data_A3R
# 
_chem_comp.id                                    A3R 
_chem_comp.name                                  " Adenosine Diphosphate (Hydroxymethyl)pyrrolidine monoalcohol" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C15 H24 N6 O11 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-03-23 
_chem_comp.pdbx_modified_date                    2018-11-23 
_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                        526.332 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A3R 
_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        6G2A 
_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.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 
A3R C3N   C1  C 0 1 N N N -17.212 4.249  24.716 -7.340 2.750  0.375  C3N   A3R 1  
A3R C2N   C2  C 0 1 N N R -18.453 5.047  24.733 -7.989 3.367  -0.882 C2N   A3R 2  
A3R O2N   O1  O 0 1 N N N -18.163 6.438  25.249 -8.069 4.787  -0.752 O2N   A3R 3  
A3R C1N   C3  C 0 1 N N N -18.891 5.125  23.284 -7.048 2.987  -2.046 C1N   A3R 4  
A3R N4N   N1  N 0 1 N N N -17.618 5.361  22.588 -6.334 1.774  -1.570 N4N   A3R 5  
A3R C4N   C4  C 0 1 N N S -16.538 4.908  23.507 -6.063 2.049  -0.136 C4N   A3R 6  
A3R C5N   C5  C 0 1 N N N -15.551 3.943  22.801 -5.831 0.742  0.624  C5N   A3R 7  
A3R O5N   O2  O 0 1 N N N -14.481 3.591  23.660 -4.625 0.130  0.162  O5N   A3R 8  
A3R PB    P1  P 0 1 N N N -13.389 2.512  23.230 -4.071 -1.265 0.744  PB    A3R 9  
A3R O2B   O3  O 0 1 N N N -12.413 2.353  24.303 -5.102 -2.447 0.378  O2B   A3R 10 
A3R O1B   O4  O 0 1 N N N -12.886 2.883  21.877 -3.936 -1.168 2.215  O1B   A3R 11 
A3R O3A   O5  O 0 1 N N N -14.367 1.295  23.146 -2.634 -1.586 0.093  O3A   A3R 12 
A3R PA    P2  P 0 1 N N N -14.057 -0.207 22.525 -1.446 -2.611 0.454  PA    A3R 13 
A3R O1A   O6  O 0 1 N N N -12.625 -0.528 22.752 -1.270 -2.665 1.923  O1A   A3R 14 
A3R O2A   O7  O 0 1 N N N -15.079 -1.061 23.069 -1.817 -4.078 -0.097 O2A   A3R 15 
A3R "O5'" O8  O 0 1 N N N -14.320 0.008  20.983 -0.078 -2.111 -0.232 "O5'" A3R 16 
A3R "C5'" C6  C 0 1 N N N -15.533 0.538  20.477 1.181  -2.750 -0.015 "C5'" A3R 17 
A3R "C4'" C7  C 0 1 N N R -15.797 -0.112 19.098 2.266  -2.024 -0.813 "C4'" A3R 18 
A3R "O4'" O9  O 0 1 N N N -14.627 -0.027 18.259 2.517  -0.719 -0.248 "O4'" A3R 19 
A3R "C3'" C8  C 0 1 N N S -16.061 -1.620 19.250 3.612  -2.772 -0.693 "C3'" A3R 20 
A3R "O3'" O10 O 0 1 N N N -17.466 -1.892 19.412 3.830  -3.598 -1.839 "O3'" A3R 21 
A3R "C2'" C9  C 0 1 N N R -15.562 -2.203 17.943 4.665  -1.643 -0.631 "C2'" A3R 22 
A3R "O2'" O11 O 0 1 N N N -16.670 -2.554 17.122 5.567  -1.738 -1.735 "O2'" A3R 23 
A3R "C1'" C10 C 0 1 N N R -14.728 -1.082 17.275 3.830  -0.346 -0.720 "C1'" A3R 24 
A3R N9    N2  N 0 1 Y N N -13.361 -1.560 16.869 4.406  0.691  0.139  N9    A3R 25 
