data_ZF9
# 
_chem_comp.id                                    ZF9 
_chem_comp.name                                  
;adenosine 5'-hexaphosphate
;
_chem_comp.type                                  "RNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C10 H19 N5 O22 P6" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-03-09 
_chem_comp.pdbx_modified_date                    2024-03-08 
_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                        747.121 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ZF9 
_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        8GGG 
_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.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 
ZF9 C10 C1  C 0 1 N N N N N N -47.635 -15.767 13.637 -4.528 -2.679 0.227  C10 ZF9 1  
ZF9 O17 O1  O 0 1 N N N N N N -46.848 -16.950 7.982  4.178  -3.392 -1.049 O17 ZF9 2  
ZF9 C01 C2  C 0 1 N N S N N N -48.302 -18.023 14.205 -6.663 -1.849 1.288  C01 ZF9 3  
ZF9 C02 C3  C 0 1 N N R N N N -47.560 -18.193 15.463 -7.356 -0.473 1.168  C02 ZF9 4  
ZF9 C03 C4  C 0 1 N N R N N N -46.107 -18.166 15.094 -6.201 0.501  0.845  C03 ZF9 5  
ZF9 C04 C5  C 0 1 Y N N N N N -45.715 -16.135 16.363 -6.498 1.488  -1.458 C04 ZF9 6  
ZF9 C05 C6  C 0 1 Y N N N N N -44.292 -16.891 17.847 -7.522 3.348  -1.015 C05 ZF9 7  
ZF9 C06 C7  C 0 1 Y N N N N N -44.630 -17.974 16.994 -7.290 2.695  0.208  C06 ZF9 8  
ZF9 C07 C8  C 0 1 Y N N N N N -43.304 -19.335 18.121 -8.306 4.438  1.309  C07 ZF9 9  
ZF9 C08 C9  C 0 1 Y N N N N N -43.421 -17.174 18.846 -8.177 4.590  -0.990 C08 ZF9 10 
ZF9 C09 C10 C 0 1 N N R N N N -47.385 -17.220 13.345 -5.172 -1.543 1.025  C09 ZF9 11 
ZF9 N01 N1  N 0 1 Y N N N N N -45.471 -17.417 16.132 -6.647 1.525  -0.104 N01 ZF9 12 
ZF9 N02 N2  N 0 1 Y N N N N N -45.008 -15.690 17.421 -7.010 2.560  -1.990 N02 ZF9 13 
ZF9 N03 N3  N 0 1 Y N N N N N -44.156 -19.212 17.084 -7.695 3.272  1.335  N03 ZF9 14 
ZF9 N04 N4  N 0 1 Y N N N N N -42.927 -18.386 18.993 -8.545 5.089  0.186  N04 ZF9 15 
ZF9 N05 N5  N 0 1 N N N N N N -43.020 -16.125 19.762 -8.433 5.279  -2.163 N05 ZF9 16 
ZF9 O01 O2  O 0 1 N N N N N N -48.576 -19.309 13.638 -6.843 -2.386 2.600  O01 ZF9 17 
ZF9 O02 O3  O 0 1 N N N N N N -46.031 -17.587 13.750 -5.176 -0.324 0.250  O02 ZF9 18 
ZF9 O03 O4  O 0 1 N N N N N N -47.921 -19.422 16.113 -7.981 -0.117 2.402  O03 ZF9 19 
ZF9 O04 O5  O 0 1 N N N N N N -47.359 -14.978 12.514 -3.141 -2.397 0.031  O04 ZF9 20 
ZF9 O05 O6  O 0 1 N N N N N N -47.956 -13.037 10.727 -0.646 -2.816 -0.683 O05 ZF9 21 
ZF9 O06 O7  O 0 1 N N N N N N -48.279 -15.488 9.544  1.933  -2.582 -0.227 O06 ZF9 22 
ZF9 O07 O8  O 0 1 N N N N N N -46.435 -17.168 10.503 4.170  -1.441 0.553  O07 ZF9 23 
ZF9 O08 O9  O 0 1 N N N N N N -44.130 -16.883 9.169  5.707  0.683  0.745  O08 ZF9 24 
ZF9 O09 O10 O 0 1 N N N N N N -42.647 -14.634 8.464  6.100  3.259  0.397  O09 ZF9 25 
ZF9 O10 O11 O 0 1 N N N N N N -43.783 -12.351 7.870  7.952  4.931  0.012  O10 ZF9 26 
ZF9 O11 O12 O 0 1 N N N N N N -42.763 -12.415 9.875  6.223  4.682  -1.810 O11 ZF9 27 
ZF9 O12 O13 O 0 1 N N N N N N -41.457 -12.243 7.909  5.646  5.848  0.475  O12 ZF9 28 
ZF9 O13 O14 O 0 1 N N N N N N -43.748 -14.946 10.770 7.910  1.808  1.635  O13 ZF9 29 
ZF9 O14 O15 O 0 1 N N N N N N -41.969 -16.325 10.353 7.476  1.541  -0.837 O14 ZF9 30 
ZF9 O15 O16 O 0 1 N N N N N N -45.166 -19.208 9.647  6.410  -1.330 -0.605 O15 ZF9 31 
