data_YHZ
# 
_chem_comp.id                                    YHZ 
_chem_comp.name                                  "1-[(4-aminopyrimidin-5-yl)amino]-2,5-anhydro-1-deoxy-6-O-[(S)-hydroxy{[(R)-hydroxy(phosphonomethyl)phosphoryl]oxy}phosphoryl]-D-allitol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H21 N4 O12 P3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-03 
_chem_comp.pdbx_modified_date                    2023-06-09 
_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                        494.225 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YHZ 
_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        8FXI 
_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.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 
YHZ PG    P1  P 0 1 N N N 191.063 170.793 125.290 5.943  -1.887 -0.544 PG    YHZ 1  
YHZ O1G   O1  O 0 1 N N N 190.026 170.505 124.241 5.707  -2.647 0.704  O1G   YHZ 2  
YHZ O2G   O2  O 0 1 N N N 190.600 170.408 126.666 7.116  -0.812 -0.303 O2G   YHZ 3  
YHZ O3G   O3  O 0 1 N N N 192.398 170.190 124.946 6.377  -2.902 -1.716 O3G   YHZ 4  
YHZ PB    P2  P 0 1 N N N 191.120 173.282 123.636 3.922  0.128  0.302  PB    YHZ 5  
YHZ O1B   O4  O 0 1 N N N 191.802 172.348 122.676 3.686  -0.632 1.550  O1B   YHZ 6  
YHZ O2B   O5  O 0 1 N N N 189.659 173.532 123.391 5.095  1.204  0.543  O2B   YHZ 7  
YHZ C3B   C1  C 0 1 N N N 191.293 172.569 125.295 4.413  -1.020 -1.025 C3B   YHZ 8  
YHZ PA    P3  P 0 1 N N N 192.628 175.462 124.856 1.645  2.005  0.584  PA    YHZ 9  
YHZ O1A   O6  O 0 1 N N N 193.061 176.783 124.312 1.526  1.702  2.028  O1A   YHZ 10 
YHZ O2A   O7  O 0 1 N N N 191.728 175.456 126.045 2.310  3.458  0.393  O2A   YHZ 11 
YHZ O3A   O8  O 0 1 N N N 191.917 174.652 123.673 2.571  0.894  -0.123 O3A   YHZ 12 
YHZ "O5'" O9  O 0 1 N N N 193.919 174.554 125.156 0.182  1.992  -0.089 "O5'" YHZ 13 
YHZ "C5'" C2  C 0 1 N N N 194.453 173.662 124.141 -0.901 2.792  0.389  "C5'" YHZ 14 
YHZ "C4'" C3  C 0 1 N N R 195.940 173.476 124.338 -2.140 2.539  -0.473 "C4'" YHZ 15 
YHZ "O4'" O10 O 0 1 N N N 196.649 174.463 123.548 -2.653 1.210  -0.238 "O4'" YHZ 16 
YHZ "C3'" C4  C 0 1 N N S 196.475 173.646 125.764 -3.288 3.485  -0.055 "C3'" YHZ 17 
YHZ "O3'" O11 O 0 1 N N N 196.490 172.397 126.443 -3.353 4.611  -0.932 "O3'" YHZ 18 
YHZ "C2'" C5  C 0 1 N N R 197.898 174.159 125.538 -4.559 2.617  -0.192 "C2'" YHZ 19 
YHZ "O2'" O12 O 0 1 N N N 198.822 173.105 125.380 -5.449 3.182  -1.156 "O2'" YHZ 20 
YHZ "C1'" C6  C 0 1 N N S 197.747 174.983 124.263 -4.028 1.249  -0.677 "C1'" YHZ 21 
YHZ C8    C7  C 0 1 N N N 196.273 176.990 124.671 -4.825 0.111  -0.036 C8    YHZ 22 
YHZ N7    N1  N 0 1 N N N 196.344 178.276 124.900 -4.259 -1.175 -0.450 N7    YHZ 23 
YHZ C5    C8  C 0 1 Y N N 197.704 178.547 124.905 -4.824 -2.370 0.012  C5    YHZ 24 
YHZ C6    C9  C 0 1 Y N N 198.430 179.736 125.100 -4.297 -3.611 -0.371 C6    YHZ 25 
YHZ N6    N2  N 0 1 N N N 197.867 180.916 125.333 -3.200 -3.681 -1.220 N6    YHZ 26 
