data_SAO
# 
_chem_comp.id                                    SAO 
_chem_comp.name                                  "5'-S-[(3S)-3-azaniumyl-3-carboxypropyl]-5'-thioadenosine" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C14 H21 N6 O5 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         S-ADENOSYL-L-HOMOCYSTEINE 
_chem_comp.pdbx_formal_charge                    1 
_chem_comp.pdbx_initial_date                     2016-04-08 
_chem_comp.pdbx_modified_date                    2024-09-18 
_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                        385.419 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     SAO 
_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        5ISC 
_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.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 
SAO N      N1  N 1 1 N N N N N N 54.290 39.429 138.070 6.942  0.660  0.775  N      SAO 1  
SAO CA     C1  C 0 1 N N S N N N 53.362 38.305 138.383 6.310  -0.648 0.559  CA     SAO 2  
SAO CB     C2  C 0 1 N N N N N N 52.582 37.864 137.139 5.069  -0.476 -0.319 CB     SAO 3  
SAO CG     C3  C 0 1 N N N N N N 53.444 37.282 136.023 4.027  0.358  0.428  CG     SAO 4  
SAO SD     S1  S 0 1 N N N N N N 52.270 36.445 134.909 2.555  0.562  -0.613 SD     SAO 5  
SAO C      C4  C 0 1 N N N N N N 54.149 37.151 139.019 7.286  -1.570 -0.125 C      SAO 6  
SAO O      O1  O 0 1 N N N N N N 55.293 36.907 138.563 8.231  -1.114 -0.723 O      SAO 7  
SAO OXT    O2  O 0 1 N N N N N N 53.591 36.542 139.966 7.104  -2.899 -0.071 OXT    SAO 8  
SAO "C5'"  C5  C 0 1 N N N N N N 52.156 37.541 133.467 1.454  1.560  0.428  "C5'"  SAO 9  
SAO "C4'"  C6  C 0 1 N N S N N N 51.326 38.776 133.762 0.146  1.824  -0.320 "C4'"  SAO 10 
SAO "O4'"  O3  O 0 1 N N N N N N 51.614 39.744 132.728 -0.574 0.592  -0.495 "O4'"  SAO 11 
SAO "C3'"  C7  C 0 1 N N S N N N 49.800 38.564 133.752 -0.749 2.768  0.506  "C3'"  SAO 12 
SAO "O3'"  O4  O 0 1 N N N N N N 49.186 39.146 134.900 -1.022 3.965  -0.225 "O3'"  SAO 13 
SAO "C2'"  C8  C 0 1 N N R N N N 49.345 39.263 132.462 -2.050 1.960  0.728  "C2'"  SAO 14 
SAO "O2'"  O5  O 0 1 N N N N N N 48.033 39.816 132.571 -3.200 2.796  0.584  "O2'"  SAO 15 
SAO "C1'"  C9  C 0 1 N N R N N N 50.406 40.353 132.322 -1.980 0.910  -0.417 "C1'"  SAO 16 
SAO N9     N2  N 0 1 Y N N N N N 50.577 40.867 130.967 -2.762 -0.280 -0.074 N9     SAO 17 
SAO C8     C10 C 0 1 Y N N N N N 50.701 40.148 129.817 -2.285 -1.422 0.496  C8     SAO 18 
SAO N7     N3  N 0 1 Y N N N N N 50.862 40.866 128.722 -3.254 -2.275 0.662  N7     SAO 19 
SAO C5     C11 C 0 1 Y N N N N N 50.834 42.166 129.216 -4.411 -1.735 0.210  C5     SAO 20 
SAO C6     C12 C 0 1 Y N N N N N 50.939 43.417 128.558 -5.743 -2.177 0.133  C6     SAO 21 
SAO N6     N4  N 0 1 N N N N N N 51.080 43.558 127.238 -6.100 -3.434 0.588  N6     SAO 22 
SAO N1     N5  N 0 1 Y N N N N N 50.868 44.528 129.327 -6.652 -1.358 -0.387 N1     SAO 23 
SAO C2     C13 C 0 1 Y N N N N N 50.701 44.392 130.647 -6.321 -0.157 -0.823 C2     SAO 24 
