 33.310 129.886 -2.808 1.843  -0.178 H9  LHD 42 
LHD H10 H11 H 0 1 N N N 54.155 31.379 130.784 -2.776 -0.231 1.900  H10 LHD 43 
LHD H11 H12 H 0 1 N N N 53.650 32.245 132.275 -3.271 1.463  2.131  H11 LHD 44 
LHD H12 H13 H 0 1 N N N 51.023 42.353 124.567 6.162  -4.387 0.212  H12 LHD 45 
LHD H13 H14 H 0 1 N N N 51.739 40.888 124.488 7.818  -4.142 0.353  H13 LHD 46 
LHD H14 H15 H 0 1 N N N 52.586 29.861 129.713 -4.222 -1.777 0.791  H14 LHD 47 
LHD H16 H16 H 0 1 N N N 50.926 31.790 134.411 -4.371 2.852  1.351  H16 LHD 48 
LHD H15 H17 H 0 1 N N N 52.273 32.435 133.534 -5.931 3.314  0.931  H15 LHD 49 
LHD H18 H18 H 0 1 N N N 51.534 28.228 128.862 -5.848 -3.328 0.378  H18 LHD 50 
LHD H17 H19 H 0 1 N N N 49.757 28.300 129.111 -7.566 -2.861 0.395  H17 LHD 51 
LHD H20 H20 H 0 1 N N N 51.732 25.350 131.144 -4.752 -2.160 -1.896 H20 LHD 52 
LHD H19 H21 H 0 1 N N N 52.757 26.587 130.340 -4.907 -3.918 -1.660 H19 LHD 53 
LHD H21 H22 H 0 1 N N N 51.766 27.033 131.771 -5.517 -3.164 -3.152 H21 LHD 54 
LHD H22 H23 H 0 1 N N N 50.856 34.789 129.781 -0.629 2.655  -0.951 H22 LHD 55 
LHD H23 H24 H 0 1 N N N 52.498 35.515 129.738 -0.133 0.961  -1.181 H23 LHD 56 
LHD H25 H25 H 0 1 N N N 52.983 34.482 131.930 -1.093 2.194  1.441  H25 LHD 57 
LHD H24 H26 H 0 1 N N N 51.363 33.708 131.901 -0.597 0.500  1.211  H24 LHD 58 
# 
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 
LHD N6  C1  SING N N 1  
LHD C1  C2  DOUB Y N 2  
LHD C1  N2  SING Y N 3  
LHD N4  C2  SING Y N 4  
LHD N4  C5  DOUB Y N 5  
LHD C2  C3  SING Y N 6  
LHD N2  C4  DOUB Y N 7  
LHD C5  N3  SING Y N 8  
LHD C3  N3  SING Y N 9  
LHD C3  N1  DOUB Y N 10 
LHD C4  N1  SING Y N 11 
LHD N3  C6  SING N N 12 
LHD C15 O4  SING N N 13 
LHD C15 N8  SING N N 14 
LHD C6  C9  SING N N 15 
LHD C6  O1  SING N N 16 
LHD O4  C16 SING N N 17 
LHD C9  O2  SING N N 18 
LHD C9  C8  SING N N 19 
LHD O1  C7  SING N N 20 
LHD C17 C7  SING N N 21 
LHD C17 C18 SING N N 22 
LHD N5  C18 SING N N 23 
LHD N5  C10 SING N N 24 
LHD C14 N8  SING N N 25 
LHD C14 C11 DOUB N N 26 
LHD N8  C13 SING N N 27 
LHD C7  C8  SING N N 28 
LHD C10 C11 SING N N 29 
LHD C8  O3  SING N N 30 
LHD C11 C12 SING N N 31 
LHD C13 O5  DOUB N N 32 
LHD C13 N7  SING N N 33 
LHD C12 N7  DOUB N N 34 
LHD C12 N9  SING N N 35 
LHD C4  H1  SING N N 36 
LHD C5  H2  SING N N 37 
LHD C6  H3  SING N N 38 
LHD C7  H4  SING N N 39 
LHD C8  H5  SING N N 40 
LHD C9  H6  SING N N 41 
LHD O2  H7  SING N N 42 
LHD O3  H8  SING N N 43 
LHD N5  H26 SING N N 44 
LHD N5  H9  SING N N 45 
LHD C10 H10 SING N N 46 
LHD C10 H11 SING N N 47 
LHD N6  H12 SING N N 48 
LHD N6  H13 SING N N 49 
LHD C14 H14 SING N N 50 
LHD N9  H16 SING N N 51 
LHD N9  H15 SING N N 52 
LHD C15 H18 SING N N 53 
LHD C15 H17 SING N N 54 
LHD C16 H20 SING N N 55 
LHD C16 H19 SING N N 56 
LHD C16 H21 SING N N 57 
LHD C17 H22 SING N N 58 
LHD C17 H23 SING N N 59 
LHD C18 H25 SING N N 60 
LHD C18 H24 SING N N 61 
# 
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 
LHD InChI            InChI                1.03  
"InChI=1S/C18H25N9O5/c1-31-8-26-5-9(14(19)25-18(26)30)4-21-3-2-10-12(28)13(29)17(32-10)27-7-24-11-15(20)22-6-23-16(11)27/h5-7,10,12-13,17,21,28-29H,2-4,8H2,1H3,(H2,19,25,30)(H2,20,22,23)/p+1/t10-,12-,13-,17-/m1/s1" 
LHD InChIKey         InChI                1.03  YHTQXGJBVFZAQM-CNEMSGBDSA-O 
LHD SMILES_CANONICAL CACTVS               3.385 "COCN1C=C(C[NH2+]CC[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34)C(=NC1=O)N" 
LHD SMILES           CACTVS               3.385 "COCN1C=C(C[NH2+]CC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34)C(=NC1=O)N" 
LHD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "COCN1C=C(C(=NC1=O)N)C[NH2+]CC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" 
LHD SMILES           "OpenEye OEToolkits" 2.0.6 "COCN1C=C(C(=NC1=O)N)C[NH2+]CCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O" 
# 
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 
LHD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "2-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl-[[4-azanyl-1-(methoxymethyl)-2-oxidanylidene-pyrimidin-5-yl]methyl]azanium" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
LHD "Create component" 2016-09-14 EBI  
LHD "Modify formula"   2017-09-14 EBI  
LHD "Initial release"  2017-09-20 RCSB 
# 
