data_S8U
# 
_chem_comp.id                                    S8U 
_chem_comp.name                                  "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-pyrrole-2-carbaldehyde" 
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C10 H14 N O7 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-06-27 
_chem_comp.pdbx_modified_date                    2023-01-27 
_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                        291.194 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     S8U 
_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        8DH3 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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 
S8U C12   C1  C 0 1 Y N N 29.165 31.813 -37.224 4.028  -0.785 0.231  C12   S8U 1  
S8U C13   C2  C 0 1 N N N 27.790 32.384 -37.554 4.779  0.051  1.088  C13   S8U 2  
S8U "C1'" C3  C 0 1 N N R 29.707 30.805 -39.336 1.796  0.387  0.447  "C1'" S8U 3  
S8U C15   C4  C 0 1 Y N N 29.826 31.922 -35.981 4.500  -1.889 -0.458 C15   S8U 4  
S8U C16   C5  C 0 1 Y N N 31.025 31.286 -36.083 3.423  -2.411 -1.177 C16   S8U 5  
S8U C17   C6  C 0 1 Y N N 31.132 30.779 -37.374 2.338  -1.638 -0.922 C17   S8U 6  
S8U "C2'" C7  C 0 1 N N N 30.868 31.307 -40.263 1.908  1.653  -0.424 "C2'" S8U 7  
S8U "C3'" C8  C 0 1 N N S 30.753 30.609 -41.256 0.467  1.890  -0.938 "C3'" S8U 8  
S8U "C4'" C9  C 0 1 N N R 30.181 29.138 -40.719 -0.379 1.101  0.094  "C4'" S8U 9  
S8U "C5'" C10 C 0 1 N N N 31.310 28.134 -40.674 -1.720 0.687  -0.514 "C5'" S8U 10 
S8U N11   N1  N 0 1 Y N N 29.973 31.113 -38.065 2.688  -0.654 -0.069 N11   S8U 11 
S8U O14   O1  O 0 1 N N N 27.663 33.189 -38.387 4.246  0.994  1.638  O14   S8U 12 
S8U "O3'" O2  O 0 1 N N N 29.757 31.261 -42.158 0.137  3.280  -0.912 "O3'" S8U 13 
S8U "O4'" O3  O 0 1 N N N 29.702 29.309 -39.557 0.432  -0.062 0.380  "O4'" S8U 14 
S8U "O5'" O4  O 0 1 N N N 31.815 28.060 -39.380 -2.526 0.065  0.490  "O5'" S8U 15 
S8U OP1   O5  O 0 1 N N N 33.649 29.897 -39.441 -4.841 0.584  -0.373 OP1   S8U 16 
S8U OP2   O6  O 0 1 N Y N 33.787 28.156 -37.722 -3.924 -1.721 -0.840 OP2   S8U 17 
S8U P     P1  P 0 1 N N N 33.383 28.463 -39.119 -4.007 -0.496 0.201  P     S8U 18 
S8U H1    H1  H 0 1 N N N 26.924 32.038 -37.009 5.827  -0.149 1.255  H1    S8U 19 
S8U H2    H2  H 0 1 N N N 28.757 31.236 -39.685 2.058  0.622  1.478  H2    S8U 20 
S8U H3    H3  H 0 1 N N N 29.446 32.423 -35.103 5.509  -2.273 -0.442 H3    S8U 21 
S8U H4    H4  H 0 1 N N N 31.763 31.192 -35.300 3.450  -3.277 -1.821 H4    S8U 22 
S8U H5    H5  H 0 1 N N N 31.969 30.223 -37.770 1.351  -1.788 -1.334 H5    S8U 23 
S8U H6    H6  H 0 1 N N N 31.847 31.156 -39.786 2.244  2.499  0.174  H6    S8U 24 
S8U H7    H7  H 0 1 N N N 30.742 32.371 -40.512 2.590  1.482  -1.258 H7    S8U 25 
S8U H8    H8  H 0 1 N N N 31.691 30.427 -41.801 0.340  1.479  -1.940 H8    S8U 26 
S8U H9    H9  H 0 1 N N N 29.428 28.798 -41.445 -0.534 1.693  0.996  H9    S8U 27 
S8U H10   H10 H 0 1 N N N 30.934 27.146 -40.978 -2.234 1.569  -0.897 H10   S8U 28 
S8U H11   H11 H 0 1 N N N 32.109 28.450 -41.362 -1.549 -0.016 -1.329 H11   S8U 29 
