data_YC9
# 
_chem_comp.id                                    YC9 
_chem_comp.name                                  "[(3R)-4-hydroxy-3-{[(4-oxo-4,5-dihydro-3H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]amino}butyl]phosphonic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H17 N4 O5 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-01-24 
_chem_comp.pdbx_modified_date                    2023-07-14 
_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                        316.250 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YC9 
_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        8FX0 
_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 
YC9 C10  C1  C 0 1 N N N 0.484  108.965 102.697 2.646  1.043  -0.155 C10  YC9 1  
YC9 C01  C2  C 0 1 N N N -2.668 104.425 106.127 -4.950 -0.830 0.661  C01  YC9 2  
YC9 C02  C3  C 0 1 Y N N -2.341 105.673 105.367 -3.799 -0.976 -0.140 C02  YC9 3  
YC9 C03  C4  C 0 1 Y N N -1.709 106.707 106.005 -2.957 0.129  -0.307 C03  YC9 4  
YC9 C04  C5  C 0 1 Y N N -1.549 107.708 105.049 -1.900 -0.292 -1.143 C04  YC9 5  
YC9 C05  C6  C 0 1 Y N N -2.106 107.181 103.888 -2.111 -1.588 -1.454 C05  YC9 6  
YC9 C07  C7  C 0 1 N N N -0.901 109.092 105.248 -0.743 0.555  -1.605 C07  YC9 7  
YC9 C09  C8  C 0 1 N N R 1.324  109.264 103.957 1.407  1.457  -0.951 C09  YC9 8  
YC9 C11  C9  C 0 1 N N N 1.304  108.676 101.448 3.026  -0.395 -0.514 C11  YC9 9  
YC9 C16  C10 C 0 1 N N N 2.704  108.547 103.951 1.101  2.933  -0.688 C16  YC9 10 
YC9 C19  C11 C 0 1 N N N -1.696 105.355 108.153 -4.334 1.410  1.036  C19  YC9 11 
YC9 N06  N1  N 0 1 Y N N -2.554 105.977 104.112 -3.256 -2.017 -0.856 N06  YC9 12 
YC9 N08  N2  N 0 1 N N N 0.571  109.062 105.212 0.261  0.637  -0.536 N08  YC9 13 
YC9 N18  N3  N 0 1 N N N -1.371 106.567 107.423 -3.266 1.299  0.301  N18  YC9 14 
YC9 N20  N4  N 0 1 N N N -2.348 104.276 107.475 -5.187 0.371  1.232  N20  YC9 15 
YC9 O13  O1  O 0 1 N N N 0.920  108.277 98.968  4.250  -0.687 1.880  O13  YC9 16 
YC9 O14  O2  O 0 1 N N N 0.407  110.473 99.671  4.825  -2.441 0.158  O14  YC9 17 
YC9 O15  O3  O 0 1 N N N -1.131 108.876 100.237 5.758  0.011  -0.021 O15  YC9 18 
YC9 O17  O4  O 0 1 N N N 3.242  108.645 105.253 0.972  3.148  0.719  O17  YC9 19 
YC9 O21  O5  O 0 1 N N N -3.189 103.571 105.588 -5.716 -1.764 0.831  O21  YC9 20 
YC9 P12  P1  P 0 1 N N N 0.286  109.056 99.974  4.503  -0.888 0.435  P12  YC9 21 
YC9 H101 H1  H 0 0 N N N -0.155 109.837 102.495 3.474  1.709  -0.399 H101 YC9 22 
YC9 H102 H2  H 0 0 N N N -0.147 108.088 102.905 2.431  1.107  0.911  H102 YC9 23 
YC9 H051 H3  H 0 0 N N N -2.160 107.694 102.939 -1.471 -2.190 -2.082 H051 YC9 24 
YC9 H072 H4  H 0 0 N N N -1.255 109.760 104.449 -0.294 0.105  -2.490 H072 YC9 25 
YC9 H071 H5  H 0 0 N N N -1.217 109.487 106.224 -1.099 1.556  -1.847 H071 YC9 26 
YC9 H091 H6  H 0 0 N N N 1.554  110.339 103.908 1.593  1.309  -2.015 H091 YC9 27 
YC9 H112 H7  H 0 0 N N N 1.594  107.615 101.433 2.198  -1.061 -0.270 H112 YC9 28 
YC9 H111 H8  H 0 0 N N N 2.207  109.304 101.445 3.242  -0.458 -1.580 H111 YC9 29 
YC9 H162 H9  H 0 0 N N N 2.576  107.489 103.677 1.912  3.547  -1.077 H162 YC9 30 
YC9 H161 H10 H 0 0 N N N 3.377  109.034 103.230 0.169  3.204  -1.184 H161 YC9 31 
YC9 H191 H11 H 0 0 N N N -1.448 105.268 109.200 -4.549 2.359  1.505  H191 YC9 32 
YC9 H1   H12 H 0 1 N N N -2.989 105.383 103.435 -3.628 -2.911 -0.924 H1   YC9 33 
