data_A1AHM
# 
_chem_comp.id                                    A1AHM 
_chem_comp.name                                  "7-[5-S-(4-{[(2-tert-butylpyridin-3-yl)methyl]amino}butyl)-5-thio-beta-D-ribofuranosyl]-5-methyl-7H-pyrrolo[2,3-d]pyrimidin-4-amine" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H38 N6 O3 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2024-03-08 
_chem_comp.pdbx_modified_date                    2024-11-29 
_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                        514.683 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A1AHM 
_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        9AY9 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              ? 
# 
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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
A1AHM C16 C1  C 0 1 Y N N N N N 33.763 3.687  47.828 -9.101  -1.397 -0.269 C16 A1AHM 1  
A1AHM C18 C2  C 0 1 Y N N N N N 42.441 11.994 55.030 6.789   0.674  -0.372 C18 A1AHM 2  
A1AHM C8  C3  C 0 1 Y N N N N N 33.602 4.791  46.996 -8.374  -0.224 -0.402 C8  A1AHM 3  
A1AHM C21 C4  C 0 1 Y N N N N N 43.057 10.863 55.590 6.981   2.000  0.058  C21 A1AHM 4  
A1AHM C25 C5  C 0 1 N N R N N N 41.557 12.567 51.456 5.280   -1.992 0.845  C25 A1AHM 5  
A1AHM C24 C6  C 0 1 Y N N N N N 42.310 10.337 53.545 4.896   1.358  0.618  C24 A1AHM 6  
A1AHM C23 C7  C 0 1 N N N N N N 43.458 8.392  54.704 5.433   3.749  1.315  C23 A1AHM 7  
A1AHM C22 C8  C 0 1 Y N N N N N 42.959 9.804  54.605 5.731   2.408  0.695  C22 A1AHM 8  
A1AHM C19 C9  C 0 1 Y N N N N N 42.871 13.224 56.831 8.936   0.670  -1.200 C19 A1AHM 9  
A1AHM C20 C10 C 0 1 Y N N N N N 43.584 11.024 56.898 8.219   2.614  -0.185 C20 A1AHM 10 
A1AHM C7  C11 C 0 1 N N N N N N 33.921 6.169  47.530 -7.071  -0.216 -1.160 C7  A1AHM 11 
A1AHM C6  C12 C 0 1 N N N N N N 35.755 7.706  47.927 -4.698  -0.660 -0.978 C6  A1AHM 12 
A1AHM C1  C13 C 0 1 N N S N N N 39.482 11.449 51.634 3.008   -2.246 0.004  C1  A1AHM 13 
A1AHM O2  O1  O 0 1 N N N N N N 42.200 13.801 51.162 6.372   -2.819 0.440  O2  A1AHM 14 
A1AHM C5  C14 C 0 1 N N N N N N 36.989 7.882  48.767 -3.605  -1.179 -0.042 C5  A1AHM 15 
A1AHM C4  C15 C 0 1 N N N N N N 37.874 9.019  48.316 -2.254  -1.129 -0.759 C4  A1AHM 16 
A1AHM C13 C16 C 0 1 N N N N N N 34.209 6.326  44.241 -8.740  3.314  0.868  C13 A1AHM 17 
A1AHM C10 C17 C 0 1 N N N N N N 32.873 5.630  44.561 -8.074  2.217  0.034  C10 A1AHM 18 
A1AHM C3  C18 C 0 1 N N N N N N 39.165 9.079  49.105 -1.161  -1.648 0.177  C3  A1AHM 19 
A1AHM C11 C19 C 0 1 N N N N N N 31.844 6.676  45.009 -6.645  1.994  0.534  C11 A1AHM 20 
A1AHM C   C20 C 0 1 N N S N N N 40.210 12.433 50.732 3.999   -2.835 1.033  C   A1AHM 21 
A1AHM O   O2  O 0 1 N N N N N N 39.468 13.652 50.675 4.259   -4.210 0.748  O   A1AHM 22 
A1AHM C17 C21 C 0 1 N N R N N N 41.120 12.486 52.934 4.912   -0.993 -0.275 C17 A1AHM 23 
A1AHM N2  N1  N 0 1 Y N N N N N 41.966 11.653 53.789 5.519   0.314  -0.013 N2  A1AHM 24 