S8U H12   H12 H 0 1 N N N 30.097 32.097 -42.455 0.641  3.815  -1.541 H12   S8U 30 
S8U H14   H14 H 0 1 N N N 34.135 28.940 -37.313 -3.392 -2.466 -0.529 H14   S8U 31 
S8U OP3   OP3 O 0 1 N N N 34.210 27.532 -40.134 -4.665 -1.007 1.579  OP3   S8U 32 
S8U H13   H13 H 0 1 N N N 34.702 28.078 -40.736 -5.560 -1.359 1.481  H13   S8U 33 
# 
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 
S8U "O3'" "C3'" SING N N 1  
S8U "C3'" "C4'" SING N N 2  
S8U "C3'" "C2'" SING N N 3  
S8U "C4'" "C5'" SING N N 4  
S8U "C4'" "O4'" SING N N 5  
S8U "C5'" "O5'" SING N N 6  
S8U "C2'" "C1'" SING N N 7  
S8U "O4'" "C1'" SING N N 8  
S8U OP1   P     DOUB N N 9  
S8U "O5'" P     SING N N 10 
S8U "C1'" N11   SING N N 11 
S8U P     OP2   SING N N 12 
S8U O14   C13   DOUB N N 13 
S8U N11   C17   SING Y N 14 
S8U N11   C12   SING Y N 15 
S8U C13   C12   SING N N 16 
S8U C17   C16   DOUB Y N 17 
S8U C12   C15   DOUB Y N 18 
S8U C16   C15   SING Y N 19 
S8U C13   H1    SING N N 20 
S8U "C1'" H2    SING N N 21 
S8U C15   H3    SING N N 22 
S8U C16   H4    SING N N 23 
S8U C17   H5    SING N N 24 
S8U "C2'" H6    SING N N 25 
S8U "C2'" H7    SING N N 26 
S8U "C3'" H8    SING N N 27 
S8U "C4'" H9    SING N N 28 
S8U "C5'" H10   SING N N 29 
S8U "C5'" H11   SING N N 30 
S8U "O3'" H12   SING N N 31 
S8U OP2   H14   SING N N 32 
S8U P     OP3   SING N N 33 
S8U OP3   H13   SING N N 34 
# 
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 
S8U SMILES           ACDLabs              12.01 "O=P(O)(O)OCC1OC(CC1O)n1cccc1C=O"                                                                                                
S8U InChI            InChI                1.06  "InChI=1S/C10H14NO7P/c12-5-7-2-1-3-11(7)10-4-8(13)9(18-10)6-17-19(14,15)16/h1-3,5,8-10,13H,4,6H2,(H2,14,15,16)/t8-,9+,10+/m0/s1" 
S8U InChIKey         InChI                1.06  YMLCJIMQBIRZRA-IVZWLZJFSA-N                                                                                                      
S8U SMILES_CANONICAL CACTVS               3.385 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)n2cccc2C=O"                                                                                
S8U SMILES           CACTVS               3.385 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)n2cccc2C=O"                                                                                     
S8U SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(n(c1)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)C=O"                                                                             
S8U SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc(n(c1)C2CC(C(O2)COP(=O)(O)O)O)C=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 
S8U "SYSTEMATIC NAME" ACDLabs              12.01 "1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-1H-pyrrole-2-carbaldehyde"                  
S8U "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},5~{R})-5-(2-methanoylpyrrol-1-yl)-3-oxidanyl-oxolan-2-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 
S8U "Create component" 2022-06-27 RCSB 
S8U "Initial release"  2023-02-01 RCSB 
# 
