data_ZOD
# 
_chem_comp.id                                    ZOD 
_chem_comp.name                                  "[(2R,3R,4R,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-2,4-bis(oxidanyl)oxolan-3-yl] ethanoate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C17 H25 N5 O15 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-07-07 
_chem_comp.pdbx_modified_date                    2015-10-30 
_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                        601.352 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ZOD 
_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        5CB5 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
# 
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 
ZOD C01    C1  C 0 1 N N N 3.122   -65.885 -55.531 9.821  4.334  -0.056 C01    ZOD 1  
ZOD C02    C2  C 0 1 N N N 2.054   -64.934 -55.154 9.159  3.097  0.494  C02    ZOD 2  
ZOD O03    O1  O 0 1 N N N 2.141   -63.780 -54.711 9.526  2.632  1.547  O03    ZOD 3  
ZOD O04    O2  O 0 1 N N N 0.774   -65.463 -55.239 8.161  2.511  -0.187 O04    ZOD 4  
ZOD C05    C3  C 0 1 N N R -0.017  -65.009 -56.309 7.570  1.323  0.403  C05    ZOD 5  
ZOD C06    C4  C 0 1 N N R 0.102   -63.570 -56.705 6.337  1.698  1.255  C06    ZOD 6  
ZOD O07    O3  O 0 1 N N N -0.635  -62.746 -55.815 6.692  1.766  2.638  O07    ZOD 7  
ZOD O08    O4  O 0 1 N N N -0.574  -63.583 -57.984 5.394  0.628  1.031  O08    ZOD 8  
ZOD C09    C5  C 0 1 N N R -0.463  -64.921 -58.561 5.489  0.326  -0.379 C09    ZOD 9  
ZOD C10    C6  C 0 1 N N N -1.882  -65.527 -58.725 4.953  -1.079 -0.660 C10    ZOD 10 
ZOD O1B    O5  O 0 1 N N N -2.511  -64.855 -59.835 3.548  -1.114 -0.400 O1B    ZOD 11 
ZOD PB     P1  P 0 1 N N N -4.098  -64.616 -59.735 2.654  -2.439 -0.591 PB     ZOD 12 
ZOD O2B    O6  O 0 1 N N N -4.511  -63.720 -60.848 2.822  -2.953 -1.969 O2B    ZOD 13 
ZOD O3B    O7  O 0 1 N N N -4.902  -65.885 -59.818 3.127  -3.562 0.461  O3B    ZOD 14 
ZOD O3A    O8  O 0 1 N N N -4.518  -63.880 -58.419 1.105  -2.083 -0.336 O3A    ZOD 15 
ZOD PA     P2  P 0 1 N N N -4.247  -62.386 -57.828 -0.283 -2.835 -0.653 PA     ZOD 16 
ZOD O2A    O9  O 0 1 N N N -3.969  -62.501 -56.267 -0.609 -2.719 -2.225 O2A    ZOD 17 
ZOD O1A    O10 O 0 1 N N N -3.081  -61.705 -58.556 -0.168 -4.261 -0.277 O1A    ZOD 18 
ZOD "O5'"  O11 O 0 1 N N N -5.589  -61.526 -58.121 -1.469 -2.151 0.193  "O5'"  ZOD 19 
ZOD "C5'"  C7  C 0 1 N N N -6.711  -62.252 -58.567 -2.806 -2.657 0.209  "C5'"  ZOD 20 
