data_A52
# 
_chem_comp.id                                    A52 
_chem_comp.name                                  "3-AMINOMETHYL-7-(ETHOXY)-3H-BENZO[C][1,2]OXABOROL-1-OL modified adenosine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C20 H23 B N6 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    -3 
_chem_comp.pdbx_initial_date                     2015-02-03 
_chem_comp.pdbx_modified_date                    2016-02-26 
_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                        533.216 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A52 
_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        5AGR 
_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 
A52 B      B      B -1 1 N N N 15.573 5.681 11.165 1.571  -1.304 0.654  B      A52 1  
A52 P      P      P 0  1 N N N 22.331 4.646 9.952  -5.526 -1.996 -0.244 P      A52 2  
A52 N1     N1     N 0  1 Y N N 20.854 6.230 17.928 1.774  5.815  -0.335 N1     A52 3  
A52 O1     O1     O 0  1 N N N 14.434 6.632 11.216 2.005  -1.457 1.945  O1     A52 4  
A52 C2     C2     C 0  1 Y N N 20.133 5.168 17.524 2.174  4.655  -0.822 C2     A52 5  
A52 N3     N3     N 0  1 Y N N 19.508 5.144 16.334 1.462  3.554  -0.702 N3     A52 6  
A52 C4     C4     C 0  1 Y N N 19.606 6.233 15.531 0.290  3.571  -0.075 C4     A52 7  
A52 C5     C5     C 0  1 Y N N 20.335 7.346 15.926 -0.180 4.781  0.461  C5     A52 8  
A52 C6     C6     C 0  1 Y N N 20.964 7.336 17.161 0.616  5.929  0.308  C6     A52 9  
A52 N6     N6     N 0  1 N N N 21.682 8.406 17.584 0.205  7.149  0.816  N6     A52 10 
A52 N7     N7     N 0  1 Y N N 20.245 8.265 14.945 -1.379 4.523  1.038  N7     A52 11 
A52 C8     C8     C 0  1 Y N N 19.491 7.731 13.967 -1.667 3.263  0.893  C8     A52 12 
A52 N9     N9     N 0  1 Y N N 19.100 6.493 14.325 -0.668 2.632  0.213  N9     A52 13 
A52 "C1'"  "C1'"  C 0  1 N N R 18.211 5.552 13.572 -0.626 1.212  -0.146 "C1'"  A52 14 
A52 C10    C10    C 0  1 N N S 13.146 6.017 11.027 2.795  -2.660 1.958  C10    A52 15 
A52 C11    C11    C 0  1 Y N N 13.507 4.704 10.445 3.381  -2.804 0.573  C11    A52 16 
A52 C12    C12    C 0  1 Y N N 14.868 4.513 10.512 2.636  -1.977 -0.256 C12    A52 17 
A52 C13    C13    C 0  1 Y N N 12.624 3.765 9.893  4.423  -3.543 0.056  C13    A52 18 
A52 C14    C14    C 0  1 Y N N 13.164 2.574 9.416  4.725  -3.464 -1.292 C14    A52 19 
A52 C15    C15    C 0  1 Y N N 14.542 2.366 9.476  3.983  -2.645 -2.122 C15    A52 20 
A52 C16    C16    C 0  1 Y N N 15.408 3.320 10.028 2.934  -1.898 -1.604 C16    A52 21 
A52 O1P    O1P    O -1 1 N N N 23.045 5.899 10.377 -6.255 -1.200 0.891  O1P    A52 22 
A52 "C2'"  "C2'"  C 0  1 N N R 17.174 6.328 12.777 0.165  0.414  0.913  "C2'"  A52 23 
A52 "O2'"  "O2'"  O 0  1 N N N 16.040 5.500 12.520 1.435  0.026  0.345  "O2'"  A52 24 
A52 O2P    O2P    O 0  1 N N N 23.003 3.347 10.298 -5.413 -3.504 0.166  O2P    A52 25 
A52 "C3'"  "C3'"  C 0  1 N N S 17.772 6.484 11.396 -0.605 -0.936 1.012  "C3'"  A52 26 
A52 "O3'"  "O3'"  O 0  1 N N N 16.654 6.348 10.511 0.342  -1.892 0.485  "O3'"  A52 27 
A52 C33    C33    C 0  1 N N N 12.481 5.838 12.391 3.916  -2.540 2.992  C33    A52 28 
