data_HJL # _chem_comp.id HJL _chem_comp.name "[(2~{R},3~{S},4~{S})-5-[[2,5-bis(azanyl)-6-oxidanylidene-1~{H}-pyrimidin-4-yl]amino]-2,3,4-tris(oxidanyl)pentyl] dihydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H18 N5 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-01-14 _chem_comp.pdbx_modified_date 2021-07-09 _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 355.242 _chem_comp.one_letter_code ? _chem_comp.three_letter_code HJL _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 7DS1 _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 HJL C2 C1 C 0 1 N N N -9.966 25.240 -5.390 -5.367 -1.681 -0.280 C2 HJL 1 HJL C4 C2 C 0 1 N N N -9.299 23.102 -4.805 -6.306 0.387 0.157 C4 HJL 2 HJL C5 C3 C 0 1 N N N -10.647 22.682 -4.822 -5.021 0.963 0.260 C5 HJL 3 HJL C6 C4 C 0 1 N N N -11.624 23.604 -5.116 -3.926 0.163 0.084 C6 HJL 4 HJL N1 N1 N 0 1 N N N -11.239 24.897 -5.392 -4.111 -1.169 -0.189 N1 HJL 5 HJL N2 N2 N 0 1 N N N -9.603 26.630 -5.691 -5.531 -3.016 -0.546 N2 HJL 6 HJL N3 N3 N 0 1 N N N -8.981 24.369 -5.085 -6.428 -0.922 -0.111 N3 HJL 7 HJL N5 N4 N 0 1 N N N -10.998 21.341 -4.538 -4.870 2.337 0.541 N5 HJL 8 HJL O4 O1 O 0 1 N N N -8.403 22.301 -4.535 -7.304 1.079 0.311 O4 HJL 9 HJL "C1'" C5 C 0 1 N N N -14.076 24.179 -4.662 -1.487 -0.177 -0.015 "C1'" HJL 10 HJL "C2'" C6 C 0 1 N N S -15.464 23.519 -4.546 -0.207 0.648 0.139 "C2'" HJL 11 HJL "C3'" C7 C 0 1 N N S -15.420 22.382 -3.492 1.010 -0.257 -0.060 "C3'" HJL 12 HJL "C4'" C8 C 0 1 N N R -16.897 21.957 -3.175 2.289 0.569 0.094 "C4'" HJL 13 HJL "C5'" C9 C 0 1 N N N -16.939 20.616 -2.394 3.507 -0.336 -0.106 "C5'" HJL 14 HJL "N1'" N5 N 0 1 N N N -13.048 23.206 -5.128 -2.652 0.689 0.176 "N1'" HJL 15 HJL O1P O2 O 0 1 N N N -14.058 20.137 -1.679 6.351 -0.823 -1.307 O1P HJL 16 HJL "O2'" O3 O 0 1 N N N -16.408 24.463 -4.156 -0.192 1.690 -0.838 "O2'" HJL 17 HJL O2P O4 O 0 1 N N N -14.685 20.485 0.796 6.350 -1.377 1.156 O2P HJL 18 HJL "O3'" O5 O 0 1 N N N -14.684 21.317 -4.031 0.995 -1.299 0.917 "O3'" HJL 19 HJL O3P O6 O 0 1 N N N -15.455 18.584 -0.743 7.276 0.918 0.268 O3P HJL 20 HJL "O4'" O7 O 0 1 N N N -17.524 22.911 -2.404 2.305 1.611 -0.884 "O4'" HJL 21 HJL "O5'" O8 O 0 1 N N N -16.346 20.879 -1.116 4.700 0.407 0.152 "O5'" HJL 22 HJL PAN P1 P 0 1 N N N -15.090 19.996 -0.696 6.173 -0.232 0.038 PAN HJL 23 HJL H1 H1 H 0 1 N N N -8.644 26.913 -5.667 -6.423 -3.392 -0.609 H1 HJL 24 HJL H2 H2 H 0 1 N N N -10.315 27.294 -5.920 -4.755 -3.585 -0.672 H2 HJL 25 HJL H4 H4 H 0 1 N N N -10.171 20.813 -4.348 -5.653 2.896 0.665 H4 HJL 26 HJL H5 H5 H 0 1 N N N -11.600 21.316 -3.740 -3.983 2.724 0.610 H5 HJL 27 HJL H6 H6 H 0 1 N N N -13.781 24.567 -3.676 -1.519 -0.614 -1.013 H6 HJL 28 HJL H7 H7 H 0 1 N N N -14.134 25.010 -5.380 -1.498 -0.972 0.731 H7 HJL 29 HJL H8 H8 H 0 1 N N N -15.729 23.082 -5.520 -0.175 1.085 1.137 H8 HJL 30 HJL H9 H9 H 0 1 N N N -14.954 22.762 -2.571 0.978 -0.694 -1.058 H9 HJL 31 HJL H10 H10 H 0 1 N N N -17.426 21.818 -4.130 2.322 1.006 1.092 H10 HJL 32 HJL H11 H11 H 0 1 N N N -17.979 20.279 -2.270 3.449 -1.180 0.581 H11 HJL 33 HJL H12 H12 H 0 1 N N N -16.365 19.845 -2.929 3.523 -0.703 -1.132 H12 HJL 34 HJL H13 H13 H 0 1 N N N -13.277 22.967 -6.072 -2.530 1.632 0.368 H13 HJL 35 HJL H14 H14 H 0 1 N N N -17.260 24.049 -4.087 -0.219 1.373 -1.751 H14 HJL 36 HJL H15 H15 H 0 1 N N N -13.790 20.804 0.793 6.247 -1.060 2.063 H15 HJL 37 HJL H16 H16 H 0 1 N N N -14.365 20.764 -3.328 1.022 -0.982 1.830 H16 HJL 38 HJL H17 H17 H 0 1 N N N -14.926 18.141 -1.396 8.189 0.604 0.213 H17 HJL 39 HJL H18 H18 H 0 1 N N N -18.415 22.637 -2.223 2.278 1.294 -1.797 H18 HJL 40 HJL H3 H3 H 0 1 N N N -11.935 25.585 -5.597 -3.343 -1.747 -0.317 H3 HJL 41 # # 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 HJL N2 C2 SING N N 1 HJL N1 C2 SING N N 2 HJL N1 C6 SING N N 3 HJL C2 N3 DOUB N N 4 HJL "N1'" C6 SING N N 5 HJL "N1'" "C1'" SING N N 6 HJL C6 C5 DOUB N N 7 HJL N3 C4 SING N N 8 HJL C5 C4 SING N N 9 HJL C5 N5 SING N N 10 HJL C4 O4 DOUB N N 11 HJL "C1'" "C2'" SING N N 12 HJL "C2'" "O2'" SING N N 13 HJL "C2'" "C3'" SING N N 14 HJL "O3'" "C3'" SING N N 15 HJL "C3'" "C4'" SING N N 16 HJL "C4'" "O4'" SING N N 17 HJL "C4'" "C5'" SING N N 18 HJL "C5'" "O5'" SING N N 19 HJL O1P PAN DOUB N N 20 HJL "O5'" PAN SING N N 21 HJL O3P PAN SING N N 22 HJL PAN O2P SING N N 23 HJL N2 H1 SING N N 24 HJL N2 H2 SING N N 25 HJL N5 H4 SING N N 26 HJL N5 H5 SING N N 27 HJL "C1'" H6 SING N N 28 HJL "C1'" H7 SING N N 29 HJL "C2'" H8 SING N N 30 HJL "C3'" H9 SING N N 31 HJL "C4'" H10 SING N N 32 HJL "C5'" H11 SING N N 33 HJL "C5'" H12 SING N N 34 HJL "N1'" H13 SING N N 35 HJL "O2'" H14 SING N N 36 HJL O2P H15 SING N N 37 HJL "O3'" H16 SING N N 38 HJL O3P H17 SING N N 39 HJL "O4'" H18 SING N N 40 HJL N1 H3 SING N N 41 # # 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 HJL InChI InChI 1.03 "InChI=1S/C9H18N5O8P/c10-5-7(13-9(11)14-8(5)18)12-1-3(15)6(17)4(16)2-22-23(19,20)21/h3-4,6,15-17H,1-2,10H2,(H2,19,20,21)(H4,11,12,13,14,18)/t3-,4+,6-/m0/s1" HJL InChIKey InChI 1.03 ACIVVGBVOVHFPQ-RPDRRWSUSA-N HJL SMILES_CANONICAL CACTVS 3.385 "NC1=NC(=O)C(=C(NC[C@H](O)[C@H](O)[C@H](O)CO[P](O)(O)=O)N1)N" HJL SMILES CACTVS 3.385 "NC1=NC(=O)C(=C(NC[CH](O)[CH](O)[CH](O)CO[P](O)(O)=O)N1)N" HJL SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C([C@@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O)NC1=C(C(=O)N=C(N1)N)N" HJL SMILES "OpenEye OEToolkits" 2.0.7 "C(C(C(C(COP(=O)(O)O)O)O)O)NC1=C(C(=O)N=C(N1)N)N" # _pdbx_chem_comp_identifier.comp_id HJL _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[(2~{R},3~{S},4~{S})-5-[[2,5-bis(azanyl)-4-oxidanylidene-1~{H}-pyrimidin-6-yl]amino]-2,3,4-tris(oxidanyl)pentyl] 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 HJL "Create component" 2021-01-14 PDBJ HJL "Initial release" 2021-07-14 RCSB ##