data_IF9
# 
_chem_comp.id                                    IF9 
_chem_comp.name                                  "[[(2R,3R,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-4-fluoranyl-4-methyl-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphoryl] dihydrogen phosphate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H16 F N5 O9 P2 S" 
_chem_comp.mon_nstd_parent_comp_id               GUN 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-07-28 
_chem_comp.pdbx_modified_date                    2023-12-22 
_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                        475.284 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     IF9 
_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        8PYW 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
IF9 "C4'"  C1  C 0 1 N N R N N N 20.771 32.186 9.016  -0.051 -1.607 -0.222 "C4'"  IF9 1  
IF9 "C5'"  C2  C 0 1 N N N N N N 22.026 31.442 9.379  -1.356 -1.468 0.564  "C5'"  IF9 2  
IF9 "C1'"  C3  C 0 1 N N R N N N 20.099 34.259 8.201  2.035  -0.651 -0.535 "C1'"  IF9 3  
IF9 C4     C4  C 0 1 Y N N N N N 20.625 36.375 7.039  4.190  0.622  -0.178 C4     IF9 4  
IF9 C5     C5  C 0 1 Y N N N N N 22.174 34.807 6.887  2.581  1.022  1.275  C5     IF9 5  
IF9 C11    C6  C 0 1 Y N N N N N 21.729 36.799 6.336  4.618  1.562  0.766  C11    IF9 6  
IF9 C6     C7  C 0 1 N N N N N N 21.762 38.122 5.858  5.929  2.082  0.658  C6     IF9 7  
IF9 C2     C8  C 0 1 N N N N N N 19.513 38.288 6.852  6.236  0.730  -1.245 C2     IF9 8  
IF9 N9     N1  N 0 1 Y N N N N N 20.935 35.095 7.384  2.905  0.298  0.164  N9     IF9 9  
IF9 N7     N2  N 0 1 Y N N N N N 22.712 35.822 6.260  3.590  1.764  1.627  N7     IF9 10 
IF9 "C3'"  C9  C 0 1 N N R N N N 20.278 31.980 7.601  0.931  -2.555 0.512  "C3'"  IF9 11 
IF9 N1     N3  N 0 1 N N N N N N 20.571 38.797 6.150  6.710  1.647  -0.355 N1     IF9 12 
IF9 C1     C10 C 0 1 N N N N N N 18.757 33.554 6.126  3.341  -2.062 1.099  C1     IF9 13 
IF9 "C2'"  C11 C 0 1 N N R N N N 19.310 33.150 7.501  2.303  -2.080 -0.025 "C2'"  IF9 14 
IF9 F1     F1  F 0 1 N N N N N N 18.214 32.898 8.404  2.731  -2.905 -1.072 F1     IF9 15 
IF9 "O3'"  O1  O 0 1 N N N N N N 19.619 30.732 7.603  0.687  -3.917 0.155  "O3'"  IF9 16 
IF9 "O5'"  O2  O 0 1 N N N N N N 23.164 31.980 8.680  -2.246 -0.600 -0.140 "O5'"  IF9 17 
IF9 PA     P1  P 0 1 N N S N N N 24.207 30.900 8.125  -3.717 -0.227 0.400  PA     IF9 18 
IF9 O1A    O3  O 0 1 N N N N N N 24.600 30.258 9.433  -3.615 0.325  1.769  O1A    IF9 19 
IF9 S2A    S1  S 0 1 N N N N N N 25.535 32.152 7.400  -4.922 -1.972 0.429  S2A    IF9 20 
IF9 O3A    O4  O 0 1 N N N N N N 23.219 29.964 7.194  -4.384 0.869  -0.573 O3A    IF9 21 
IF9 PB     P2  P 0 1 N N N N N N 22.603 28.433 7.308  -5.799 1.636  -0.589 PB     IF9 22 
