data_CGK
# 
_chem_comp.id                                    CGK 
_chem_comp.name                                  "3-[(2R,3aR,5R,6R,6aR)-5-({[(S)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,6-dihydroxytetrahydrofuro[2,3-d][1,3]oxathiol-2-yl]propanoic acid" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C19 H27 N5 O16 P2 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2012-06-11 
_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                        675.454 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     CGK 
_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        4F56 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_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 
CGK O   O   O 0 1 N N N N N N -19.278 -3.219 -10.677 6.743   -2.581 -0.397 O   CGK 1  
CGK CX  CX  C 0 1 N N R N N N -19.650 -2.381 -11.811 7.528   -1.444 -0.033 CX  CGK 2  
CGK CY  CY  C 0 1 N N N N N N -21.183 -2.439 -12.026 9.017   -1.745 -0.219 CY  CGK 3  
CGK CT  CT  C 0 1 N N N N N N -21.663 -3.786 -12.548 9.291   -2.073 -1.688 CT  CGK 4  
CGK CI  CI  C 0 1 N N N N N N -22.819 -3.517 -13.484 10.757  -2.370 -1.871 CI  CGK 5  
CGK OI2 OI2 O 0 1 N N N N N N -24.000 -3.186 -12.957 11.232  -2.686 -3.086 OI2 CGK 6  
CGK OI1 OI1 O 0 1 N N N N N N -22.688 -3.591 -14.707 11.506  -2.323 -0.924 OI1 CGK 7  
CGK O1  O1  O 0 1 N N N N N N -18.953 -2.856 -12.960 7.260   -1.066 1.320  O1  CGK 8  
CGK C2  C2  C 0 1 N N R N N N -19.060 -1.892 -14.013 6.750   0.238  1.552  C2  CGK 9  
CGK C1  C1  C 0 1 N N R N N N -18.721 -0.528 -13.424 6.009   0.772  0.281  C1  CGK 10 
CGK SX  SX  S 0 1 N N N N N N -19.172 -0.658 -11.724 7.042   0.014  -1.037 SX  CGK 11 
CGK C3  C3  C 0 1 N N R N N N -17.934 -2.145 -14.991 5.588   0.144  2.571  C3  CGK 12 
CGK O2  O2  O 0 1 N N N N N N -17.791 -3.554 -15.211 5.709   -1.043 3.359  O2  CGK 13 
CGK C4  C4  C 0 1 N N R N N N -16.763 -1.572 -14.223 4.318   0.084  1.702  C4  CGK 14 
CGK O3  O3  O 0 1 N N N N N N -17.295 -0.412 -13.559 4.739   0.099  0.328  O3  CGK 15 
CGK C5  C5  C 0 1 N N N N N N -15.602 -1.215 -15.138 3.434   1.300  1.987  C5  CGK 16 
CGK O4  O4  O 0 1 N N N N N N -16.036 -0.158 -15.991 2.208   1.178  1.264  O4  CGK 17 
CGK P1  P1  P 0 1 N N N N N N -15.507 -0.124 -17.514 1.038   2.282  1.330  P1  CGK 18 
CGK O5  O5  O 0 1 N N N N N N -14.042 0.109  -17.579 0.438   2.341  2.823  O5  CGK 19 
CGK O6  O6  O 0 1 N N N N N N -15.930 -1.445 -18.306 1.589   3.607  0.967  O6  CGK 20 
CGK O7  O7  O 0 1 N N N N N N -16.305 1.096  -18.157 -0.132  1.886  0.297  O7  CGK 21 
CGK P2  P2  P 0 1 N N N N N N -16.088 2.688  -17.978 -1.323  2.705  -0.411 P2  CGK 22 
CGK O9  O9  O 0 1 N N N N N N -17.412 3.286  -18.313 -1.914  3.654  0.559  O9  CGK 23 
CGK O8  O8  O 0 1 N N N N N N -15.425 3.032  -16.565 -0.739  3.521  -1.671 O8  CGK 24 
CGK O10 O10 O 0 1 N N N N N N -14.960 2.944  -19.091 -2.456  1.678  -0.916 O10 CGK 25 
