data_4RA
# 
_chem_comp.id                                    4RA 
_chem_comp.name                                  
;[(2R,3R,4R,5S,6R)-3-acetamido-6-methyl-5-[(E)-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-4-oxidanyl-oxan-2-yl] [[(2R,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen phosphate
;
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H36 N5 O20 P3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-05-14 
_chem_comp.pdbx_modified_date                    2015-07-24 
_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                        819.496 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     4RA 
_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        4ZTC 
_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 
4RA O2C   O1  O 0 1 N N N 31.082 12.534 0.799  -6.441 -4.331 -1.743 O2C   4RA 1  
4RA O3    O2  O 0 1 N N N 22.643 2.467  -7.422 2.669  -2.415 -0.115 O3    4RA 2  
4RA C2    C1  C 0 1 Y N N 20.535 2.352  -8.311 4.189  -4.242 -0.307 C2    4RA 3  
4RA C3    C2  C 0 1 Y N N 21.379 2.969  -7.433 3.942  -2.883 -0.167 C3    4RA 4  
4RA C4    C3  C 0 1 Y N N 20.923 3.963  -6.579 5.031  -2.002 -0.081 C4    4RA 5  
4RA C5    C4  C 0 1 Y N N 19.592 4.353  -6.649 6.322  -2.541 -0.140 C5    4RA 6  
4RA C6    C5  C 0 1 Y N N 18.775 3.708  -7.586 6.472  -3.905 -0.280 C6    4RA 7  
4RA C2C   C6  C 0 1 N N N 32.016 11.759 1.152  -6.925 -4.203 -0.636 C2C   4RA 8  
4RA N3C   N1  N 0 1 N N N 33.216 12.271 1.408  -7.161 -5.295 0.115  N3C   4RA 9  
4RA C4C   C7  C 0 1 N N N 34.231 11.451 1.806  -7.697 -5.171 1.346  C4C   4RA 10 
4RA O4C   O3  O 0 1 N N N 35.342 11.949 2.033  -7.911 -6.159 2.026  O4C   4RA 11 
4RA C5C   C8  C 0 1 N N N 34.041 10.077 1.956  -8.010 -3.882 1.841  C5C   4RA 12 
4RA C6C   C9  C 0 1 N N N 32.771 9.565  1.694  -7.763 -2.804 1.067  C6C   4RA 13 
4RA N1C   N2  N 0 1 N N N 31.827 10.421 1.263  -7.213 -2.972 -0.175 N1C   4RA 14 
4RA C1B   C10 C 0 1 N N R 30.504 9.924  0.951  -6.940 -1.802 -1.013 C1B   4RA 15 
4RA C2B   C11 C 0 1 N N R 30.522 8.927  -0.210 -8.251 -1.050 -1.330 C2B   4RA 16 
4RA "O2'" O4  O 0 1 N N N 30.877 9.417  -1.546 -8.736 -1.412 -2.625 "O2'" 4RA 17 
4RA C3B   C12 C 0 1 N N S 29.120 8.367  -0.031 -7.846 0.441  -1.301 C3B   4RA 18 
4RA O3B   O5  O 0 1 N N N 28.104 9.080  -0.757 -8.067 1.045  -2.577 O3B   4RA 19 
4RA O4B   O6  O 0 1 N N N 29.989 9.210  2.053  -6.131 -0.846 -0.293 O4B   4RA 20 
4RA C4B   C13 C 0 1 N N R 28.906 8.459  1.484  -6.337 0.413  -0.970 C4B   4RA 21 
4RA C5B   C14 C 0 1 N N N 28.894 7.074  2.118  -5.972 1.579  -0.049 C5B   4RA 22 
4RA O5B   O7  O 0 1 N N N 27.723 6.406  1.732  -4.557 1.603  0.151  O5B   4RA 23 
4RA PA    P1  P 0 1 N N N 27.764 4.817  1.374  -3.820 2.702  1.069  PA    4RA 24 