IF9 O1B    O5  O 0 1 N N N N N N 22.924 27.925 5.909  -6.875 0.694  -0.208 O1B    IF9 23 
IF9 O3B    O6  O 0 1 N N N N N N 23.443 28.062 8.519  -5.760 2.858  0.458  O3B    IF9 24 
IF9 O2B    O7  O 0 1 N N N N N N 21.205 28.214 7.707  -6.083 2.206  -2.068 O2B    IF9 25 
IF9 "O4'"  O8  O 0 1 N N N N N N 20.980 33.614 9.105  0.658  -0.349 -0.257 "O4'"  IF9 26 
IF9 O6     O9  O 0 1 N N N N N N 22.684 38.691 5.278  6.343  2.903  1.459  O6     IF9 27 
IF9 N2     N4  N 0 1 N N N N N N 18.460 39.122 7.046  7.050  0.310  -2.266 N2     IF9 28 
IF9 "N3'"  N5  N 0 1 N N N N N N 19.456 37.039 7.326  5.018  0.242  -1.157 "N3'"  IF9 29 
IF9 "H4'"  H1  H 0 1 N N N N N N 19.972 31.889 9.711  -0.249 -1.963 -1.233 "H4'"  IF9 30 
IF9 "H5'"  H2  H 0 1 N N N N N N 22.195 31.529 10.462 -1.818 -2.449 0.677  "H5'"  IF9 31 
IF9 "H5''" H3  H 0 0 N N N N N N 21.907 30.382 9.110  -1.145 -1.051 1.549  "H5''" IF9 32 
IF9 "H1'"  H4  H 0 1 N N N N N N 19.388 34.886 8.759  2.218  -0.600 -1.609 "H1'"  IF9 33 
IF9 H8     H5  H 0 1 N N N N N N 22.657 33.847 6.999  1.630  0.984  1.785  H8     IF9 34 
IF9 "H3'"  H6  H 0 1 N N N N N N 21.091 32.053 6.863  0.867  -2.420 1.592  "H3'"  IF9 35 
IF9 HN1    H7  H 0 1 N N N N N N 20.486 39.736 5.815  7.613  1.989  -0.449 HN1    IF9 36 
IF9 H2     H8  H 0 1 N N N N N N 19.592 33.746 5.436  4.284  -1.672 0.716  H2     IF9 37 
IF9 H3     H9  H 0 1 N N N N N N 18.133 32.740 5.728  2.987  -1.426 1.910  H3     IF9 38 
IF9 H1     H10 H 0 1 N N N N N N 18.149 34.465 6.229  3.491  -3.076 1.471  H1     IF9 39 
IF9 "HO3'" H11 H 0 0 N N N N N N 20.261 30.035 7.667  -0.196 -4.233 0.391  "HO3'" IF9 40 
IF9 HSA2   H12 H 0 0 N N N N N N 26.474 32.100 8.297  -4.926 -2.358 -0.860 HSA2   IF9 41 
IF9 HOB3   H13 H 0 0 N N N N N N 23.867 28.840 8.861  -5.077 3.516  0.270  HOB3   IF9 42 
IF9 HOB2   H14 H 0 0 N N N N N N 20.738 27.783 7.001  -6.922 2.681  -2.152 HOB2   IF9 43 
IF9 HN22   H15 H 0 0 N N N N N N 17.652 38.800 7.539  6.725  -0.338 -2.911 HN22   IF9 44 
IF9 HN21   H16 H 0 0 N N N N N N 18.492 40.058 6.696  7.951  0.661  -2.344 HN21   IF9 45 
# 
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 
IF9 C1    "C2'"  SING N N 1  
IF9 "C2'" F1     SING N N 2  
IF9 "C2'" "C3'"  SING N N 3  
IF9 "C3'" "O3'"  SING N N 4  
IF9 "C3'" "C4'"  SING N N 5  
IF9 "C4'" "C5'"  SING N N 6  
IF9 "C5'" "O5'"  SING N N 7  
IF9 "O5'" PA     SING N N 8  
IF9 PA    O1A    DOUB N N 9  
IF9 PA    S2A    SING N N 10 
IF9 PA    O3A    SING N N 11 
IF9 O3A   PB     SING N N 12 
IF9 PB    O1B    DOUB N N 13 
IF9 PB    O3B    SING N N 14 
IF9 PB    O2B    SING N N 15 
IF9 "C4'" "O4'"  SING N N 16 
IF9 "O4'" "C1'"  SING N N 17 
IF9 "C1'" N9     SING N N 18 
IF9 N9    C5     SING Y N 19 
IF9 C5    N7     DOUB Y N 20 
