data_38Y # _chem_comp.id 38Y _chem_comp.name "3-(AMINOMETHYL)-4-BROMO-7-ETHOXYBENZO[C][1,2]OXABOROL-1(3H)-OL-MODIFIED ADENOSINE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H25 B Br N6 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2015-02-03 _chem_comp.pdbx_modified_date 2016-03-04 _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 615.136 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 38Y _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 5AGS _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 38Y B B B 0 1 N N N -15.814 5.725 -11.027 0.345 1.313 0.251 B 38Y 1 38Y P P P 0 1 N N N -22.668 4.792 -9.948 -6.338 3.453 0.144 P 38Y 2 38Y N1 N1 N 0 1 Y N N -21.082 6.226 -17.866 -1.381 -5.980 -0.163 N1 38Y 3 38Y O1 O1 O 0 1 N N N -14.656 6.583 -11.084 1.712 1.691 0.320 O1 38Y 4 38Y C2 C2 C 0 1 Y N N -20.374 5.158 -17.462 -0.836 -5.104 0.660 C2 38Y 5 38Y N3 N3 N 0 1 Y N N -19.749 5.160 -16.269 -1.195 -3.838 0.683 N3 38Y 6 38Y C4 C4 C 0 1 Y N N -19.854 6.259 -15.487 -2.137 -3.386 -0.138 C4 38Y 7 38Y C5 C5 C 0 1 Y N N -20.589 7.370 -15.888 -2.748 -4.280 -1.034 C5 38Y 8 38Y C6 C6 C 0 1 Y N N -21.220 7.354 -17.132 -2.331 -5.621 -1.021 C6 38Y 9 38Y N6 N6 N 0 1 N N N -21.947 8.412 -17.577 -2.896 -6.547 -1.880 N6 38Y 10 38Y N7 N7 N 0 1 Y N N -20.502 8.306 -14.913 -3.658 -3.572 -1.745 N7 38Y 11 38Y C8 C8 C 0 1 Y N N -19.753 7.763 -13.937 -3.646 -2.331 -1.352 C8 38Y 12 38Y N9 N9 N 0 1 Y N N -19.347 6.523 -14.272 -2.724 -2.166 -0.362 N9 38Y 13 38Y BR BR BR 0 0 N N N -11.192 3.856 -9.492 4.187 -1.950 0.934 BR 38Y 14 38Y "C1'" "C1'" C 0 1 N N R -18.467 5.584 -13.514 -2.415 -0.915 0.335 "C1'" 38Y 15 38Y C10 C10 C 0 1 N N S -13.412 5.924 -10.798 2.564 0.689 0.879 C10 38Y 16 38Y C11 C11 C 0 1 Y N N -13.848 4.618 -10.267 3.941 0.809 0.279 C11 38Y 17 38Y C12 C12 C 0 1 Y N N -15.270 4.457 -10.444 4.371 2.022 -0.225 C12 38Y 18 38Y C13 C13 C 0 1 Y N N -13.020 3.546 -9.700 4.776 -0.293 0.237 C13 38Y 19 38Y C14 C14 C 0 1 Y N N -13.643 2.368 -9.269 6.040 -0.186 -0.313 C14 38Y 20 38Y C15 C15 C 0 1 Y N N -15.022 2.205 -9.412 6.472 1.024 -0.823 C15 38Y 21 38Y C16 C16 C 0 1 Y N N -15.871 3.188 -9.957 5.639 2.132 -0.777 C16 38Y 22 38Y O1P O1P O 0 1 N N N -23.340 6.073 -10.284 -7.427 3.338 1.324 O1P 38Y 23 38Y "C2'" "C2'" C 0 1 N N R -17.421 6.339 -12.704 -1.212 -0.226 -0.334 "C2'" 38Y 24 38Y "O2'" "O2'" O 0 1 N N N -16.304 5.529 -12.398 -0.226 0.070 0.682 "O2'" 38Y 25 38Y O2P O2P O 0 1 N N N -23.419 3.542 -10.354 -6.954 3.041 -1.137 O2P 38Y 26 38Y "C3'" "C3'" C 0 1 N N S -18.046 6.534 -11.346 -1.745 1.187 -0.720 "C3'" 38Y 27 38Y "O3'" "O3'" O 0 1 N N N -16.963 6.337 -10.442 -0.735 2.098 -0.255 "O3'" 38Y 28 38Y C33 C33 C 0 1 N N N -12.659 5.734 -12.134 2.650 0.880 2.395 C33 38Y 29 38Y N34 N34 N 0 1 N N N -13.493 5.083 -13.170 1.330 0.645 2.994 N34 38Y 30 38Y O35 O35 O 0 1 N N N -17.215 3.027 -10.088 6.064 3.323 -1.273 O35 38Y 31 38Y C36 C36 