4RA O1A   O8  O 0 1 N N N 27.731 4.106  2.654  -4.282 2.518  2.601  O1A   4RA 25 
4RA O2A   O9  O 0 1 N N N 28.827 4.595  0.391  -4.185 4.058  0.604  O2A   4RA 26 
4RA O3A   O10 O 0 1 N N N 26.341 4.759  0.747  -2.226 2.508  0.962  O3A   4RA 27 
4RA PB    P2  P 0 1 N N N 25.551 3.475  0.279  -0.959 3.419  1.358  PB    4RA 28 
4RA O2B   O11 O 0 1 N N N 26.550 2.506  -0.175 -1.241 4.831  1.015  O2B   4RA 29 
4RA O1B   O12 O 0 1 N N N 24.512 3.077  1.329  -0.683 3.296  2.940  O1B   4RA 30 
4RA "O1'" O13 O 0 1 N N N 24.737 4.102  -0.991 0.338  2.918  0.546  "O1'" 4RA 31 
4RA "C1'" C15 C 0 1 N N R 25.424 4.692  -2.113 1.598  3.590  0.600  "C1'" 4RA 32 
4RA "C2'" C16 C 0 1 N N R 24.713 5.964  -2.621 2.339  3.393  -0.724 "C2'" 4RA 33 
4RA "N2'" N3  N 0 1 N N N 24.378 6.710  -1.373 1.513  3.892  -1.827 "N2'" 4RA 34 
4RA "C7'" C17 C 0 1 N N N 25.187 7.645  -0.976 1.543  5.199  -2.153 "C7'" 4RA 35 
4RA "C8'" C18 C 0 1 N N N 24.811 8.275  0.331  0.694  5.713  -3.287 "C8'" 4RA 36 
4RA "O7'" O14 O 0 1 N N N 26.167 8.036  -1.621 2.255  5.962  -1.535 "O7'" 4RA 37 
4RA "C3'" C19 C 0 1 N N S 23.501 5.581  -3.454 2.617  1.900  -0.928 "C3'" 4RA 38 
4RA "O3'" O15 O 0 1 N N N 23.041 6.776  -4.061 3.371  1.714  -2.127 "O3'" 4RA 39 
4RA "C4'" C20 C 0 1 N N S 23.926 4.594  -4.561 3.414  1.373  0.269  "C4'" 4RA 40 
4RA "C5'" C21 C 0 1 N N R 24.556 3.338  -3.974 2.632  1.648  1.555  "C5'" 4RA 41 
4RA "C6'" C22 C 0 1 N N N 25.155 2.383  -4.994 3.449  1.178  2.760  "C6'" 4RA 42 
4RA "O5'" O16 O 0 1 N N N 25.612 3.655  -3.085 2.380  3.050  1.668  "O5'" 4RA 43 
4RA "N4'" N4  N 0 1 N N N 22.837 4.120  -5.370 3.622  -0.070 0.121  "N4'" 4RA 44 
4RA C4A   C23 C 0 1 N N N 21.768 4.622  -5.616 4.822  -0.548 0.068  C4A   4RA 45 
4RA C2A   C24 C 0 1 N N N 20.999 1.263  -9.240 3.032  -5.203 -0.401 C2A   4RA 46 
4RA N1    N5  N 0 1 Y N N 19.240 2.714  -8.356 5.422  -4.701 -0.363 N1    4RA 47 
4RA C5A   C25 C 0 1 N N N 18.968 5.407  -5.734 7.530  -1.645 -0.053 C5A   4RA 48 
4RA O4P   O17 O 0 1 N N N 19.631 6.676  -5.813 8.717  -2.436 -0.138 O4P   4RA 49 
4RA P     P3  P 0 1 N N N 19.424 7.716  -4.665 10.197 -1.805 -0.078 P     4RA 50 
4RA O3P   O18 O 0 1 N N N 20.540 7.419  -3.715 10.433 -0.868 -1.367 O3P   4RA 51 
4RA O1P   O19 O 0 1 N N N 19.700 9.054  -5.411 10.340 -0.995 1.153  O1P   4RA 52 
4RA O2P   O20 O 0 1 N N N 18.036 7.536  -4.091 11.286 -2.990 -0.070 O2P   4RA 53 
4RA H1    H1  H 0 1 N N N 23.168 2.944  -6.790 2.303  -2.369 0.778  H1    4RA 54 
4RA H2    H2  H 0 1 N N N 17.746 4.019  -7.691 7.464  -4.329 -0.327 H2    4RA 55 
4RA H3    H3  H 0 1 N N N 33.374 13.253 1.309  -6.944 -6.175 -0.231 H3    4RA 56 
4RA H4    H4  H 0 1 N N N 34.850 9.432  2.265  -8.440 -3.763 2.824  H4    4RA 57 
4RA H5    H5  H 0 1 N N N 32.552 8.516  1.832  -7.995 -1.812 1.427  H5    4RA 58 