ZOD "C4'"  C8  C 0 1 N N R -7.979  -61.538 -58.100 -3.674 -1.775 1.108  "C4'"  ZOD 21 
ZOD "O4'"  O12 O 0 1 N N N -7.973  -61.208 -56.683 -3.807 -0.467 0.528  "O4'"  ZOD 22 
ZOD "C1'"  C9  C 0 1 N N R -8.606  -59.915 -56.623 -5.130 0.009  0.858  "C1'"  ZOD 23 
ZOD N9     N1  N 0 1 Y N N -8.275  -59.494 -55.298 -5.548 1.060  -0.073 N9     ZOD 24 
ZOD C8     C10 C 0 1 Y N N -7.169  -58.896 -54.796 -5.075 1.252  -1.337 C8     ZOD 25 
ZOD N7     N2  N 0 1 Y N N -7.344  -58.704 -53.466 -5.665 2.277  -1.881 N7     ZOD 26 
ZOD C5     C11 C 0 1 Y N N -8.609  -59.198 -53.118 -6.551 2.806  -1.003 C5     ZOD 27 
ZOD C6     C12 C 0 1 Y N N -9.379  -59.293 -51.893 -7.447 3.888  -1.034 C6     ZOD 28 
ZOD N6     N3  N 0 1 N N N -8.821  -58.797 -50.628 -7.555 4.686  -2.159 N6     ZOD 29 
ZOD N1     N4  N 0 1 Y N N -10.629 -59.825 -51.924 -8.189 4.126  0.043  N1     ZOD 30 
ZOD C2     C13 C 0 1 Y N N -11.136 -60.284 -53.077 -8.093 3.370  1.121  C2     ZOD 31 
ZOD N3     N5  N 0 1 Y N N -10.462 -60.240 -54.269 -7.268 2.347  1.195  N3     ZOD 32 
ZOD C4     C14 C 0 1 Y N N -9.191  -59.689 -54.272 -6.491 2.027  0.165  C4     ZOD 33 
ZOD "C2'"  C15 C 0 1 N N R -8.215  -59.156 -57.859 -6.018 -1.251 0.694  "C2'"  ZOD 34 
ZOD "O2'"  O13 O 0 1 N N N -9.261  -58.280 -58.295 -7.199 -1.150 1.492  "O2'"  ZOD 35 
ZOD "C3'"  C16 C 0 1 N N S -8.011  -60.231 -58.864 -5.090 -2.373 1.219  "C3'"  ZOD 36 
ZOD "O3'"  O14 O 0 1 N N N -9.025  -60.323 -59.810 -5.398 -2.681 2.580  "O3'"  ZOD 37 
ZOD C38    C17 C 0 1 N N R 0.323   -65.730 -57.567 7.002  0.398  -0.697 C38    ZOD 38 
ZOD O39    O15 O 0 1 N N N 1.690   -65.727 -57.942 7.215  0.969  -1.990 O39    ZOD 39 
ZOD H1     H1  H 0 1 N N N 4.104   -65.420 -55.362 10.602 4.663  0.630  H1     ZOD 40 
ZOD H10    H2  H 0 1 N N N 3.037   -66.794 -54.917 10.262 4.109  -1.027 H10    ZOD 41 
ZOD H3     H3  H 0 1 N N N 3.019   -66.149 -56.594 9.079  5.124  -0.167 H3     ZOD 42 
ZOD H4     H4  H 0 1 N N N -1.075  -65.208 -56.081 8.305  0.791  1.007  H4     ZOD 43 
ZOD H5     H5  H 0 1 N N N 1.155   -63.263 -56.794 5.921  2.649  0.923  H5     ZOD 44 
ZOD H6     H6  H 0 1 N N N -0.203  -62.727 -54.969 5.956  1.998  3.221  H6     ZOD 45 
ZOD H7     H7  H 0 1 N N N 0.050   -64.896 -59.534 4.942  1.066  -0.963 H7     ZOD 46 
ZOD H11    H8  H 0 1 N N N -2.468  -65.367 -57.808 5.136  -1.335 -1.704 H11    ZOD 47 
ZOD H9     H9  H 0 1 N N N -1.809  -66.605 -58.930 5.460  -1.797 -0.015 H9     ZOD 48 
ZOD HOB3   H10 H 0 0 N N N -5.495  -65.837 -60.559 3.045  -3.293 1.387  HOB3   ZOD 49 
