data_B5Y
# 
_chem_comp.id                                    B5Y 
_chem_comp.name                                  "9-(5-O-{(S)-hydroxy[(2-hydroxy-5-methylbenzene-1-carbonyl)oxy]phosphoryl}-alpha-L-lyxofuranosyl)-9H-purin-6-amine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H20 N5 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2017-08-01 
_chem_comp.pdbx_modified_date                    2018-05-18 
_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                        481.353 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     B5Y 
_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        5WM5 
_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 
B5Y C13 C1  C 0 1 N N S -13.535 59.194 0.919  1.404  1.718  -0.855 C13 B5Y 1  
B5Y C20 C2  C 0 1 Y N N -8.933  57.027 2.510  -4.943 -2.054 -0.217 C20 B5Y 2  
B5Y C21 C3  C 0 1 Y N N -7.682  56.822 1.954  -5.749 -3.168 -0.294 C21 B5Y 3  
B5Y C22 C4  C 0 1 Y N N -7.368  55.617 1.346  -7.112 -3.062 -0.073 C22 B5Y 4  
B5Y C24 C5  C 0 1 Y N N -9.577  54.839 1.847  -6.881 -0.707 0.315  C24 B5Y 5  
B5Y C26 C6  C 0 1 N N N -6.644  57.929 2.024  -5.145 -4.510 -0.621 C26 B5Y 6  
B5Y C02 C7  C 0 1 Y N N -8.376  63.347 1.100  6.501  -2.773 0.128  C02 B5Y 7  
B5Y C03 C8  C 0 1 Y N N -9.331  62.285 1.234  5.304  -2.084 -0.135 C03 B5Y 8  
B5Y C05 C9  C 0 1 Y N N -10.423 60.411 1.400  3.352  -1.361 -0.742 C05 B5Y 9  
B5Y C07 C10 C 0 1 Y N N -10.662 62.594 1.358  5.164  -0.781 0.372  C07 B5Y 10 
B5Y C09 C11 C 0 1 Y N N -10.112 64.861 1.242  7.262  -0.934 1.298  C09 B5Y 11 
B5Y C11 C12 C 0 1 N N R -12.776 61.182 1.675  3.324  0.954  0.262  C11 B5Y 12 
B5Y C14 C13 C 0 1 N N N -14.651 58.213 1.276  0.072  2.347  -0.440 C14 B5Y 13 
B5Y C18 C14 C 0 1 N N N -11.278 56.328 3.097  -4.643 0.386  0.180  C18 B5Y 14 
B5Y C19 C15 C 0 1 Y N N -9.902  56.036 2.465  -5.501 -0.810 0.091  C19 B5Y 15 
B5Y C23 C16 C 0 1 Y N N -8.328  54.626 1.292  -7.678 -1.838 0.227  C23 B5Y 16 
B5Y C30 C17 C 0 1 N N S -13.824 60.241 -0.219 2.487  2.813  -1.024 C30 B5Y 17 
B5Y C32 C18 C 0 1 N N R -13.604 61.430 0.287  3.781  1.987  -0.790 C32 B5Y 18 
B5Y N01 N1  N 0 1 N N N -6.953  63.084 0.952  6.698  -4.057 -0.349 N01 B5Y 19 
B5Y N04 N2  N 0 1 Y N N -9.208  60.934 1.252  4.163  -2.377 -0.804 N04 B5Y 20 
B5Y N06 N3  N 0 1 Y N N -11.340 61.402 1.440  3.924  -0.351 -0.027 N06 B5Y 21 
B5Y N08 N4  N 0 1 Y N N -11.020 63.906 1.365  6.159  -0.251 1.076  N08 B5Y 22 
B5Y N10 N5  N 0 1 Y N N -8.816  64.595 1.105  7.440  -2.161 0.843  N10 B5Y 23 
B5Y O12 O1  O 0 1 N N N -13.242 60.056 2.144  1.897  0.860  0.186  O12 B5Y 24 
