data_JLN # _chem_comp.id JLN _chem_comp.name "5-(FORMYLAMINO)-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-1H-IMIDAZOLE-4-CARBOXYLIC ACID" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H14 N3 O10 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-09-02 _chem_comp.pdbx_modified_date 2023-09-23 _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 367.206 _chem_comp.one_letter_code ? _chem_comp.three_letter_code JLN _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 3ZZM _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 JLN P P P 0 1 N N N 74.205 124.847 -5.524 4.856 -1.074 -0.167 P JLN 1 JLN O3P O3P O 0 1 N Y N 75.342 124.198 -4.865 4.667 -1.906 1.042 O3P JLN 2 JLN O1P O1P O 0 1 N N N 73.855 126.158 -4.958 5.185 -2.023 -1.425 O1P JLN 3 JLN "O5'" "O5'" O 0 1 N N N 72.923 123.957 -5.215 3.510 -0.242 -0.461 "O5'" JLN 4 JLN O2P O2P O 0 1 N N N 74.227 124.888 -6.974 6.078 -0.053 0.069 O2P JLN 5 JLN "C5'" "C5'" C 0 1 N N N 72.783 122.545 -5.178 2.896 0.613 0.507 "C5'" JLN 6 JLN "C4'" "C4'" C 0 1 N N R 72.060 122.111 -3.934 1.642 1.247 -0.096 "C4'" JLN 7 JLN "O4'" "O4'" O 0 1 N N N 70.776 122.857 -3.875 0.651 0.235 -0.342 "O4'" JLN 8 JLN "C1'" "C1'" C 0 1 N N R 69.661 121.819 -3.919 -0.638 0.842 -0.112 "C1'" JLN 9 JLN N1 N1 N 0 1 Y N N 68.437 122.561 -4.250 -1.649 -0.182 0.162 N1 JLN 10 JLN C5 C5 C 0 1 Y N N 67.434 122.940 -3.428 -2.989 -0.071 -0.066 C5 JLN 11 JLN N5 N5 N 0 1 N N N 67.464 122.661 -2.086 -3.652 1.022 -0.598 N5 JLN 12 JLN C7 C7 C 0 1 N N N 66.894 123.403 -1.214 -3.360 1.448 -1.842 C7 JLN 13 JLN O7 O7 O 0 1 N N N 66.301 122.855 -0.351 -2.583 0.822 -2.531 O7 JLN 14 JLN C6 C6 C 0 1 N N N 65.162 124.346 -4.070 -4.976 -1.622 0.285 C6 JLN 15 JLN O6B O6B O 0 1 N N N 64.595 124.928 -5.120 -5.388 -2.832 0.716 O6B JLN 16 JLN C4 C4 C 0 1 Y N N 66.538 123.628 -4.306 -3.555 -1.271 0.339 C4 JLN 17 JLN N3 N3 N 0 1 Y N N 67.049 123.603 -5.554 -2.545 -2.060 0.795 N3 JLN 18 JLN C2 C2 C 0 1 Y N N 68.136 122.990 -5.587 -1.420 -1.419 0.684 C2 JLN 19 JLN "C2'" "C2'" C 0 1 N N R 70.171 120.758 -4.867 -0.404 1.726 1.139 "C2'" JLN 20 JLN "O2'" "O2'" O 0 1 N N N 69.618 119.676 -4.493 -1.341 2.804 1.185 "O2'" JLN 21 JLN "C3'" "C3'" C 0 1 N N S 71.699 120.660 -4.401 1.032 2.252 0.900 "C3'" JLN 22 JLN O6A O6A O 0 1 N N N 64.652 124.320 -2.873 -5.785 -0.823 -0.147 O6A JLN 23 JLN "O3'" "O3'" O 0 1 N N N 71.915 119.970 -3.262 0.997 3.562 0.331 "O3'" JLN 24 JLN H1P H1P H 0 1 N N N 74.445 126.362 -4.242 5.985 -2.556 -1.318 H1P JLN 25 JLN "H5'1" "H5'1" H 0 0 N N N 72.213 122.216 -6.059 2.622 0.029 1.385 "H5'1" JLN 26 JLN "H5'2" "H5'2" H 0 0 N N N 73.781 122.083 -5.194 3.597 1.396 0.796 "H5'2" JLN 27 JLN "H4'" "H4'" H 0 1 N N N 72.662 122.144 -3.014 1.894 1.753 -1.028 "H4'" JLN 28 JLN "H3'" "H3'" H 0 1 N N N 72.336 120.352 -5.244 1.597 2.256 1.832 "H3'" JLN 