ZOD HOA2   H11 H 0 0 N N N -3.121  -62.122 -56.067 -0.698 -1.810 -2.543 HOA2   ZOD 50 
ZOD "H5'1" H12 H 0 0 N N N -6.702  -62.308 -59.666 -3.208 -2.652 -0.803 "H5'1" ZOD 51 
ZOD "H5'2" H13 H 0 0 N N N -6.684  -63.269 -58.148 -2.803 -3.677 0.595  "H5'2" ZOD 52 
ZOD "H4'"  H14 H 0 1 N N N -8.861  -62.143 -58.356 -3.224 -1.697 2.098  "H4'"  ZOD 53 
ZOD "H1'"  H15 H 0 1 N N N -9.694  -60.070 -56.669 -5.162 0.372  1.885  "H1'"  ZOD 54 
ZOD H8     H16 H 0 1 N N N -6.292  -58.618 -55.362 -4.322 0.644  -1.816 H8     ZOD 55 
ZOD HN61   H17 H 0 0 N N N -9.489  -58.926 -49.895 -7.008 4.501  -2.939 HN61   ZOD 56 
ZOD HN62   H18 H 0 0 N N N -7.986  -59.303 -50.411 -8.177 5.430  -2.168 HN62   ZOD 57 
ZOD H2     H19 H 0 1 N N N -12.128 -60.711 -53.066 -8.715 3.599  1.974  H2     ZOD 58 
ZOD "H2'"  H20 H 0 1 N N N -7.278  -58.606 -57.688 -6.272 -1.414 -0.354 "H2'"  ZOD 59 
ZOD "HO2'" H21 H 0 0 N N N -9.389  -57.594 -57.651 -7.787 -1.914 1.423  "HO2'" ZOD 60 
ZOD "H3'"  H22 H 0 1 N N N -7.038  -60.085 -59.355 -5.178 -3.263 0.596  "H3'"  ZOD 61 
ZOD "HO3'" H23 H 0 0 N N N -9.069  -59.515 -60.307 -6.278 -3.061 2.708  "HO3'" ZOD 62 
ZOD H24    H24 H 0 1 N N N -0.072  -66.756 -57.529 7.452  -0.593 -0.637 H24    ZOD 63 
ZOD H25    H25 H 0 1 N N N 2.191   -66.237 -57.317 8.146  1.038  -2.241 H25    ZOD 64 
# 
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 
ZOD O2B   PB     DOUB N N 1  
ZOD O1B   PB     SING N N 2  
ZOD O1B   C10    SING N N 3  
ZOD O3B   PB     SING N N 4  
ZOD "O3'" "C3'"  SING N N 5  
ZOD PB    O3A    SING N N 6  
ZOD "C3'" "C4'"  SING N N 7  
ZOD "C3'" "C2'"  SING N N 8  
ZOD C10   C09    SING N N 9  
ZOD "C5'" "O5'"  SING N N 10 
ZOD "C5'" "C4'"  SING N N 11 
ZOD C09   O08    SING N N 12 
ZOD C09   C38    SING N N 13 
ZOD O1A   PA     DOUB N N 14 
ZOD O3A   PA     SING N N 15 
ZOD "O2'" "C2'"  SING N N 16 
ZOD "O5'" PA     SING N N 17 
ZOD "C4'" "O4'"  SING N N 18 
ZOD O08   C06    SING N N 19 
ZOD O39   C38    SING N N 20 
ZOD "C2'" "C1'"  SING N N 21 
ZOD PA    O2A    SING N N 22 
ZOD C38   C05    SING N N 23 
ZOD C06   C05    SING N N 24 
ZOD C06   O07    SING N N 25 
ZOD "O4'" "C1'"  SING N N 26 
ZOD "C1'" N9     SING N N 27 
ZOD C05   O04    SING N N 28 
ZOD C01   C02    SING N N 29 
ZOD N9    C8     SING Y N 30 
ZOD N9    C4     SING Y N 31 
ZOD O04   C02    SING N N 32 
ZOD C02   O03    DOUB N N 33 
ZOD C8    N7     DOUB Y N 34 
ZOD C4    N3     SING Y N 35 
ZOD C4    C5     DOUB Y N 36 
ZOD N3    C2     DOUB Y N 37 
ZOD N7    C5     SING Y N 38 
ZOD C5    C6     SING Y N 39 