ZF9 O16 O17 O 0 1 N N N N N N -44.247 -18.158 11.443 6.419  -1.564 1.909  O16 ZF9 32 
ZF9 O18 O18 O 0 1 N N N N N N -48.424 -18.058 9.155  3.586  -3.876 1.356  O18 ZF9 33 
ZF9 O19 O19 O 0 1 N N N N N N -47.843 -13.409 8.168  0.846  -4.844 -0.499 O19 ZF9 34 
ZF9 O20 O20 O 0 1 N N N N N N -46.076 -14.154 9.358  1.083  -3.420 -2.569 O20 ZF9 35 
ZF9 O21 O21 O 0 1 N N N N N N -47.716 -12.518 13.243 -2.605 -3.461 -2.312 O21 ZF9 36 
ZF9 O22 O22 O 0 1 N N N N N N -49.563 -13.665 12.672 -2.206 -4.733 -0.169 O22 ZF9 37 
ZF9 P01 P1  P 0 1 N N N N N N -48.155 -13.541 12.296 -2.151 -3.381 -0.770 P01 ZF9 38 
ZF9 P02 P2  P 0 1 N N N N N N -47.529 -14.019 9.454  0.805  -3.446 -0.984 P02 ZF9 39 
ZF9 P03 P3  P 0 1 N N N N N N -47.511 -16.920 9.284  3.482  -2.835 0.132  P03 ZF9 40 
ZF9 P04 P4  P 0 1 N N N N N N -44.976 -17.866 10.204 5.692  -0.922 0.623  P04 ZF9 41 
ZF9 P05 P5  P 0 1 N N N N N N -43.108 -15.685 9.680  6.813  1.817  0.456  P05 ZF9 42 
ZF9 P06 P6  P 0 1 N N N N N N -42.620 -12.957 8.521  6.512  4.685  -0.226 P06 ZF9 43 
ZF9 H1  H1  H 0 1 N N N N N N -46.988 -15.450 14.468 -4.635 -3.615 0.776  H1  ZF9 44 
ZF9 H2  H2  H 0 1 N N N N N N -48.689 -15.633 13.921 -5.021 -2.768 -0.741 H2  ZF9 45 
ZF9 H3  H3  H 0 1 N N N N N N -49.234 -17.467 14.384 -7.050 -2.538 0.538  H3  ZF9 46 
ZF9 H4  H4  H 0 1 N N N N N N -47.774 -17.344 16.128 -8.086 -0.483 0.359  H4  ZF9 47 
ZF9 H5  H5  H 0 1 N N N N N N -45.719 -19.195 15.076 -5.831 0.967  1.759  H5  ZF9 48 
ZF9 H6  H6  H 0 1 N N N N N N -46.391 -15.527 15.780 -6.023 0.689  -2.008 H6  ZF9 49 
ZF9 H7  H7  H 0 1 N N N N N N -42.873 -20.314 18.268 -8.623 4.880  2.243  H7  ZF9 50 
ZF9 H8  H8  H 0 1 N N N N N N -47.557 -17.437 12.280 -4.642 -1.393 1.965  H8  ZF9 51 
ZF9 H9  H9  H 0 1 N N N N N N -42.374 -16.494 20.430 -8.159 4.905  -3.015 H9  ZF9 52 
ZF9 H10 H10 H 0 1 N N N N N N -42.583 -15.385 19.250 -8.886 6.137  -2.133 H10 ZF9 53 
ZF9 H11 H11 H 0 1 N N N N N N -49.161 -19.790 14.211 -7.767 -2.542 2.839  H11 ZF9 54 
ZF9 H12 H12 H 0 1 N N N N N N -47.430 -19.509 16.921 -8.674 -0.731 2.683  H12 ZF9 55 
ZF9 H13 H13 H 0 1 N N N N N N -43.533 -11.860 9.915  5.297  4.527  -2.040 H13 ZF9 56 
ZF9 H14 H14 H 0 1 N N N N N N -41.772 -11.605 7.279  5.842  6.736  0.148  H14 ZF9 57 
ZF9 H15 H15 H 0 1 N N N N N N -43.263 -15.085 11.575 7.545  1.982  2.513  H15 ZF9 58 
ZF9 H16 H16 H 0 1 N N N N N N -44.116 -19.096 11.520 6.001  -1.338 2.751  H16 ZF9 59 
ZF9 H17 H17 H 0 1 N N N N N N -48.315 -18.457 8.300  3.151  -3.576 2.166  H17 ZF9 60 
ZF9 H18 H18 H 0 1 N N N N N N -45.781 -13.818 8.520  1.071  -2.534 -2.956 H18 ZF9 61 
ZF9 H19 H19 H 0 1 N N N N N N -48.448 -12.257 13.790 -2.593 -2.610 -2.770 H19 ZF9 62 
# 
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 
ZF9 O10 P06 DOUB N N 1  
ZF9 O12 P06 SING N N 2  
ZF9 O17 P03 DOUB N N 3  
ZF9 O19 P02 DOUB N N 4  
ZF9 O09 P06 SING N N 5  
ZF9 O09 P05 SING N N 6  
ZF9 P06 O11 SING N N 7  
ZF9 O18 P03 SING N N 8  
ZF9 O08 P05 SING N N 9  
ZF9 O08 P04 SING N N 10 
ZF9 P03 O06 SING N N 11 
ZF9 P03 O07 SING N N 12 
ZF9 O20 P02 SING N N 13 
ZF9 P02 O06 SING N N 14 
ZF9 P02 O05 SING N N 15 
ZF9 O15 P04 DOUB N N 16 
ZF9 P05 O14 DOUB N N 17 
ZF9 P05 O13 SING N N 18 
ZF9 P04 O07 SING N N 19 
ZF9 P04 O16 SING N N 20 
ZF9 O05 P01 SING N N 21 
ZF9 P01 O04 SING N N 22 
ZF9 P01 O22 DOUB N N 23 
ZF9 P01 O21 SING N N 24 