C 0 1 N N N -17.832 1.855 -9.519 7.380 3.363 -1.827 C36 38Y 32 38Y C37 C37 C 0 1 N N N -19.315 2.050 -9.698 7.679 4.777 -2.331 C37 38Y 33 38Y O3P O3P O 0 1 N N N -22.123 4.730 -8.538 -5.829 4.976 0.030 O3P 38Y 34 38Y "C4'" "C4'" C 0 1 N N R -19.071 5.403 -11.254 -2.991 1.325 0.187 "C4'" 38Y 35 38Y "O4'" "O4'" O 0 1 N N N -19.173 4.795 -12.558 -3.533 -0.011 0.236 "O4'" 38Y 36 38Y "C5'" "C5'" C 0 1 N N N -20.466 5.903 -10.897 -4.002 2.292 -0.435 "C5'" 38Y 37 38Y "O5'" "O5'" O 0 1 N N N -21.341 4.773 -10.886 -5.088 2.492 0.472 "O5'" 38Y 38 38Y H2 H2 H 0 1 N N N -20.305 4.289 -18.100 -0.067 -5.438 1.341 H2 38Y 39 38Y HN6 HN6 H 0 1 N N N -22.325 8.202 -18.479 -2.599 -7.470 -1.862 HN6 38Y 40 38Y HN6A HN6A H 0 0 N N N -22.694 8.596 -16.938 -3.588 -6.272 -2.501 HN6A 38Y 41 38Y H8 H8 H 0 1 N N N -19.509 8.256 -13.007 -4.273 -1.548 -1.752 H8 38Y 42 38Y "H1'" "H1'" H 0 1 N N N -17.948 4.928 -14.228 -2.189 -1.120 1.382 "H1'" 38Y 43 38Y H10 H10 H 0 1 N N N -12.796 6.478 -10.074 2.157 -0.298 0.660 H10 38Y 44 38Y H12 H12 H 0 1 N N N -15.871 5.224 -10.909 3.721 2.883 -0.188 H12 38Y 45 38Y H14 H14 H 0 1 N N N -13.053 1.581 -8.823 6.691 -1.047 -0.344 H14 38Y 46 38Y H15 H15 H 0 1 N N N -15.462 1.274 -9.087 7.460 1.107 -1.252 H15 38Y 47 38Y HO1P HO1P H 0 0 N N N -24.166 5.894 -10.717 -8.210 3.891 1.192 HO1P 38Y 48 38Y "H2'" "H2'" H 0 1 N N N -17.153 7.296 -13.175 -0.808 -0.790 -1.174 "H2'" 38Y 49 38Y "H3'" "H3'" H 0 1 N N N -18.521 7.521 -11.249 -1.973 1.287 -1.781 "H3'" 38Y 50 38Y H33 H33 H 0 1 N N N -12.344 6.721 -12.504 3.368 0.173 2.810 H33 38Y 51 38Y H33A H33A H 0 0 N N N -11.772 5.110 -11.953 2.973 1.898 2.615 H33A 38Y 52 38Y HN34 HN34 H 0 0 N N N -12.962 4.983 -14.012 0.980 -0.269 2.750 HN34 38Y 53 38Y HN3A HN3A H 0 0 N N N -13.780 4.181 -12.848 1.360 0.765 3.995 HN3A 38Y 54 38Y H36 H36 H 0 1 N N N -17.497 0.950 -10.047 8.106 3.090 -1.061 H36 38Y 55 38Y H36A H36A H 0 0 N N N -17.582 1.770 -8.451 7.447 2.660 -2.658 H36A 38Y 56 38Y H37 H37 H 0 1 N N N -19.852 1.185 -9.282 8.684 4.807 -2.754 H37 38Y 57 38Y H37A H37A H 0 0 N N N -19.631 2.964 -9.173 6.954 5.050 -3.098 H37A 38Y 58 38Y H37B H37B H 0 0 N N N -19.546 2.144 -10.769 7.613 5.480 -1.501 H37B 38Y 59 38Y HO3P HO3P H 0 0 N N N -22.354 3.896 -8.145 -5.413 5.313 0.835 HO3P 38Y 60 38Y "H4'" "H4'" H 0 1 N N N -18.740 4.667 -10.506 -2.705 1.662 1.183 "H4'" 38Y 61 38Y "H5'" "H5'" H 0 1 N N N -20.452 6.376 -9.904 -3.516 3.246 -0.636 "H5'" 38Y 62 38Y "H5'A" "H5'A" H 0 0 N N N -20.806 6.633 -11.646 -4.380 1.872 -1.367 "H5'A" 38Y 63 # 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 38Y "O2'" B SING N N 1 38Y O1 B SING N N 2 38Y B "O3'" SING N N 3 38Y "O5'" P SING N N 4 38Y O2P P DOUB N N 5 38Y O1P P SING N N 6 38Y P O3P SING N N 7 38Y N1 C2 DOUB Y N 8 38Y N1 C6 SING Y N 9 38Y O1 C10 SING N N 10 38Y C2 N3 SING Y N 11 38Y C2 H2 SING N N 12 38Y N3 C4 DOUB Y N 13 38Y C5 C4 SING Y N 14 38Y C4 N9 SING Y N 