CGK CA1 CA1 C 0 1 N N N N N N -15.310 2.825  -20.464 -3.692  2.104  -1.492 CA1 CGK 26 
CGK CA2 CA2 C 0 1 N N R N N N -14.034 3.029  -21.261 -4.532  0.879  -1.859 CA2 CGK 27 
CGK OA3 OA3 O 0 1 N N N N N N -14.353 2.907  -22.645 -4.998  0.213  -0.664 OA3 CGK 28 
CGK CA5 CA5 C 0 1 N N R N N N -13.716 3.945  -23.377 -6.134  -0.573 -1.086 CA5 CGK 29 
CGK CA4 CA4 C 0 1 N N R N N N -13.712 5.105  -22.417 -6.896  0.333  -2.077 CA4 CGK 30 
CGK OA2 OA2 O 0 1 N N N N N N -12.702 6.013  -22.847 -7.432  -0.440 -3.153 OA2 CGK 31 
CGK CA3 CA3 C 0 1 N N S N N N -13.410 4.410  -21.094 -5.819  1.311  -2.597 CA3 CGK 32 
CGK OA1 OA1 O 0 1 N N N N N N -11.995 4.199  -20.909 -5.655  1.171  -4.010 OA1 CGK 33 
CGK N9A N9A N 0 1 Y N N N N N -14.561 4.060  -24.576 -6.982  -0.900 0.063  N9A CGK 34 
CGK C4A C4A C 0 1 Y N N N N N -14.230 3.447  -25.705 -7.853  -1.957 0.154  C4A CGK 35 
CGK C5M C5M C 0 1 Y N N N N N -15.327 3.740  -26.635 -8.440  -1.865 1.428  C5M CGK 36 
CGK N7A N7A N 0 1 Y N N N N N -16.234 4.491  -25.979 -7.908  -0.778 2.036  N7A CGK 37 
CGK C8A C8A C 0 1 Y N N N N N -15.765 4.668  -24.714 -7.048  -0.214 1.238  C8A CGK 38 
CGK N3A N3A N 0 1 Y N N N N N -13.153 2.709  -26.095 -8.210  -2.951 -0.652 N3A CGK 39 
CGK C2A C2A C 0 1 Y N N N N N -13.102 2.234  -27.356 -9.100  -3.841 -0.266 C2A CGK 40 
CGK N1A N1A N 0 1 Y N N N N N -14.082 2.461  -28.259 -9.680  -3.796 0.920  N1A CGK 41 
CGK C6A C6A C 0 1 Y N N N N N -15.194 3.184  -27.991 -9.390  -2.835 1.791  C6A CGK 42 
CGK N6A N6A N 0 1 N N N N N N -16.162 3.398  -28.913 -10.002 -2.796 3.032  N6A CGK 43 
CGK H1  H1  H 0 1 N N N N N N -19.732 -2.919 -9.899  5.792   -2.457 -0.278 H1  CGK 44 
CGK H2  H2  H 0 1 N N N N N N -21.464 -1.662 -12.752 9.603   -0.873 0.074  H2  CGK 45 
CGK H3  H3  H 0 1 N N N N N N -21.679 -2.239 -11.065 9.296   -2.596 0.402  H3  CGK 46 
CGK H4  H4  H 0 1 N N N N N N -21.995 -4.418 -11.711 8.705   -2.945 -1.981 H4  CGK 47 
CGK H5  H5  H 0 1 N N N N N N -20.850 -4.292 -13.089 9.012   -1.222 -2.309 H5  CGK 48 
CGK H6  H6  H 0 1 N N N N N N -24.629 -3.041 -13.654 12.179  -2.868 -3.154 H6  CGK 49 
CGK H7  H7  H 0 1 N N N N N N -20.043 -1.892 -14.506 7.534   0.922  1.879  H7  CGK 50 
CGK H8  H8  H 0 1 N N N N N N -19.287 0.291  -13.893 5.945   1.858  0.223  H8  CGK 51 
CGK H9  H9  H 0 1 N N N N N N -18.097 -1.593 -15.929 5.570   1.026  3.211  H9  CGK 52 
CGK H10 H10 H 0 1 N N N N N N -18.542 -3.877 -15.694 4.979   -1.181 3.977  H10 CGK 53 
CGK H11 H11 H 0 1 N N N N N N -16.422 -2.310 -13.482 3.768   -0.833 1.911  H11 CGK 54 
CGK H12 H12 H 0 1 N N N N N N -15.316 -2.090 -15.740 3.223   1.353  3.055  H12 CGK 55 
CGK H13 H13 H 0 1 N N N N N N -14.740 -0.884 -14.539 3.952   2.207  1.674  H13 CGK 56 
CGK H14 H14 H 0 1 N N N N N N -13.633 -0.582 -18.086 0.059   1.505  3.128  H14 CGK 57 
CGK H15 H15 H 0 1 N N N N N N -15.997 3.616  -16.080 -0.335  2.961  -2.349 H15 CGK 58 