A52 N34    N34    N 0  1 N N N 13.345 5.095 13.316 3.336  -2.486 4.340  N34    A52 29 
A52 O35    O35    O 0  1 N N N 16.751 3.092 10.085 2.203  -1.092 -2.418 O35    A52 30 
A52 C36    C36    C 0  1 N N N 17.301 1.870 9.585  2.569  -1.062 -3.799 C36    A52 31 
A52 C37    C37    C 0  1 N N N 18.792 1.852 9.827  1.640  -0.107 -4.552 C37    A52 32 
A52 O3P    O3P    O -1 1 N N N 21.848 4.712 8.527  -6.344 -1.876 -1.575 O3P    A52 33 
A52 "C4'"  "C4'"  C 0  1 N N R 18.760 5.322 11.305 -1.760 -0.777 0.000  "C4'"  A52 34 
A52 "O4'"  "O4'"  O 0  1 N N N 18.903 4.764 12.619 -1.954 0.648  -0.122 "O4'"  A52 35 
A52 "C5'"  "C5'"  C 0  1 N N N 20.125 5.781 10.840 -3.030 -1.444 0.533  "C5'"  A52 36 
A52 "O5'"  "O5'"  O 0  1 N N N 20.990 4.647 10.831 -4.051 -1.388 -0.464 "O5'"  A52 37 
A52 H2     H2     H 0  1 N N N 20.054 4.310 18.175 3.122  4.607  -1.338 H2     A52 38 
A52 HN6    HN6    H 0  1 N N N 22.067 8.214 18.487 0.764  7.934  0.704  HN6    A52 39 
A52 HN6A   HN6A   H 0  0 N N N 22.423 8.587 16.937 -0.642 7.219  1.283  HN6A   A52 40 
A52 H8     H8     H 0  1 N N N 19.238 8.220 13.038 -2.565 2.786  1.258  H8     A52 41 
A52 "H1'"  "H1'"  H 0  1 N N N 17.689 4.903 14.290 -0.176 1.084  -1.130 "H1'"  A52 42 
A52 H10    H10    H 0  1 N N N 12.502 6.597 10.349 2.164  -3.518 2.188  H10    A52 43 
A52 H13    H13    H 0  1 N N N 11.563 3.959 9.840  5.004  -4.183 0.703  H13    A52 44 
A52 H14    H14    H 0  1 N N N 12.519 1.814 9.001  5.541  -4.044 -1.696 H14    A52 45 
A52 H15    H15    H 0  1 N N N 14.952 1.446 9.087  4.220  -2.586 -3.174 H15    A52 46 
A52 "H2'"  "H2'"  H 0  1 N N N 16.926 7.294 13.241 0.262  0.941  1.862  "H2'"  A52 47 
A52 "H3'"  "H3'"  H 0  1 N N N 18.284 7.451 11.287 -0.936 -1.173 2.023  "H3'"  A52 48 
A52 H33    H33    H 0  1 N N N 12.269 6.829 12.818 4.576  -3.404 2.914  H33    A52 49 
A52 H33A   H33A   H 0  0 N N N 11.539 5.286 12.260 4.487  -1.630 2.805  H33A   A52 50 
A52 HN34   HN34   H 0  0 N N N 12.883 4.995 14.197 2.749  -3.289 4.513  HN34   A52 51 
A52 HN3A   HN3A   H 0  0 N N N 13.539 4.190 12.937 4.056  -2.407 5.041  HN3A   A52 52 
A52 H36    H36    H 0  1 N N N 16.835 1.019 10.104 3.598  -0.718 -3.894 H36    A52 53 
A52 H36A   H36A   H 0  0 N N N 17.104 1.794 8.505  2.480  -2.063 -4.220 H36A   A52 54 
A52 H37    H37    H 0  1 N N N 19.215 0.912 9.442  1.919  -0.084 -5.605 H37    A52 55 
A52 H37A   H37A   H 0  0 N N N 19.258 2.703 9.308  0.610  -0.451 -4.456 H37A   A52 56 
A52 H37B   H37B   H 0  0 N N N 18.989 1.928 10.907 1.729  0.894  -4.130 H37B   A52 57 
A52 "H4'"  "H4'"  H 0  1 N N N 18.369 4.568 10.606 -1.482 -1.205 -0.962 "H4'"  A52 58 
A52 "H5'"  "H5'"  H 0  1 N N N 20.052 6.203 9.827  -2.818 -2.484 0.779  "H5'"  A52 59 
A52 "H5'A" "H5'A" H 0  0 N N N 20.517 6.544 11.528 -3.366 -0.921 1.428  "H5'A" A52 60 
# 
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 
A52 B     O1     SING N N 1  
A52 B     C12    SING N N 2  
A52 B     "O2'"  SING N N 3  
A52 B     "O3'"  SING N N 4  
A52 P     O1P    SING N N 5  
A52 P     O2P    DOUB N N 6  
A52 P     O3P    SING N N 7  
A52 P     "O5'"  SING N N 8  
A52 N1    C2     DOUB Y N 9  
A52 N1    C6     SING Y N 10 