SAO N3     N6  N 0 1 Y N N N N N 50.586 43.272 131.368 -5.087 0.298  -0.771 N3     SAO 25 
SAO C4     C14 C 0 1 Y N N N N N 50.662 42.193 130.583 -4.111 -0.447 -0.263 C4     SAO 26 
SAO HN2    H1  H 0 1 N N N N N N 54.784 39.695 138.898 7.211  1.055  -0.114 HN2    SAO 27 
SAO H3     H2  H 0 1 N N N N N N 54.943 39.137 137.372 6.289  1.278  1.233  H3     SAO 28 
SAO HN1    H3  H 0 1 N N N N N N 53.765 40.209 137.730 7.761  0.547  1.354  HN1    SAO 29 
SAO HA     H4  H 0 1 N N N N N N 52.632 38.660 139.126 6.020  -1.074 1.519  HA     SAO 30 
SAO HB1    H5  H 0 1 N N N N N N 52.049 38.740 136.740 5.345  0.031  -1.244 HB1    SAO 31 
SAO HB2    H6  H 0 1 N N N N N N 51.853 37.099 137.444 4.651  -1.455 -0.553 HB2    SAO 32 
SAO HG2    H7  H 0 1 N N N N N N 54.170 36.563 136.430 3.751  -0.149 1.353  HG2    SAO 33 
SAO HG1    H8  H 0 1 N N N N N N 53.979 38.082 135.490 4.445  1.337  0.662  HG1    SAO 34 
SAO H1     H9  H 0 1 N N N N N N 54.169 35.862 140.290 7.756  -3.450 -0.525 H1     SAO 35 
SAO "H5'2" H10 H 0 0 N N N N N N 51.691 36.990 132.637 1.243  1.023  1.352  "H5'2" SAO 36 
SAO "H5'1" H11 H 0 0 N N N N N N 53.170 37.854 133.177 1.937  2.509  0.661  "H5'1" SAO 37 
SAO "H4'"  H12 H 0 1 N N N N N N 51.619 39.177 134.743 0.358  2.270  -1.292 "H4'"  SAO 38 
SAO "H3'"  H13 H 0 1 N N N N N N 49.579 37.488 133.686 -0.276 3.004  1.459  "H3'"  SAO 39 
SAO "HO3'" H14 H 0 0 N N N N N N 49.484 38.696 135.682 -1.581 4.596  0.248  "HO3'" SAO 40 
SAO "H2'"  H15 H 0 1 N N N N N N 49.415 38.563 131.616 -2.045 1.473  1.703  "H2'"  SAO 41 
SAO "HO2'" H16 H 0 0 N N N N N N 47.399 39.114 132.656 -3.241 3.522  1.221  "HO2'" SAO 42 
SAO "H1'"  H17 H 0 1 N N N N N N 50.151 41.181 133.000 -2.327 1.342  -1.355 "H1'"  SAO 43 
SAO H8     H18 H 0 1 N N N N N N 50.670 39.069 129.803 -1.254 -1.594 0.770  H8     SAO 44 
SAO HN61   H19 H 0 0 N N N N N N 51.113 44.531 127.008 -5.428 -4.022 0.966  HN61   SAO 45 
SAO HN62   H20 H 0 0 N N N N N N 51.928 43.117 126.944 -7.023 -3.727 0.529  HN62   SAO 46 
SAO H2     H21 H 0 1 N N N N N N 50.652 45.314 131.208 -7.091 0.476  -1.238 H2     SAO 47 
# 
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 
SAO N6    C6     SING N N 1  
SAO C6    C5     DOUB Y N 2  
SAO C6    N1     SING Y N 3  
SAO N7    C5     SING Y N 4  
SAO N7    C8     DOUB Y N 5  
SAO C5    C4     SING Y N 6  
SAO N1    C2     DOUB Y N 7  
SAO C8    N9     SING Y N 8  
SAO C4    N9     SING Y N 9  
SAO C4    N3     DOUB Y N 10 
SAO C2    N3     SING Y N 11 
SAO N9    "C1'"  SING N N 12 
SAO "C1'" "C2'"  SING N N 13 
SAO "C1'" "O4'"  SING N N 14 
SAO "C2'" "O2'"  SING N N 15 
SAO "C2'" "C3'"  SING N N 16 
SAO "O4'" "C4'"  SING N N 17 
SAO "C5'" "C4'"  SING N N 18 
SAO "C5'" SD     SING N N 19 
SAO "C3'" "C4'"  SING N N 20 
SAO "C3'" "O3'"  SING N N 21 
SAO SD    CG     SING N N 22 
SAO CG    CB     SING N N 23 
SAO CB    CA     SING N N 24 
SAO N     CA     SING N N 25 
SAO CA    C      SING N N 26 
SAO O     C      DOUB N N 27 