15 38Y C6 C5 DOUB Y N 16 38Y C5 N7 SING Y N 17 38Y N6 C6 SING N N 18 38Y N6 HN6 SING N N 19 38Y N6 HN6A SING N N 20 38Y N7 C8 DOUB Y N 21 38Y N9 C8 SING Y N 22 38Y C8 H8 SING N N 23 38Y N9 "C1'" SING N N 24 38Y C13 BR SING N N 25 38Y "C1'" "C2'" SING N N 26 38Y "C1'" "O4'" SING N N 27 38Y "C1'" "H1'" SING N N 28 38Y C33 C10 SING N N 29 38Y C10 C11 SING N N 30 38Y C10 H10 SING N N 31 38Y C12 C11 DOUB Y N 32 38Y C11 C13 SING Y N 33 38Y C12 C16 SING Y N 34 38Y C12 H12 SING N N 35 38Y C13 C14 DOUB Y N 36 38Y C15 C14 SING Y N 37 38Y C14 H14 SING N N 38 38Y C16 C15 DOUB Y N 39 38Y C15 H15 SING N N 40 38Y O35 C16 SING N N 41 38Y O1P HO1P SING N N 42 38Y "C2'" "O2'" SING N N 43 38Y "C2'" "C3'" SING N N 44 38Y "C2'" "H2'" SING N N 45 38Y "C3'" "C4'" SING N N 46 38Y "C3'" "O3'" SING N N 47 38Y "C3'" "H3'" SING N N 48 38Y N34 C33 SING N N 49 38Y C33 H33 SING N N 50 38Y C33 H33A SING N N 51 38Y N34 HN34 SING N N 52 38Y N34 HN3A SING N N 53 38Y O35 C36 SING N N 54 38Y C37 C36 SING N N 55 38Y C36 H36 SING N N 56 38Y C36 H36A SING N N 57 38Y C37 H37 SING N N 58 38Y C37 H37A SING N N 59 38Y C37 H37B SING N N 60 38Y O3P HO3P SING N N 61 38Y "O4'" "C4'" SING N N 62 38Y "C4'" "C5'" SING N N 63 38Y "C4'" "H4'" SING N N 64 38Y "C5'" "O5'" SING N N 65 38Y "C5'" "H5'" SING N N 66 38Y "C5'" "H5'A" 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 38Y SMILES ACDLabs 12.01 "Brc1ccc(OCC)cc1C(OB4OC5C(OC(n2c3ncnc(N)c3nc2)C5O4)COP(=O)(O)O)CN" 38Y InChI InChI 1.03 "InChI=1S/C20H25BBrN6O9P/c1-2-32-10-3-4-12(22)11(5-10)13(6-23)35-21-36-16-14(7-33-38(29,30)31)34-20(17(16)37-21)28-9-27-15-18(24)25-8-26-19(15)28/h3-5,8-9,13-14,16-17,20H,2,6-7,23H2,1H3,(H2,24,25,26)(H2,29,30,31)/t13-,14-,16-,17-,20-/m1/s1" 38Y InChIKey InChI 1.03 SFZDVNHRQSVZOB-CDUMDVBJSA-N 38Y SMILES_CANONICAL CACTVS 3.385 "CCOc1ccc(Br)c(c1)[C@@H](CN)OB2O[C@@H]3[C@@H](CO[P](O)(O)=O)O[C@H]([C@@H]3O2)n4cnc5c(N)ncnc45" 38Y SMILES CACTVS 3.385 "CCOc1ccc(Br)c(c1)[CH](CN)OB2O[CH]3[CH](CO[P](O)(O)=O)O[CH]([CH]3O2)n4cnc5c(N)ncnc45" 38Y SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "B1(O[C@@H]2[C@H](O[C@H]([C@@H]2O1)n3cnc4c3ncnc4N)COP(=O)(O)O)O[C@H](CN)c5cc(ccc5Br)OCC" 38Y SMILES "OpenEye OEToolkits" 1.7.6 "B1(OC2C(OC(C2O1)n3cnc4c3ncnc4N)COP(=O)(O)O)OC(CN)c5cc(ccc5Br)OCC" # 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 38Y "SYSTEMATIC NAME" ACDLabs 12.01 "[(3aS,4R,6R,6aR)-2-[(1S)-2-amino-1-(2-bromo-5-ethoxyphenyl)ethoxy]-6-(6-amino-9H-purin-9-yl)tetrahydrofuro[3,4-d][1,3,2]dioxaborol-4-yl]methyl dihydrogen phosphate" 38Y "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(3aR,4R,6R,6aS)-4-(6-aminopurin-9-yl)-2-[(1S)-2-azanyl-1-(2-bromanyl-5-ethoxy-phenyl)ethoxy]-3a,4,6,6a-tetrahydrofuro[3,4-d][1,3,2]dioxaborol-6-yl]methyl 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 38Y "Create component" 2015-02-03 EBI 38Y "Other modification" 2015-06-18 EBI 38Y "Initial release" 2016-03-09 RCSB #