B5Y O15 O2  O 0 1 N N N -14.240 57.742 2.532  -0.925 1.329  -0.338 O15 B5Y 25 
B5Y O17 O3  O 0 1 N N N -12.444 55.564 2.797  -3.317 0.281  -0.036 O17 B5Y 26 
B5Y O25 O4  O 0 1 N N N -10.513 53.819 1.786  -7.434 0.495  0.615  O25 B5Y 27 
B5Y O27 O5  O 0 1 N N N -11.321 57.243 3.854  -5.132 1.465  0.447  O27 B5Y 28 
B5Y O28 O6  O 0 1 N N N -15.016 55.402 1.953  -3.013 2.660  -0.825 O28 B5Y 29 
B5Y O29 O7  O 0 1 N N N -14.532 55.935 4.304  -2.494 2.171  1.596  O29 B5Y 30 
B5Y O31 O8  O 0 1 N N N -15.080 60.065 -0.823 2.343  3.836  -0.036 O31 B5Y 31 
B5Y O33 O9  O 0 1 N N N -14.797 62.105 0.607  4.825  2.813  -0.272 O33 B5Y 32 
B5Y P16 P1  P 0 1 N N N -14.043 56.130 2.875  -2.450 1.633  0.079  P16 B5Y 33 
B5Y H1  H1  H 0 1 N N N -12.630 58.628 0.652  1.283  1.157  -1.782 H1  B5Y 34 
B5Y H2  H2  H 0 1 N N N -9.157  57.971 2.985  -3.880 -2.142 -0.391 H2  B5Y 35 
B5Y H3  H3  H 0 1 N N N -6.388  55.456 0.921  -7.737 -3.941 -0.135 H3  B5Y 36 
B5Y H4  H4  H 0 1 N N N -6.731  58.570 1.135  -4.850 -5.010 0.301  H4  B5Y 37 
B5Y H5  H5  H 0 1 N N N -6.812  58.532 2.928  -5.879 -5.121 -1.147 H5  B5Y 38 
B5Y H6  H6  H 0 1 N N N -5.638  57.486 2.060  -4.269 -4.370 -1.254 H6  B5Y 39 
B5Y H7  H7  H 0 1 N N N -10.642 59.356 1.476  2.370  -1.324 -1.190 H7  B5Y 40 
B5Y H8  H8  H 0 1 N N N -10.434 65.892 1.253  8.052  -0.474 1.873  H8  B5Y 41 
B5Y H9  H9  H 0 1 N N N -13.105 61.994 2.340  3.620  1.284  1.258  H9  B5Y 42 
B5Y H10 H10 H 0 1 N N N -15.624 58.722 1.340  0.189  2.839  0.526  H10 B5Y 43 
B5Y H11 H11 H 0 1 N N N -14.712 57.395 0.544  -0.232 3.081  -1.186 H11 B5Y 44 
B5Y H12 H12 H 0 1 N N N -8.103  53.683 0.816  -8.741 -1.763 0.398  H12 B5Y 45 
B5Y H13 H13 H 0 1 N N N -13.064 60.046 -0.990 2.466  3.235  -2.029 H13 B5Y 46 
B5Y H14 H14 H 0 1 N N N -12.975 62.049 -0.369 4.098  1.494  -1.709 H14 B5Y 47 
B5Y H15 H15 H 0 1 N N N -6.460  63.950 0.867  7.529  -4.521 -0.164 H15 B5Y 48 
B5Y H16 H16 H 0 1 N N N -6.620  62.589 1.755  6.005  -4.492 -0.869 H16 B5Y 49 
B5Y H17 H17 H 0 1 N N N -11.318 54.102 2.203  -7.722 0.999  -0.158 H17 B5Y 50 
B5Y H18 H18 H 0 1 N N N -15.324 55.410 4.299  -2.139 1.548  2.245  H18 B5Y 51 
B5Y H19 H19 H 0 1 N N N -15.149 59.179 -1.159 3.060  4.485  -0.034 H19 B5Y 52 
B5Y H20 H20 H 0 1 N N N -14.591 62.959 0.969  5.086  3.533  -0.862 H20 B5Y 53 
# 
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 
B5Y O31 C30 SING N N 1  
B5Y C30 C32 SING N N 2  
B5Y C30 C13 SING N N 3  
B5Y C32 O33 SING N N 4  
B5Y C32 C11 SING N N 5  
B5Y C13 C14 SING N N 6  
B5Y C13 O12 SING N N 7  
B5Y N01 C02 SING N N 8  
B5Y C02 N10 DOUB Y N 9  
B5Y C02 C03 SING Y N 10 
B5Y N10 C09 SING Y N 11 
B5Y C03 N04 SING Y N 12 