A3R C8    C11 C 0 1 Y N N -12.473 -2.318 17.520 4.031  0.979  1.417  C8    A3R 26 
A3R N7    N3  N 0 1 Y N N -11.408 -2.485 16.739 4.752  1.959  1.882  N7    A3R 27 
A3R C5    C12 C 0 1 Y N N -11.615 -1.811 15.603 5.632  2.360  0.934  C5    A3R 28 
A3R C4    C13 C 0 1 Y N N -12.831 -1.246 15.686 5.425  1.548  -0.194 C4    A3R 29 
A3R N3    N4  N 0 1 Y N N -13.325 -0.486 14.689 6.172  1.741  -1.276 N3    A3R 30 
A3R C2    C14 C 0 1 Y N N -12.561 -0.316 13.532 7.096  2.679  -1.294 C2    A3R 31 
A3R N1    N5  N 0 1 Y N N -11.302 -0.914 13.465 7.327  3.467  -0.259 N1    A3R 32 
A3R C6    C15 C 0 1 Y N N -10.865 -1.649 14.489 6.635  3.342  0.868  C6    A3R 33 
A3R N6    N6  N 0 1 N N N -9.666  -2.234 14.436 6.884  4.172  1.948  N6    A3R 34 
A3R H1    H1  H 0 1 N N N -17.409 3.180  24.550 -7.084 3.530  1.091  H1    A3R 35 
A3R H2    H2  H 0 1 N N N -16.625 4.375  25.638 -8.014 2.025  0.831  H2    A3R 36 
A3R H3    H3  H 0 1 N N N -19.228 4.561  25.344 -8.981 2.945  -1.042 H3    A3R 37 
A3R H4    H4  H 0 1 N N N -17.889 6.389  26.157 -8.469 5.230  -1.513 H4    A3R 38 
A3R H5    H5  H 0 1 N N N -19.593 5.956  23.124 -7.625 2.762  -2.943 H5    A3R 39 
A3R H6    H6  H 0 1 N N N -19.356 4.184  22.957 -6.342 3.794  -2.242 H6    A3R 40 
A3R H7    H7  H 0 1 N N N -17.588 4.837  21.737 -6.908 0.951  -1.678 H7    A3R 41 
A3R H9    H9  H 0 1 N N N -15.973 5.784  23.857 -5.201 2.708  -0.032 H9    A3R 42 
A3R H10   H10 H 0 1 N N N -16.090 3.031  22.506 -5.748 0.951  1.690  H10   A3R 43 
A3R H11   H11 H 0 1 N N N -15.145 4.436  21.905 -6.670 0.067  0.451  H11   A3R 44 
A3R H12   H12 H 0 1 N N N -11.541 2.519  23.965 -5.239 -2.568 -0.572 H12   A3R 45 
A3R H13   H13 H 0 1 N N N -14.674 -1.779 23.542 -1.947 -4.117 -1.054 H13   A3R 46 
A3R H14   H14 H 0 1 N N N -15.447 1.629  20.366 1.427  -2.717 1.047  H14   A3R 47 
A3R H15   H15 H 0 1 N N N -16.359 0.304  21.165 1.122  -3.788 -0.342 H15   A3R 48 
A3R H16   H16 H 0 1 N N N -16.663 0.371  18.621 1.972  -1.937 -1.859 H16   A3R 49 
A3R H17   H17 H 0 1 N N N -15.477 -2.019 20.092 3.637  -3.371 0.218  H17   A3R 50 
A3R H18   H18 H 0 1 N N N -17.768 -1.523 20.234 4.662  -4.090 -1.816 H18   A3R 51 
A3R H19   H19 H 0 1 N N N -14.918 -3.073 18.141 5.211  -1.681 0.312  H19   A3R 52 
A3R H20   H20 H 0 1 N N N -17.172 -3.242 17.544 6.074  -2.561 -1.759 H20   A3R 53 
A3R H21   H21 H 0 1 N N N -15.267 -0.721 16.386 3.777  0.000  -1.753 H21   A3R 54 
A3R H22   H22 H 0 1 N N N -12.598 -2.726 18.512 3.251  0.471  1.964  H22   A3R 55 
A3R H23   H23 H 0 1 N N N -12.938 0.267  12.705 7.686  2.810  -2.189 H23   A3R 56 
A3R H24   H24 H 0 1 N N N -9.229  -2.020 13.563 7.571  4.854  1.886  H24   A3R 57 
A3R H25   H25 H 0 1 N N N -9.097  -1.896 15.185 6.372  4.071  2.765  H25   A3R 58 
# 
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 
A3R N1    C2    DOUB Y N 1  
