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 
# 