A1AHM N5  N2  N 0 1 N N N N N N 44.186 10.039 57.577 8.457   3.916  0.218  N5  A1AHM 25 
A1AHM N4  N3  N 0 1 Y N N N N N 43.467 12.232 57.496 9.159   1.913  -0.813 N4  A1AHM 26 
A1AHM N3  N4  N 0 1 Y N N N N N 42.333 13.201 55.610 7.792   0.055  -0.993 N3  A1AHM 27 
A1AHM O1  O3  O 0 1 N N N N N N 39.810 11.935 52.949 3.472   -0.897 -0.225 O1  A1AHM 28 
A1AHM C2  C22 C 0 1 N N N N N N 40.071 10.050 51.573 1.589   -2.232 0.576  C2  A1AHM 29 
A1AHM S   S1  S 0 1 N N N N N N 38.883 8.919  50.885 0.441   -1.589 -0.672 S   A1AHM 30 
A1AHM N   N5  N 0 1 N N N N N N 35.301 6.320  47.981 -5.995  -0.708 -0.290 N   A1AHM 31 
A1AHM C15 C23 C 0 1 Y N N N N N 33.384 2.425  47.395 -10.297 -1.356 0.432  C15 A1AHM 32 
A1AHM C14 C24 C 0 1 Y N N N N N 32.847 2.286  46.125 -10.719 -0.157 0.975  C14 A1AHM 33 
A1AHM N1  N6  N 0 1 Y N N N N N 32.676 3.308  45.264 -9.998  0.939  0.832  N1  A1AHM 34 
A1AHM C9  C25 C 0 1 Y N N N N N 33.044 4.540  45.638 -8.859  0.938  0.168  C9  A1AHM 35 
A1AHM C12 C26 C 0 1 N N N N N N 32.367 5.029  43.248 -8.040  2.643  -1.435 C12 A1AHM 36 
A1AHM H1  H1  H 0 1 N N N N N N 34.185 3.813  48.814 -8.747  -2.319 -0.704 H1  A1AHM 37 
A1AHM H2  H2  H 0 1 N N N N N N 42.200 11.709 51.211 5.526   -1.460 1.765  H2  A1AHM 38 
A1AHM H3  H3  H 0 1 N N N N N N 42.090 9.806  52.631 3.885   1.340  0.998  H3  A1AHM 39 
A1AHM H4  H4  H 0 1 N N N N N N 44.488 8.339  54.321 5.707   3.731  2.370  H4  A1AHM 40 
A1AHM H5  H5  H 0 1 N N N N N N 43.441 8.070  55.756 6.008   4.521  0.803  H5  A1AHM 41 
A1AHM H6  H6  H 0 1 N N N N N N 42.811 7.732  54.108 4.369   3.966  1.219  H6  A1AHM 42 
A1AHM H7  H7  H 0 1 N N N N N N 42.817 14.170 57.349 9.726   0.136  -1.707 H7  A1AHM 43 
A1AHM H8  H8  H 0 1 N N N N N N 33.735 6.902  46.732 -7.156  -0.862 -2.034 H8  A1AHM 44 
A1AHM H9  H9  H 0 1 N N N N N N 33.254 6.375  48.380 -6.844  0.801  -1.480 H9  A1AHM 45 
A1AHM H10 H10 H 0 1 N N N N N N 35.984 7.973  46.885 -4.476  0.368  -1.262 H10 A1AHM 46 
A1AHM H11 H11 H 0 1 N N N N N N 34.960 8.364  48.308 -4.738  -1.283 -1.872 H11 A1AHM 47 
A1AHM H12 H12 H 0 1 N N N N N N 38.400 11.443 51.437 3.038   -2.820 -0.922 H12 A1AHM 48 
A1AHM H13 H13 H 0 1 N N N N N N 43.027 13.846 51.627 6.645   -3.465 1.106  H13 A1AHM 49 
A1AHM H14 H14 H 0 1 N N N N N N 36.678 8.075  49.804 -3.566  -0.556 0.851  H14 A1AHM 50 
A1AHM H15 H15 H 0 1 N N N N N N 37.573 6.951  48.726 -3.828  -2.208 0.242  H15 A1AHM 51 
A1AHM H16 H16 H 0 1 N N N N N N 38.114 8.882  47.251 -2.293  -1.752 -1.652 H16 A1AHM 52 
A1AHM H17 H17 H 0 1 N N N N N N 37.331 9.966  48.450 -2.031  -0.101 -1.043 H17 A1AHM 53 
A1AHM H18 H18 H 0 1 N N N N N N 34.617 6.777  45.158 -8.172  4.239  0.771  H18 A1AHM 54 
A1AHM H19 H19 H 0 1 N N N N N N 34.922 5.587  43.847 -9.758  3.473  0.512  H19 A1AHM 55 
A1AHM H20 H20 H 0 1 N N N N N N 34.042 7.111  43.489 -8.764  3.010  1.914  H20 A1AHM 56 
A1AHM H21 H21 H 0 1 N N N N N N 39.821 8.260  48.775 -1.121  -1.025 1.071  H21 A1AHM 57 
A1AHM H22 H22 H 0 1 N N N N N N 39.656 10.044 48.909 -1.383  -2.677 0.461  H22 A1AHM 58 