ZF9 O04 C10 SING N N 25 
ZF9 C09 C10 SING N N 26 
ZF9 C09 O02 SING N N 27 
ZF9 C09 C01 SING N N 28 
ZF9 O01 C01 SING N N 29 
ZF9 O02 C03 SING N N 30 
ZF9 C01 C02 SING N N 31 
ZF9 C03 C02 SING N N 32 
ZF9 C03 N01 SING N N 33 
ZF9 C02 O03 SING N N 34 
ZF9 N01 C04 SING Y N 35 
ZF9 N01 C06 SING Y N 36 
ZF9 C04 N02 DOUB Y N 37 
ZF9 C06 N03 DOUB Y N 38 
ZF9 C06 C05 SING Y N 39 
ZF9 N03 C07 SING Y N 40 
ZF9 N02 C05 SING Y N 41 
ZF9 C05 C08 DOUB Y N 42 
ZF9 C07 N04 DOUB Y N 43 
ZF9 C08 N04 SING Y N 44 
ZF9 C08 N05 SING N N 45 
ZF9 C10 H1  SING N N 46 
ZF9 C10 H2  SING N N 47 
ZF9 C01 H3  SING N N 48 
ZF9 C02 H4  SING N N 49 
ZF9 C03 H5  SING N N 50 
ZF9 C04 H6  SING N N 51 
ZF9 C07 H7  SING N N 52 
ZF9 C09 H8  SING N N 53 
ZF9 N05 H9  SING N N 54 
ZF9 N05 H10 SING N N 55 
ZF9 O01 H11 SING N N 56 
ZF9 O03 H12 SING N N 57 
ZF9 O11 H13 SING N N 58 
ZF9 O12 H14 SING N N 59 
ZF9 O13 H15 SING N N 60 
ZF9 O16 H16 SING N N 61 
ZF9 O18 H17 SING N N 62 
ZF9 O20 H18 SING N N 63 
ZF9 O21 H19 SING N N 64 
# 
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 
ZF9 SMILES           ACDLabs              12.01 "O=P(O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OCC1OC(n2cnc3c(N)ncnc32)C(O)C1O"                                                                                                                                                                                     
ZF9 InChI            InChI                1.06  "InChI=1S/C10H19N5O22P6/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(32-10)1-31-39(21,22)34-41(25,26)36-43(29,30)37-42(27,28)35-40(23,24)33-38(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H,25,26)(H,27,28)(H,29,30)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1" 
ZF9 InChIKey         InChI                1.06  MCJDQUICRUJHMC-KQYNXXCUSA-N                                                                                                                                                                                                                                                 
ZF9 SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O"                                                                                                                                                       
ZF9 SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O"                                                                                                                                                             
ZF9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)N"                                                                                                                                                             
ZF9 SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=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 
ZF9 "SYSTEMATIC NAME" ACDLabs              12.01 "5'-O-[(R)-hydroxy{[(R)-hydroxy{[(S)-hydroxy{[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]oxy}phosphoryl]oxy}phosphoryl]oxy}phosphoryl]adenosine"                                                 
ZF9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [oxidanyl-[oxidanyl-[oxidanyl(phosphonooxy)phosphoryl]oxy-phosphoryl]oxy-phosphoryl] hydrogen 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 
ZF9 "Create component" 2023-03-09 RCSB 
ZF9 "Initial release"  2024-03-13 RCSB 
# 