29 JLN "H1'" "H1'" H 0 1 N N N 69.557 121.376 -2.918 -0.933 1.452 -0.966 "H1'" JLN 30 JLN "H2'" "H2'" H 0 1 N N N 70.083 121.043 -5.926 -0.454 1.131 2.051 "H2'" JLN 31 JLN H2 H2 H 0 1 N N N 68.741 122.814 -6.464 -0.452 -1.807 0.967 H2 JLN 32 JLN H5 H5 H 0 1 N N N 67.951 121.844 -1.776 -4.327 1.481 -0.074 H5 JLN 33 JLN H7 H7 H 0 1 N N N 66.952 124.480 -1.264 -3.819 2.347 -2.227 H7 JLN 34 JLN H6B H6B H 0 1 N N N 63.768 125.317 -4.859 -6.335 -3.019 0.661 H6B JLN 35 JLN HA HA H 0 1 N N N 69.901 118.964 -5.055 -1.235 3.386 1.950 HA JLN 36 JLN H2P H2P H 0 1 N N N 75.017 124.466 -7.291 6.259 0.525 -0.684 H2P JLN 37 JLN H3O H3O H 0 1 N N N 71.729 119.050 -3.408 0.622 4.235 0.916 H3O JLN 38 # 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 JLN P O1P SING N N 1 JLN P O2P SING N N 2 JLN P "O5'" SING N N 3 JLN P O3P DOUB N N 4 JLN "O5'" "C5'" SING N N 5 JLN "C5'" "C4'" SING N N 6 JLN "C4'" "O4'" SING N N 7 JLN "C4'" "C3'" SING N N 8 JLN "O4'" "C1'" SING N N 9 JLN "C1'" N1 SING N N 10 JLN "C1'" "C2'" SING N N 11 JLN N1 C5 SING Y N 12 JLN N1 C2 SING Y N 13 JLN C5 N5 SING N N 14 JLN C5 C4 DOUB Y N 15 JLN N5 C7 SING N N 16 JLN C7 O7 DOUB N N 17 JLN C6 O6B SING N N 18 JLN C6 C4 SING N N 19 JLN C6 O6A DOUB N N 20 JLN C4 N3 SING Y N 21 JLN N3 C2 DOUB Y N 22 JLN "C2'" "O2'" SING N N 23 JLN "C2'" "C3'" SING N N 24 JLN O1P H1P SING N N 25 JLN O2P H2P SING N N 26 JLN "C5'" "H5'1" SING N N 27 JLN "C5'" "H5'2" SING N N 28 JLN "C4'" "H4'" SING N N 29 JLN "C3'" "H3'" SING N N 30 JLN "C1'" "H1'" SING N N 31 JLN "C2'" "H2'" SING N N 32 JLN C2 H2 SING N N 33 JLN N5 H5 SING N N 34 JLN C7 H7 SING N N 35 JLN O6B H6B SING N N 36 JLN "O2'" HA SING N N 37 JLN "C3'" "O3'" SING N N 38 JLN H3O "O3'" SING N N 39 # 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 JLN InChI InChI 1.06 "InChI=1S/C10H14N3O10P/c14-3-12-8-5(10(17)18)11-2-13(8)9-7(16)6(15)4(23-9)1-22-24(19,20)21/h2-4,6-7,9,15-16H,1H2,(H,12,14)(H,17,18)(H2,19,20,21)/t4-,6-,7-,9-/m1/s1" JLN InChIKey InChI 1.06 UEBVPQPUWAADHX-FJGDRVTGSA-N JLN SMILES_CANONICAL CACTVS 3.385 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)n2cnc(C(O)=O)c2NC=O" JLN SMILES CACTVS 3.385 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)n2cnc(C(O)=O)c2NC=O" JLN SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c(n1[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)NC=O)C(=O)O" JLN SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c(n1C2C(C(C(O2)COP(=O)(O)O)O)O)NC=O)C(=O)O" # _pdbx_chem_comp_identifier.comp_id JLN _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 "1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-5-formamido-imidazole-4-carboxylic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site JLN "Create component" 2011-09-02 EBI JLN "Other modification" 2011-09-09 EBI JLN "Modify descriptor" 2023-09-23 RCSB #