A1AHM H23 H23 H 0 1 N N N N N N 32.173 7.133  45.954 -6.673  1.618  1.557  H23 A1AHM 59 
A1AHM H24 H24 H 0 1 N N N N N N 31.753 7.455  44.237 -6.146  1.267  -0.106 H24 A1AHM 60 
A1AHM H25 H25 H 0 1 N N N N N N 30.868 6.190  45.157 -6.099  2.937  0.508  H25 A1AHM 61 
A1AHM H26 H26 H 0 1 N N N N N N 40.358 11.999 49.732 3.612   -2.720 2.046  H26 A1AHM 62 
A1AHM H27 H27 H 0 1 N N N N N N 38.649 13.504 50.217 4.920   -4.614 1.327  H27 A1AHM 63 
A1AHM H28 H28 H 0 1 N N N N N N 41.096 13.509 53.339 5.233   -1.375 -1.244 H28 A1AHM 64 
A1AHM H29 H29 H 0 1 N N N N N N 44.470 10.377 58.474 7.763   4.416  0.676  H29 A1AHM 65 
A1AHM H30 H30 H 0 1 N N N N N N 43.549 9.277  57.695 9.317   4.328  0.044  H30 A1AHM 66 
A1AHM H31 H31 H 0 1 N N N N N N 40.339 9.723  52.588 1.298   -3.246 0.850  H31 A1AHM 67 
A1AHM H32 H32 H 0 1 N N N N N N 40.972 10.061 50.941 1.560   -1.594 1.460  H32 A1AHM 68 
A1AHM H33 H33 H 0 1 N N N N N N 35.368 5.997  48.925 -5.965  -0.190 0.576  H33 A1AHM 69 
A1AHM H35 H35 H 0 1 N N N N N N 33.505 1.565  48.037 -10.892 -2.249 0.551  H35 A1AHM 70 
A1AHM H36 H36 H 0 1 N N N N N N 32.547 1.299  45.806 -11.649 -0.116 1.522  H36 A1AHM 71 
A1AHM H37 H37 H 0 1 N N N N N N 31.409 4.517  43.423 -7.233  3.361  -1.586 H37 A1AHM 72 
A1AHM H38 H38 H 0 1 N N N N N N 32.224 5.831  42.509 -7.870  1.768  -2.063 H38 A1AHM 73 
A1AHM H39 H39 H 0 1 N N N N N N 33.104 4.307  42.867 -8.991  3.103  -1.702 H39 A1AHM 74 
# 
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 
A1AHM C12 C10 SING N N 1  
A1AHM C13 C10 SING N N 2  
A1AHM C10 C11 SING N N 3  
A1AHM C10 C9  SING N N 4  
A1AHM N1  C9  DOUB Y N 5  
A1AHM N1  C14 SING Y N 6  
A1AHM C9  C8  SING Y N 7  
A1AHM C14 C15 DOUB Y N 8  
A1AHM C8  C7  SING N N 9  
A1AHM C8  C16 DOUB Y N 10 
A1AHM C15 C16 SING Y N 11 
A1AHM C7  N   SING N N 12 
A1AHM C6  N   SING N N 13 
A1AHM C6  C5  SING N N 14 
A1AHM C4  C5  SING N N 15 
A1AHM C4  C3  SING N N 16 
A1AHM C3  S   SING N N 17 
A1AHM O   C   SING N N 18 
A1AHM C   C25 SING N N 19 
A1AHM C   C1  SING N N 20 
A1AHM S   C2  SING N N 21 
A1AHM O2  C25 SING N N 22 
A1AHM C25 C17 SING N N 23 
A1AHM C2  C1  SING N N 24 
A1AHM C1  O1  SING N N 25 
A1AHM C17 O1  SING N N 26 
A1AHM C17 N2  SING N N 27 
A1AHM C24 N2  SING Y N 28 
A1AHM C24 C22 DOUB Y N 29 
A1AHM N2  C18 SING Y N 30 
A1AHM C22 C23 SING N N 31 
A1AHM C22 C21 SING Y N 32 
A1AHM C18 C21 DOUB Y N 33 
A1AHM C18 N3  SING Y N 34 
A1AHM C21 C20 SING Y N 35 
A1AHM N3  C19 DOUB Y N 36 
A1AHM C19 N4  SING Y N 37 
A1AHM C20 N4  DOUB Y N 38 
A1AHM C20 N5  SING N N 39 
A1AHM C16 H1  SING N N 40 
A1AHM C25 H2  SING N N 41 
A1AHM C24 H3  SING N N 42 
A1AHM C23 H4  SING N N 43 
A1AHM C23 H5  SING N N 44 
A1AHM C23 H6  SING N N 45 
A1AHM C19 H7  SING N N 46 
A1AHM C7  H8  SING N N 47 
A1AHM C7  H9  SING N N 48 
A1AHM C6  H10 SING N N 49 
A1AHM C6  H11 SING N N 50 
A1AHM C1  H12 SING N N 51 
A1AHM O2  H13 SING N N 52 
A1AHM C5  H14 SING N N 53 
A1AHM C5  H15 SING N N 54 
A1AHM C4  H16 SING N N 55 
A1AHM C4  H17 SING N N 56 
A1AHM C13 H18 SING N N 57 