YC9 H2   H13 H 0 1 N N N 0.842  108.165 105.561 0.560  -0.283 -0.249 H2   YC9 34 
YC9 H201 H15 H 0 0 N N N -2.570 103.430 107.960 -5.973 0.493  1.788  H201 YC9 35 
YC9 H3   H16 H 0 1 N N N 0.887  110.584 98.859  5.600  -2.772 0.632  H3   YC9 36 
YC9 H4   H17 H 0 1 N N N -1.479 108.209 99.657  5.981  -0.071 -0.958 H4   YC9 37 
YC9 H171 H18 H 0 0 N N N 4.088  108.214 105.280 0.777  4.064  0.960  H171 YC9 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 
YC9 O13 P12  DOUB N N 1  
YC9 O14 P12  SING N N 2  
YC9 P12 O15  SING N N 3  
YC9 P12 C11  SING N N 4  
YC9 C11 C10  SING N N 5  
YC9 C10 C09  SING N N 6  
YC9 C05 N06  SING Y N 7  
YC9 C05 C04  DOUB Y N 8  
YC9 C16 C09  SING N N 9  
YC9 C16 O17  SING N N 10 
YC9 C09 N08  SING N N 11 
YC9 N06 C02  SING Y N 12 
YC9 C04 C07  SING N N 13 
YC9 C04 C03  SING Y N 14 
YC9 N08 C07  SING N N 15 
YC9 C02 C03  DOUB Y N 16 
YC9 C02 C01  SING N N 17 
YC9 O21 C01  DOUB N N 18 
YC9 C03 N18  SING N N 19 
YC9 C01 N20  SING N N 20 
YC9 N18 C19  DOUB N N 21 
YC9 N20 C19  SING N N 22 
YC9 C10 H101 SING N N 23 
YC9 C10 H102 SING N N 24 
YC9 C05 H051 SING N N 25 
YC9 C07 H072 SING N N 26 
YC9 C07 H071 SING N N 27 
YC9 C09 H091 SING N N 28 
YC9 C11 H112 SING N N 29 
YC9 C11 H111 SING N N 30 
YC9 C16 H162 SING N N 31 
YC9 C16 H161 SING N N 32 
YC9 C19 H191 SING N N 33 
YC9 N06 H1   SING N N 34 
YC9 N08 H2   SING N N 35 
YC9 N20 H201 SING N N 36 
YC9 O14 H3   SING N N 37 
YC9 O15 H4   SING N N 38 
YC9 O17 H171 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 
YC9 SMILES           ACDLabs              12.01 "O=P(O)(O)CCC(CO)NCc1c[NH]c2c1N=CNC2=O"                                                                                                         
YC9 InChI            InChI                1.06  "InChI=1S/C11H17N4O5P/c16-5-8(1-2-21(18,19)20)12-3-7-4-13-10-9(7)14-6-15-11(10)17/h4,6,8,12-13,16H,1-3,5H2,(H,14,15,17)(H2,18,19,20)/t8-/m1/s1" 
YC9 InChIKey         InChI                1.06  YYXVNWBGVIIBOW-MRVPVSSYSA-N                                                                                                                     
YC9 SMILES_CANONICAL CACTVS               3.385 "OC[C@@H](CC[P](O)(O)=O)NCc1c[nH]c2C(=O)NC=Nc12"                                                                                                
YC9 SMILES           CACTVS               3.385 "OC[CH](CC[P](O)(O)=O)NCc1c[nH]c2C(=O)NC=Nc12"                                                                                                  
YC9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(c2c([nH]1)C(=O)NC=N2)CN[C@H](CCP(=O)(O)O)CO"                                                                                               
YC9 SMILES           "OpenEye OEToolkits" 2.0.7 "c1c(c2c([nH]1)C(=O)NC=N2)CNC(CCP(=O)(O)O)CO"                                                                                                   
# 
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 
YC9 "SYSTEMATIC NAME" ACDLabs              12.01 "[(3R)-4-hydroxy-3-{[(4-oxo-4,5-dihydro-3H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]amino}butyl]phosphonic acid"         
YC9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(3~{R})-4-oxidanyl-3-[(4-oxidanylidene-3,5-dihydropyrrolo[3,2-d]pyrimidin-7-yl)methylamino]butyl]phosphonic 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 
YC9 "Create component" 2023-01-24 RCSB 
YC9 "Initial release"  2023-07-19 RCSB 
# 