SAO C     OXT    SING N N 28 
SAO N     HN2    SING N N 29 
SAO N     H3     SING N N 30 
SAO N     HN1    SING N N 31 
SAO CA    HA     SING N N 32 
SAO CB    HB1    SING N N 33 
SAO CB    HB2    SING N N 34 
SAO CG    HG2    SING N N 35 
SAO CG    HG1    SING N N 36 
SAO OXT   H1     SING N N 37 
SAO "C5'" "H5'2" SING N N 38 
SAO "C5'" "H5'1" SING N N 39 
SAO "C4'" "H4'"  SING N N 40 
SAO "C3'" "H3'"  SING N N 41 
SAO "O3'" "HO3'" SING N N 42 
SAO "C2'" "H2'"  SING N N 43 
SAO "O2'" "HO2'" SING N N 44 
SAO "C1'" "H1'"  SING N N 45 
SAO C8    H8     SING N N 46 
SAO N6    HN61   SING N N 47 
SAO N6    HN62   SING N N 48 
SAO C2    H2     SING N N 49 
# 
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 
SAO SMILES           ACDLabs              12.01 "[NH3+]C(C(O)=O)CCSCC1OC(C(C1O)O)n2cnc3c2ncnc3N"                                                                                                                                    
SAO InChI            InChI                1.03  "InChI=1S/C14H20N6O5S/c15-6(14(23)24)1-2-26-3-7-9(21)10(22)13(25-7)20-5-19-8-11(16)17-4-18-12(8)20/h4-7,9-10,13,21-22H,1-3,15H2,(H,23,24)(H2,16,17,18)/p+1/t6-,7+,9+,10+,13+/m0/s1" 
SAO InChIKey         InChI                1.03  ZJUKTBDSGOFHSH-WFMPWKQPSA-O                                                                                                                                                         
SAO SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CSCC[C@H]([NH3+])C(O)=O)[C@@H](O)[C@H]3O"                                                                                                            
SAO SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CSCC[CH]([NH3+])C(O)=O)[CH](O)[CH]3O"                                                                                                                   
SAO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CSCC[C@@H](C(=O)O)[NH3+])O)O)N"                                                                                                     
SAO SMILES           "OpenEye OEToolkits" 2.0.4 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CSCCC(C(=O)O)[NH3+])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 
SAO "SYSTEMATIC NAME" ACDLabs              12.01 "5'-S-[(3S)-3-azaniumyl-3-carboxypropyl]-5'-thioadenosine"                                                                                                
SAO "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.4 "[(2~{S})-4-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]-1-oxidanyl-1-oxidanylidene-butan-2-yl]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 
SAO "Create component"    2016-04-08 EBI  
SAO "Initial release"     2017-03-15 RCSB 
SAO "Modify synonyms"     2020-06-05 PDBE 
SAO "Modify linking type" 2024-09-18 RCSB 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      SAO 
_pdbx_chem_comp_synonyms.name         S-ADENOSYL-L-HOMOCYSTEINE 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