YHZ N1    N3  N 0 1 Y N N 199.779 179.661 125.041 -4.864 -4.720 0.091  N1    YHZ 27 
YHZ C2    C10 C 0 1 Y N N 200.340 178.470 124.808 -5.905 -4.659 0.897  C2    YHZ 28 
YHZ N3    N4  N 0 1 Y N N 199.761 177.290 124.613 -6.427 -3.510 1.277  N3    YHZ 29 
YHZ C4    C11 C 0 1 Y N N 198.425 177.395 124.674 -5.916 -2.358 0.866  C4    YHZ 30 
YHZ H1    H1  H 0 1 N N N 189.722 170.048 126.616 7.325  -0.276 -1.081 H1    YHZ 31 
YHZ H2    H2  H 0 1 N N N 192.335 169.732 124.116 7.185  -3.398 -1.527 H2    YHZ 32 
YHZ H3    H3  H 0 1 N N N 189.376 173.038 122.631 5.304  1.739  -0.235 H3    YHZ 33 
YHZ H4    H4  H 0 1 N N N 192.300 172.796 125.676 4.587  -0.461 -1.944 H4    YHZ 34 
YHZ H5    H5  H 0 1 N N N 190.540 173.023 125.957 3.619  -1.749 -1.188 H5    YHZ 35 
YHZ H6    H6  H 0 1 N N N 191.544 176.350 126.308 2.419  3.723  -0.530 H6    YHZ 36 
YHZ H7    H7  H 0 1 N N N 194.270 174.093 123.146 -1.118 2.529  1.424  H7    YHZ 37 
YHZ H8    H8  H 0 1 N N N 193.952 172.686 124.216 -0.628 3.846  0.331  H8    YHZ 38 
YHZ H9    H9  H 0 1 N N N 196.213 172.469 123.988 -1.902 2.675  -1.528 H9    YHZ 39 
YHZ H10   H10 H 0 1 N N N 195.881 174.398 126.305 -3.157 3.812  0.977  H10   YHZ 40 
YHZ H11   H11 H 0 1 N N N 196.824 172.519 127.324 -4.057 5.238  -0.715 H11   YHZ 41 
YHZ H12   H12 H 0 1 N N N 198.186 174.819 126.370 -5.057 2.513  0.772  H12   YHZ 42 
YHZ H13   H13 H 0 1 N N N 198.888 172.617 126.192 -5.765 4.067  -0.928 H13   YHZ 43 
YHZ H14   H14 H 0 1 N N N 198.651 175.345 123.751 -4.081 1.185  -1.764 H14   YHZ 44 
YHZ H15   H15 H 0 1 N N N 195.692 176.652 125.542 -4.775 0.198  1.049  H15   YHZ 45 
YHZ H16   H16 H 0 1 N N N 195.636 176.970 123.775 -5.865 0.170  -0.358 H16   YHZ 46 
YHZ H17   H17 H 0 1 N N N 195.883 178.791 124.177 -3.492 -1.199 -1.044 H17   YHZ 47 
YHZ H18   H18 H 0 1 N N N 198.579 181.611 125.435 -2.792 -2.866 -1.552 H18   YHZ 48 
YHZ H19   H19 H 0 1 N N N 197.272 181.158 124.567 -2.842 -4.544 -1.480 H19   YHZ 49 
YHZ H20   H20 H 0 1 N N N 201.419 178.466 124.773 -6.345 -5.578 1.256  H20   YHZ 50 
YHZ H21   H21 H 0 1 N N N 197.858 176.487 124.528 -6.351 -1.422 1.185  H21   YHZ 51 
# 
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 
YHZ O1B   PB    DOUB N N 1  
YHZ O2B   PB    SING N N 2  
YHZ "O4'" "C1'" SING N N 3  
YHZ "O4'" "C4'" SING N N 4  
YHZ PB    O3A   SING N N 5  
YHZ PB    C3B   SING N N 6  
YHZ O3A   PA    SING N N 7  
YHZ "C5'" "C4'" SING N N 8  
YHZ "C5'" "O5'" SING N N 9  
YHZ O1G   PG    DOUB N N 10 
YHZ "C1'" "C2'" SING N N 11 
YHZ O1A   PA    DOUB N N 12 
YHZ "C4'" "C3'" SING N N 13 
YHZ N3    C4    DOUB Y N 14 
YHZ N3    C2    SING Y N 15 
YHZ C8    N7    SING N N 16 
YHZ C4    C5    SING Y N 17 
YHZ C2    N1    DOUB Y N 18 
YHZ PA    "O5'" SING N N 19 
YHZ PA    O2A   SING N N 20 
YHZ N7    C5    SING N N 21 
YHZ C5    C6    DOUB Y N 22 
YHZ O3G   PG    SING N N 23 
YHZ N1    C6    SING Y N 24 
YHZ C6    N6    SING N N 25 
YHZ PG    C3B   SING N N 26 
YHZ PG    O2G   SING N N 27 
YHZ "O2'" "C2'" SING N N 28 
YHZ "C2'" "C3'" SING N N 29 