B5Y C03 C07 DOUB Y N 13 
B5Y C09 N08 DOUB Y N 14 
B5Y N04 C05 DOUB Y N 15 
B5Y C14 O15 SING N N 16 
B5Y C23 C22 DOUB Y N 17 
B5Y C23 C24 SING Y N 18 
B5Y C22 C21 SING Y N 19 
B5Y C07 N08 SING Y N 20 
B5Y C07 N06 SING Y N 21 
B5Y C05 N06 SING Y N 22 
B5Y N06 C11 SING N N 23 
B5Y C11 O12 SING N N 24 
B5Y O25 C24 SING N N 25 
B5Y C24 C19 DOUB Y N 26 
B5Y O28 P16 DOUB N N 27 
B5Y C21 C26 SING N N 28 
B5Y C21 C20 DOUB Y N 29 
B5Y C19 C20 SING Y N 30 
B5Y C19 C18 SING N N 31 
B5Y O15 P16 SING N N 32 
B5Y O17 P16 SING N N 33 
B5Y O17 C18 SING N N 34 
B5Y P16 O29 SING N N 35 
B5Y C18 O27 DOUB N N 36 
B5Y C13 H1  SING N N 37 
B5Y C20 H2  SING N N 38 
B5Y C22 H3  SING N N 39 
B5Y C26 H4  SING N N 40 
B5Y C26 H5  SING N N 41 
B5Y C26 H6  SING N N 42 
B5Y C05 H7  SING N N 43 
B5Y C09 H8  SING N N 44 
B5Y C11 H9  SING N N 45 
B5Y C14 H10 SING N N 46 
B5Y C14 H11 SING N N 47 
B5Y C23 H12 SING N N 48 
B5Y C30 H13 SING N N 49 
B5Y C32 H14 SING N N 50 
B5Y N01 H15 SING N N 51 
B5Y N01 H16 SING N N 52 
B5Y O25 H17 SING N N 53 
B5Y O29 H18 SING N N 54 
B5Y O31 H19 SING N N 55 
B5Y O33 H20 SING N N 56 
# 
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 
B5Y SMILES           ACDLabs              12.01 "C2(COP(OC(=O)c1cc(C)ccc1O)(=O)O)OC(C(C2O)O)n4cnc3c(ncnc34)N" 
B5Y InChI            InChI                1.03  
"InChI=1S/C18H20N5O9P/c1-8-2-3-10(24)9(4-8)18(27)32-33(28,29)30-5-11-13(25)14(26)17(31-11)23-7-22-12-15(19)20-6-21-16(12)23/h2-4,6-7,11,13-14,17,24-26H,5H2,1H3,(H,28,29)(H2,19,20,21)/t11-,13+,14+,17+/m0/s1" 
B5Y InChIKey         InChI                1.03  XBOIILKAIKTKFY-ZCTGUTNYSA-N 
B5Y SMILES_CANONICAL CACTVS               3.385 "Cc1ccc(O)c(c1)C(=O)O[P](O)(=O)OC[C@@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34" 
B5Y SMILES           CACTVS               3.385 "Cc1ccc(O)c(c1)C(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34" 
B5Y SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "Cc1ccc(c(c1)C(=O)OP(=O)(O)OC[C@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O)O" 
B5Y SMILES           "OpenEye OEToolkits" 2.0.6 "Cc1ccc(c(c1)C(=O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O)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 
B5Y "SYSTEMATIC NAME" ACDLabs              12.01 "9-(5-O-{(S)-hydroxy[(2-hydroxy-5-methylbenzene-1-carbonyl)oxy]phosphoryl}-alpha-L-lyxofuranosyl)-9H-purin-6-amine"                        
B5Y "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] 5-methyl-2-oxidanyl-benzoate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
B5Y "Create component" 2017-08-01 RCSB 
B5Y "Initial release"  2018-05-23 RCSB 
# 