ZOD C2    N1     SING Y N 40 
ZOD N1    C6     DOUB Y N 41 
ZOD C6    N6     SING N N 42 
ZOD C01   H1     SING N N 43 
ZOD C01   H10    SING N N 44 
ZOD C01   H3     SING N N 45 
ZOD C05   H4     SING N N 46 
ZOD C06   H5     SING N N 47 
ZOD O07   H6     SING N N 48 
ZOD C09   H7     SING N N 49 
ZOD C10   H11    SING N N 50 
ZOD C10   H9     SING N N 51 
ZOD O3B   HOB3   SING N N 52 
ZOD O2A   HOA2   SING N N 53 
ZOD "C5'" "H5'1" SING N N 54 
ZOD "C5'" "H5'2" SING N N 55 
ZOD "C4'" "H4'"  SING N N 56 
ZOD "C1'" "H1'"  SING N N 57 
ZOD C8    H8     SING N N 58 
ZOD N6    HN61   SING N N 59 
ZOD N6    HN62   SING N N 60 
ZOD C2    H2     SING N N 61 
ZOD "C2'" "H2'"  SING N N 62 
ZOD "O2'" "HO2'" SING N N 63 
ZOD "C3'" "H3'"  SING N N 64 
ZOD "O3'" "HO3'" SING N N 65 
ZOD C38   H24    SING N N 66 
ZOD O39   H25    SING N N 67 
# 
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 
ZOD SMILES           ACDLabs              12.01 "CC(=O)OC1C(O)OC(C1O)COP(OP(O)(=O)OCC4OC(n2cnc3c(N)ncnc23)C(O)C4O)(=O)O" 
ZOD InChI            InChI                1.03  
"InChI=1S/C17H25N5O15P2/c1-6(23)34-13-11(25)8(36-17(13)27)3-33-39(30,31)37-38(28,29)32-2-7-10(24)12(26)16(35-7)22-5-21-9-14(18)19-4-20-15(9)22/h4-5,7-8,10-13,16-17,24-27H,2-3H2,1H3,(H,28,29)(H,30,31)(H2,18,19,20)/t7-,8-,10-,11-,12-,13-,16-,17-/m1/s1" 
ZOD InChIKey         InChI                1.03  BFNOPXRXIQJDHO-QJWJOKBXSA-N 
ZOD SMILES_CANONICAL CACTVS               3.385 "CC(=O)O[C@H]1[C@H](O)O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34)[C@H]1O" 
ZOD SMILES           CACTVS               3.385 "CC(=O)O[CH]1[CH](O)O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34)[CH]1O" 
ZOD SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "CC(=O)O[C@@H]1[C@@H]([C@H](O[C@H]1O)COP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O)O" 
ZOD SMILES           "OpenEye OEToolkits" 1.9.2 "CC(=O)OC1C(C(OC1O)COP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3ncnc4N)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 
ZOD "SYSTEMATIC NAME" ACDLabs              12.01 
"(2R,3R,4R,5R)-5-({[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,4-dihydroxytetrahydrofuran-3-yl acetate (non-preferred name)" 
ZOD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "[(2R,3R,4R,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-2,4-bis(oxidanyl)oxolan-3-yl] ethanoate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
ZOD "Create component" 2015-07-07 PDBJ 
ZOD "Initial release"  2015-11-04 RCSB 
# 