CGK H16 H16 H 0 1 N N N N N N -16.052 3.591  -20.734 -4.236  2.716  -0.773 H16 CGK 59 
CGK H17 H17 H 0 1 N N N N N N -15.726 1.826  -20.664 -3.492  2.689  -2.390 H17 CGK 60 
CGK H18 H18 H 0 1 N N N N N N -13.299 2.265  -20.967 -3.953  0.193  -2.476 H18 CGK 61 
CGK H19 H19 H 0 1 N N N N N N -12.686 3.673  -23.650 -5.800  -1.484 -1.584 H19 CGK 62 
CGK H20 H20 H 0 1 N N N N N N -14.703 5.582  -22.381 -7.690  0.877  -1.565 H20 CGK 63 
CGK H21 H21 H 0 1 N N N N N N -12.675 6.759  -22.259 -7.921  0.079  -3.806 H21 CGK 64 
CGK H22 H22 H 0 1 N N N N N N -13.865 4.950  -20.251 -6.079  2.338  -2.342 H22 CGK 65 
CGK H23 H23 H 0 1 N N N N N N -11.845 3.765  -20.077 -6.434  1.428  -4.523 H23 CGK 66 
CGK H24 H24 H 0 1 N N N N N N -16.277 5.213  -23.934 -6.476  0.673  1.471  H24 CGK 67 
CGK H25 H25 H 0 1 N N N N N N -12.245 1.649  -27.656 -9.368  -4.636 -0.946 H25 CGK 68 
CGK H26 H26 H 0 1 N N N N N N -15.912 2.949  -29.770 -10.651 -3.476 3.274  H26 CGK 69 
CGK H27 H27 H 0 1 N N N N N N -17.027 3.023  -28.581 -9.782  -2.090 3.659  H27 CGK 70 
# 
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 
CGK N6A C6A SING N N 1  
CGK N1A C6A DOUB Y N 2  
CGK N1A C2A SING Y N 3  
CGK C6A C5M SING Y N 4  
CGK C2A N3A DOUB Y N 5  
CGK C5M N7A SING Y N 6  
CGK C5M C4A DOUB Y N 7  
CGK N3A C4A SING Y N 8  
CGK N7A C8A DOUB Y N 9  
CGK C4A N9A SING Y N 10 
CGK C8A N9A SING Y N 11 
CGK N9A CA5 SING N N 12 
CGK CA5 OA3 SING N N 13 
CGK CA5 CA4 SING N N 14 
CGK OA2 CA4 SING N N 15 
CGK OA3 CA2 SING N N 16 
CGK CA4 CA3 SING N N 17 
CGK CA2 CA3 SING N N 18 
CGK CA2 CA1 SING N N 19 
CGK CA3 OA1 SING N N 20 
CGK CA1 O10 SING N N 21 
CGK O10 P2  SING N N 22 
CGK O9  P2  DOUB N N 23 
CGK O6  P1  DOUB N N 24 
CGK O7  P2  SING N N 25 
CGK O7  P1  SING N N 26 
CGK P2  O8  SING N N 27 
CGK O5  P1  SING N N 28 
CGK P1  O4  SING N N 29 
CGK O4  C5  SING N N 30 
CGK O2  C3  SING N N 31 
CGK C5  C4  SING N N 32 
CGK C3  C4  SING N N 33 
CGK C3  C2  SING N N 34 
CGK OI1 CI  DOUB N N 35 
CGK C4  O3  SING N N 36 
CGK C2  C1  SING N N 37 
CGK C2  O1  SING N N 38 
CGK O3  C1  SING N N 39 
CGK CI  OI2 SING N N 40 
CGK CI  CT  SING N N 41 
CGK C1  SX  SING N N 42 
CGK O1  CX  SING N N 43 
CGK CT  CY  SING N N 44 
CGK CY  CX  SING N N 45 
CGK CX  SX  SING N N 46 
CGK CX  O   SING N N 47 
CGK O   H1  SING N N 48 
CGK CY  H2  SING N N 49 
CGK CY  H3  SING N N 50 
CGK CT  H4  SING N N 51 
CGK CT  H5  SING N N 52 
CGK OI2 H6  SING N N 53 
CGK C2  H7  SING N N 54 
CGK C1  H8  SING N N 55 
CGK C3  H9  SING N N 56 
CGK O2  H10 SING N N 57 
CGK C4  H11 SING N N 58 
CGK C5  H12 SING N N 59 
CGK C5  H13 SING N N 60 
CGK O5  H14 SING N N 61 
CGK O8  H15 SING N N 62 
CGK CA1 H16 SING N N 63 
CGK CA1 H17 SING N N 64 
CGK CA2 H18 SING N N 65 
CGK CA5 H19 SING N N 66 
CGK CA4 H20 SING N N 67 
CGK OA2 H21 SING N N 68 
CGK CA3 H22 SING N N 69 
CGK OA1 H23 SING N N 70 
CGK C8A H24 SING N N 71 
CGK C2A H25 SING N N 72 
CGK N6A H26 SING N N 73 
CGK N6A H27 SING N N 74 