YHZ "C3'" "O3'" SING N N 30 
YHZ "C1'" C8    SING N N 31 
YHZ O2G   H1    SING N N 32 
YHZ O3G   H2    SING N N 33 
YHZ O2B   H3    SING N N 34 
YHZ C3B   H4    SING N N 35 
YHZ C3B   H5    SING N N 36 
YHZ O2A   H6    SING N N 37 
YHZ "C5'" H7    SING N N 38 
YHZ "C5'" H8    SING N N 39 
YHZ "C4'" H9    SING N N 40 
YHZ "C3'" H10   SING N N 41 
YHZ "O3'" H11   SING N N 42 
YHZ "C2'" H12   SING N N 43 
YHZ "O2'" H13   SING N N 44 
YHZ "C1'" H14   SING N N 45 
YHZ C8    H15   SING N N 46 
YHZ C8    H16   SING N N 47 
YHZ N7    H17   SING N N 48 
YHZ N6    H18   SING N N 49 
YHZ N6    H19   SING N N 50 
YHZ C2    H20   SING N N 51 
YHZ C4    H21   SING N N 52 
# 
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 
YHZ SMILES           ACDLabs              12.01 "O=P(O)(O)CP(=O)(O)OP(=O)(O)OCC1OC(CNc2cncnc2N)C(O)C1O"                                                                                                                                                      
YHZ InChI            InChI                1.06  "InChI=1S/C11H21N4O12P3/c12-11-6(1-13-4-15-11)14-2-7-9(16)10(17)8(26-7)3-25-30(23,24)27-29(21,22)5-28(18,19)20/h1,4,7-10,14,16-17H,2-3,5H2,(H,21,22)(H,23,24)(H2,12,13,15)(H2,18,19,20)/t7-,8+,9-,10+/m0/s1" 
YHZ InChIKey         InChI                1.06  KVTJTUTWTFKEKT-QCLAVDOMSA-N                                                                                                                                                                                  
YHZ SMILES_CANONICAL CACTVS               3.385 "Nc1ncncc1NC[C@@H]2O[C@H](CO[P](O)(=O)O[P](O)(=O)C[P](O)(O)=O)[C@@H](O)[C@H]2O"                                                                                                                              
YHZ SMILES           CACTVS               3.385 "Nc1ncncc1NC[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)C[P](O)(O)=O)[CH](O)[CH]2O"                                                                                                                                    
YHZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(c(ncn1)N)NC[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)OP(=O)(CP(=O)(O)O)O)O)O"                                                                                                                              
YHZ SMILES           "OpenEye OEToolkits" 2.0.7 "c1c(c(ncn1)N)NCC2C(C(C(O2)COP(=O)(O)OP(=O)(CP(=O)(O)O)O)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 
YHZ "SYSTEMATIC NAME" ACDLabs              12.01 "1-[(4-aminopyrimidin-5-yl)amino]-2,5-anhydro-1-deoxy-6-O-[(S)-hydroxy{[(R)-hydroxy(phosphonomethyl)phosphoryl]oxy}phosphoryl]-D-allitol"                                       
YHZ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[[(2~{R},3~{S},4~{R},5~{S})-5-[[(4-azanylpyrimidin-5-yl)amino]methyl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]methylphosphonic 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 
YHZ "Create component" 2023-02-03 RCSB 
YHZ "Initial release"  2023-06-14 RCSB 
# 