A52 O1    C10    SING N N 11 
A52 C2    N3     SING Y N 12 
A52 N3    C4     DOUB Y N 13 
A52 C4    C5     SING Y N 14 
A52 C4    N9     SING Y N 15 
A52 C5    C6     DOUB Y N 16 
A52 C5    N7     SING Y N 17 
A52 C6    N6     SING N N 18 
A52 N7    C8     DOUB Y N 19 
A52 C8    N9     SING Y N 20 
A52 N9    "C1'"  SING N N 21 
A52 "C1'" "C2'"  SING N N 22 
A52 "C1'" "O4'"  SING N N 23 
A52 C10   C11    SING N N 24 
A52 C10   C33    SING N N 25 
A52 C11   C12    DOUB Y N 26 
A52 C11   C13    SING Y N 27 
A52 C12   C16    SING Y N 28 
A52 C13   C14    DOUB Y N 29 
A52 C14   C15    SING Y N 30 
A52 C15   C16    DOUB Y N 31 
A52 C16   O35    SING N N 32 
A52 "C2'" "O2'"  SING N N 33 
A52 "C2'" "C3'"  SING N N 34 
A52 "C3'" "O3'"  SING N N 35 
A52 "C3'" "C4'"  SING N N 36 
A52 C33   N34    SING N N 37 
A52 O35   C36    SING N N 38 
A52 C36   C37    SING N N 39 
A52 "C4'" "O4'"  SING N N 40 
A52 "C4'" "C5'"  SING N N 41 
A52 "C5'" "O5'"  SING N N 42 
A52 C2    H2     SING N N 43 
A52 N6    HN6    SING N N 44 
A52 N6    HN6A   SING N N 45 
A52 C8    H8     SING N N 46 
A52 "C1'" "H1'"  SING N N 47 
A52 C10   H10    SING N N 48 
A52 C13   H13    SING N N 49 
A52 C14   H14    SING N N 50 
A52 C15   H15    SING N N 51 
A52 "C2'" "H2'"  SING N N 52 
A52 "C3'" "H3'"  SING N N 53 
A52 C33   H33    SING N N 54 
A52 C33   H33A   SING N N 55 
A52 N34   HN34   SING N N 56 
A52 N34   HN3A   SING N N 57 
A52 C36   H36    SING N N 58 
A52 C36   H36A   SING N N 59 
A52 C37   H37    SING N N 60 
A52 C37   H37A   SING N N 61 
A52 C37   H37B   SING N N 62 
A52 "C4'" "H4'"  SING N N 63 
A52 "C5'" "H5'"  SING N N 64 
A52 "C5'" "H5'A" SING N N 65 
# 
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 
A52 InChI            InChI                1.03  
"InChI=1S/C20H25BN6O9P/c1-2-31-11-5-3-4-10-12(6-22)34-21(14(10)11)35-16-13(7-32-37(28,29)30)33-20(17(16)36-21)27-9-26-15-18(23)24-8-25-19(15)27/h3-5,8-9,12-13,16-17,20H,2,6-7,22H2,1H3,(H2,23,24,25)(H2,28,29,30)/q-1/p-2/t12-,13-,16-,17-,20-,21+/m1/s1" 
A52 InChIKey         InChI                1.03  WLOBNXOMDQETEC-IMBSHPNCSA-L 
A52 SMILES_CANONICAL CACTVS               3.385 "CCOc1cccc2[C@@H](CN)O[B-]3(O[C@@H]4[C@@H](CO[P]([O-])([O-])=O)O[C@H]([C@@H]4O3)n5cnc6c(N)ncnc56)c12" 
A52 SMILES           CACTVS               3.385 "CCOc1cccc2[CH](CN)O[B-]3(O[CH]4[CH](CO[P]([O-])([O-])=O)O[CH]([CH]4O3)n5cnc6c(N)ncnc56)c12" 
A52 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "[B-]12(c3c(cccc3OCC)[C@H](O1)CN)O[C@@H]4[C@H](O[C@H]([C@@H]4O2)n5cnc6c5ncnc6N)COP(=O)([O-])[O-]" 
A52 SMILES           "OpenEye OEToolkits" 1.7.6 "[B-]12(c3c(cccc3OCC)C(O1)CN)OC4C(OC(C4O2)n5cnc6c5ncnc6N)COP(=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 
A52 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 
;[(1S,5R,6R,7'S,8R)-7'-(aminomethyl)-6-(6-aminopurin-9-yl)-2'-ethoxy-spiro[2,4,7-trioxa-3-boranuidabicyclo[3.3.0]octane-3,9'-8-oxa-9-boranuidabicyclo[4.3.0]nona-1(6),2,4-triene]-8-yl]methyl 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 
A52 "Create component"   2015-02-03 EBI  
A52 "Other modification" 2015-06-18 EBI  
A52 "Initial release"    2016-03-02 RCSB 
# 