# 
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 
CGK SMILES           ACDLabs              12.01 "O=C(O)CCC1(OC2C(O)C(OC2S1)COP(=O)(O)OP(=O)(OCC5OC(n3c4ncnc(N)c4nc3)C(O)C5O)O)O"                                                                                                                                                                                                 
CGK InChI            InChI                1.03  "InChI=1S/C19H27N5O16P2S/c20-15-10-16(22-5-21-15)24(6-23-10)17-13(29)11(27)7(37-17)3-35-41(31,32)40-42(33,34)36-4-8-12(28)14-18(38-8)43-19(30,39-14)2-1-9(25)26/h5-8,11-14,17-18,27-30H,1-4H2,(H,25,26)(H,31,32)(H,33,34)(H2,20,21,22)/t7-,8-,11-,12-,13-,14-,17-,18-,19-/m1/s1" 
CGK InChIKey         InChI                1.03  DLPJYEOHCQEPAR-IOFPOCHNSA-N                                                                                                                                                                                                                                                      
CGK SMILES_CANONICAL CACTVS               3.370 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@@H]5S[C@@](O)(CCC(O)=O)O[C@@H]5[C@@H]4O)[C@@H](O)[C@H]3O"                                                                                                                                                      
CGK SMILES           CACTVS               3.370 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]5S[C](O)(CCC(O)=O)O[CH]5[CH]4O)[CH](O)[CH]3O"                                                                                                                                                                     
CGK SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@@H]5[C@H](O4)S[C@](O5)(CCC(=O)O)O)O)O)O)N"                                                                                                                                                  
CGK SMILES           "OpenEye OEToolkits" 1.7.6 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C5C(O4)SC(O5)(CCC(=O)O)O)O)O)O)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 
CGK "SYSTEMATIC NAME" ACDLabs              12.01 "3-[(2R,3aR,5R,6R,6aR)-5-({[(S)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,6-dihydroxytetrahydrofuro[2,3-d][1,3]oxathiol-2-yl]propanoic acid (non-preferred name)" 
CGK "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "3-[(2R,3aR,5R,6R,6aR)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-2,6-bis(oxidanyl)-3a,5,6,6a-tetrahydrofuro[2,3-d][1,3]oxathiol-2-yl]propanoic acid"                            
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
CGK "Create component" 2012-06-11 PDBJ 
CGK "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            CGK 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               CX 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   NZ 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