IF9 N7    C11    SING Y N 21 
IF9 C11   C6     SING N N 22 
IF9 C6    O6     DOUB N N 23 
IF9 C6    N1     SING N N 24 
IF9 N1    C2     SING N N 25 
IF9 C2    N2     SING N N 26 
IF9 C2    "N3'"  DOUB N N 27 
IF9 "N3'" C4     SING N N 28 
IF9 "C2'" "C1'"  SING N N 29 
IF9 N9    C4     SING Y N 30 
IF9 C11   C4     DOUB Y N 31 
IF9 "C4'" "H4'"  SING N N 32 
IF9 "C5'" "H5'"  SING N N 33 
IF9 "C5'" "H5''" SING N N 34 
IF9 "C1'" "H1'"  SING N N 35 
IF9 C5    H8     SING N N 36 
IF9 "C3'" "H3'"  SING N N 37 
IF9 N1    HN1    SING N N 38 
IF9 C1    H2     SING N N 39 
IF9 C1    H3     SING N N 40 
IF9 C1    H1     SING N N 41 
IF9 "O3'" "HO3'" SING N N 42 
IF9 S2A   HSA2   SING N N 43 
IF9 O3B   HOB3   SING N N 44 
IF9 O2B   HOB2   SING N N 45 
IF9 N2    HN22   SING N N 46 
IF9 N2    HN21   SING N N 47 
# 
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 
IF9 InChI            InChI                1.06  "InChI=1S/C11H16FN5O9P2S/c1-11(12)6(18)4(2-24-28(23,29)26-27(20,21)22)25-9(11)17-3-14-5-7(17)15-10(13)16-8(5)19/h3-4,6,9,18H,2H2,1H3,(H,23,29)(H2,20,21,22)(H3,13,15,16,19)/t4-,6-,9-,11-,28+/m1/s1" 
IF9 InChIKey         InChI                1.06  QCBAKKHBHHSVKS-VXAAHYPFSA-N                                                                                                                                                                          
IF9 SMILES_CANONICAL CACTVS               3.385 "C[C@@]1(F)[C@H](O)[C@@H](CO[P@@](S)(=O)O[P](O)(O)=O)O[C@H]1n2cnc3C(=O)NC(=Nc23)N"                                                                                                                   
IF9 SMILES           CACTVS               3.385 "C[C]1(F)[CH](O)[CH](CO[P](S)(=O)O[P](O)(O)=O)O[CH]1n2cnc3C(=O)NC(=Nc23)N"                                                                                                                           
IF9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@]1([C@@H]([C@H](O[C@H]1n2cnc3c2N=C(NC3=O)N)CO[P@@](=O)(OP(=O)(O)O)S)O)F"                                                                                                                        
IF9 SMILES           "OpenEye OEToolkits" 2.0.7 "CC1(C(C(OC1n2cnc3c2N=C(NC3=O)N)COP(=O)(OP(=O)(O)O)S)O)F"                                                                                                                                            
# 
_pdbx_chem_comp_identifier.comp_id           IF9 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "[[(2~{R},3~{R},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-4-fluoranyl-4-methyl-3-oxidanyl-oxolan-2-yl]methoxy-sulfanyl-phosphoryl] dihydrogen phosphate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
IF9 "Create component" 2023-07-28 PDBE 
IF9 "Initial release"  2023-12-27 RCSB 
# 