A1AHM C13 H19 SING N N 58 
A1AHM C13 H20 SING N N 59 
A1AHM C3  H21 SING N N 60 
A1AHM C3  H22 SING N N 61 
A1AHM C11 H23 SING N N 62 
A1AHM C11 H24 SING N N 63 
A1AHM C11 H25 SING N N 64 
A1AHM C   H26 SING N N 65 
A1AHM O   H27 SING N N 66 
A1AHM C17 H28 SING N N 67 
A1AHM N5  H29 SING N N 68 
A1AHM N5  H30 SING N N 69 
A1AHM C2  H31 SING N N 70 
A1AHM C2  H32 SING N N 71 
A1AHM N   H33 SING N N 72 
A1AHM C15 H35 SING N N 73 
A1AHM C14 H36 SING N N 74 
A1AHM C12 H37 SING N N 75 
A1AHM C12 H38 SING N N 76 
A1AHM C12 H39 SING N N 77 
# 
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 
A1AHM SMILES           ACDLabs              12.01 "CC(C)(C)c1ncccc1CNCCCCSCC1OC(n2cc(C)c3c(N)ncnc32)C(O)C1O"                                                                                                                                                                             
A1AHM InChI            InChI                1.06  "InChI=1S/C26H38N6O3S/c1-16-13-32(24-19(16)23(27)30-15-31-24)25-21(34)20(33)18(35-25)14-36-11-6-5-9-28-12-17-8-7-10-29-22(17)26(2,3)4/h7-8,10,13,15,18,20-21,25,28,33-34H,5-6,9,11-12,14H2,1-4H3,(H2,27,30,31)/t18-,20-,21-,25-/m1/s1" 
A1AHM InChIKey         InChI                1.06  PLCITURFVJNAFH-GUQHISFFSA-N                                                                                                                                                                                                            
A1AHM SMILES_CANONICAL CACTVS               3.385 "Cc1cn([C@@H]2O[C@H](CSCCCCNCc3cccnc3C(C)(C)C)[C@@H](O)[C@H]2O)c4ncnc(N)c14"                                                                                                                                                           
A1AHM SMILES           CACTVS               3.385 "Cc1cn([CH]2O[CH](CSCCCCNCc3cccnc3C(C)(C)C)[CH](O)[CH]2O)c4ncnc(N)c14"                                                                                                                                                                 
A1AHM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cn(c2c1c(ncn2)N)[C@H]3[C@@H]([C@@H]([C@H](O3)CSCCCCNCc4cccnc4C(C)(C)C)O)O"                                                                                                                                                         
A1AHM SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1cn(c2c1c(ncn2)N)C3C(C(C(O3)CSCCCCNCc4cccnc4C(C)(C)C)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 
A1AHM "SYSTEMATIC NAME" ACDLabs              12.01 "7-[5-S-(4-{[(2-tert-butylpyridin-3-yl)methyl]amino}butyl)-5-thio-beta-D-ribofuranosyl]-5-methyl-7H-pyrrolo[2,3-d]pyrimidin-4-amine"                               
A1AHM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{R},3~{R},4~{S},5~{S})-2-(4-azanyl-5-methyl-pyrrolo[2,3-d]pyrimidin-7-yl)-5-[4-[(2-~{tert}-butylpyridin-3-yl)methylamino]butylsulfanylmethyl]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 
A1AHM "Create component" 2024-03-08 RCSB 
A1AHM "Initial release"  2024-12-04 RCSB 
# 