A3R N1    C6    SING Y N 2  
A3R C2    N3    SING Y N 3  
A3R N6    C6    SING N N 4  
A3R C6    C5    DOUB Y N 5  
A3R N3    C4    DOUB Y N 6  
A3R C5    C4    SING Y N 7  
A3R C5    N7    SING Y N 8  
A3R C4    N9    SING Y N 9  
A3R N7    C8    DOUB Y N 10 
A3R N9    "C1'" SING N N 11 
A3R N9    C8    SING Y N 12 
A3R "O2'" "C2'" SING N N 13 
A3R "C1'" "C2'" SING N N 14 
A3R "C1'" "O4'" SING N N 15 
A3R "C2'" "C3'" SING N N 16 
A3R "O4'" "C4'" SING N N 17 
A3R "C4'" "C3'" SING N N 18 
A3R "C4'" "C5'" SING N N 19 
A3R "C3'" "O3'" SING N N 20 
A3R "C5'" "O5'" SING N N 21 
A3R "O5'" PA    SING N N 22 
A3R O1B   PB    DOUB N N 23 
A3R PA    O1A   DOUB N N 24 
A3R PA    O2A   SING N N 25 
A3R PA    O3A   SING N N 26 
A3R N4N   C1N   SING N N 27 
A3R N4N   C4N   SING N N 28 
A3R C5N   C4N   SING N N 29 
A3R C5N   O5N   SING N N 30 
A3R O3A   PB    SING N N 31 
A3R PB    O5N   SING N N 32 
A3R PB    O2B   SING N N 33 
A3R C1N   C2N   SING N N 34 
A3R C4N   C3N   SING N N 35 
A3R C3N   C2N   SING N N 36 
A3R C2N   O2N   SING N N 37 
A3R C3N   H1    SING N N 38 
A3R C3N   H2    SING N N 39 
A3R C2N   H3    SING N N 40 
A3R O2N   H4    SING N N 41 
A3R C1N   H5    SING N N 42 
A3R C1N   H6    SING N N 43 
A3R N4N   H7    SING N N 44 
A3R C4N   H9    SING N N 45 
A3R C5N   H10   SING N N 46 
A3R C5N   H11   SING N N 47 
A3R O2B   H12   SING N N 48 
A3R O2A   H13   SING N N 49 
A3R "C5'" H14   SING N N 50 
A3R "C5'" H15   SING N N 51 
A3R "C4'" H16   SING N N 52 
A3R "C3'" H17   SING N N 53 
A3R "O3'" H18   SING N N 54 
A3R "C2'" H19   SING N N 55 
A3R "O2'" H20   SING N N 56 
A3R "C1'" H21   SING N N 57 
A3R C8    H22   SING N N 58 
A3R C2    H23   SING N N 59 
A3R N6    H24   SING N N 60 
A3R N6    H25   SING N N 61 
# 
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 
A3R InChI            InChI                1.03  
"InChI=1S/C15H24N6O11P2/c16-13-10-14(19-5-18-13)21(6-20-10)15-12(24)11(23)9(31-15)4-30-34(27,28)32-33(25,26)29-3-7-1-8(22)2-17-7/h5-9,11-12,15,17,22-24H,1-4H2,(H,25,26)(H,27,28)(H2,16,18,19)/t7-,8+,9+,11+,12+,15+/m0/s1" 
A3R InChIKey         InChI                1.03  PHEYQOBMMIEFLO-IBCGMDAMSA-N 
A3R SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@@H]4C[C@@H](O)CN4)[C@@H](O)[C@H]3O" 
A3R SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4C[CH](O)CN4)[CH](O)[CH]3O" 
A3R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4C[C@H](CN4)O)O)O)N" 
A3R SMILES           "OpenEye OEToolkits" 2.0.6 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4CC(CN4)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 
A3R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{S},4~{R})-4-oxidanylpyrrolidin-2-yl]methyl 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 
A3R "Create component" 2018-03-23 EBI  
A3R "Initial release"  2018-11-28 RCSB 
# 