4RA H6    H6  H 0 1 N N N 29.840 10.761 0.690  -6.441 -2.104 -1.934 H6    4RA 59 
4RA H7    H7  H 0 1 N N N 31.230 8.129  0.058  -9.003 -1.256 -0.568 H7    4RA 60 
4RA H8    H8  H 0 1 N N N 31.770 9.741  -1.538 -9.524 -0.925 -2.900 H8    4RA 61 
4RA H9    H9  H 0 1 N N N 29.119 7.307  -0.325 -8.397 0.972  -0.525 H9    4RA 62 
4RA H10   H10 H 0 1 N N N 27.416 8.477  -1.014 -8.991 1.035  -2.862 H10   4RA 63 
4RA H11   H11 H 0 1 N N N 27.946 8.957  1.683  -5.747 0.452  -1.885 H11   4RA 64 
4RA H12   H12 H 0 1 N N N 29.772 6.505  1.778  -6.291 2.516  -0.505 H12   4RA 65 
4RA H13   H13 H 0 1 N N N 28.920 7.170  3.214  -6.473 1.454  0.911  H13   4RA 66 
4RA H14   H14 H 0 1 N N N 28.477 3.521  2.711  -4.074 1.649  2.972  H14   4RA 67 
4RA H15   H15 H 0 1 N N N 24.649 2.172  1.584  -0.491 2.396  3.236  H15   4RA 68 
4RA H16   H16 H 0 1 N N N 26.418 5.009  -1.765 1.435  4.654  0.771  H16   4RA 69 
4RA H17   H17 H 0 1 N N N 25.412 6.551  -3.234 3.282  3.940  -0.699 H17   4RA 70 
4RA H18   H18 H 0 1 N N N 23.550 6.495  -0.855 0.944  3.282  -2.321 H18   4RA 71 
4RA H19   H19 H 0 1 N N N 25.523 9.079  0.569  -0.357 5.520  -3.070 H19   4RA 72 
4RA H20   H20 H 0 1 N N N 23.796 8.693  0.258  0.850  6.785  -3.402 H20   4RA 73 
4RA H21   H21 H 0 1 N N N 24.838 7.515  1.125  0.973  5.204  -4.210 H21   4RA 74 
4RA H22   H22 H 0 1 N N N 22.730 5.122  -2.817 1.673  1.361  -1.003 H22   4RA 75 
4RA H23   H23 H 0 1 N N N 22.776 7.392  -3.388 3.583  0.790  -2.319 H23   4RA 76 
4RA H24   H24 H 0 1 N N N 24.671 5.092  -5.199 4.379  1.878  0.314  H24   4RA 77 
4RA H25   H25 H 0 1 N N N 23.773 2.795  -3.425 1.684  1.110  1.526  H25   4RA 78 
4RA H26   H26 H 0 1 N N N 25.583 1.512  -4.475 4.396  1.717  2.789  H26   4RA 79 
4RA H27   H27 H 0 1 N N N 24.370 2.047  -5.687 2.891  1.374  3.676  H27   4RA 80 
4RA H28   H28 H 0 1 N N N 25.946 2.898  -5.558 3.641  0.109  2.674  H28   4RA 81 
4RA H29   H29 H 0 1 N N N 21.455 5.535  -5.131 5.672  0.116  0.133  H29   4RA 82 
4RA H30   H30 H 0 1 N N N 20.152 0.913  -9.848 2.750  -5.330 -1.446 H30   4RA 83 
4RA H31   H31 H 0 1 N N N 21.786 1.655  -9.900 3.325  -6.167 0.016  H31   4RA 84 
4RA H32   H32 H 0 1 N N N 21.399 0.424  -8.651 2.185  -4.808 0.159  H32   4RA 85 
4RA H33   H33 H 0 1 N N N 17.915 5.542  -6.021 7.511  -0.929 -0.874 H33   4RA 86 
4RA H34   H34 H 0 1 N N N 19.021 5.047  -4.696 7.517  -1.109 0.896  H34   4RA 87 
4RA H35   H35 H 0 1 N N N 21.190 8.111  -3.763 10.355 -1.334 -2.211 H35   4RA 88 
4RA H36   H36 H 0 1 N N N 17.512 8.305  -4.281 12.202 -2.683 -0.035 H36   4RA 89 
# 
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 
4RA C2A   C2    SING N N 1  
4RA N1    C2    DOUB Y N 2  
4RA N1    C6    SING Y N 3  
4RA C2    C3    SING Y N 4  
4RA C6    C5    DOUB Y N 5  
4RA C3    O3    SING N N 6  
4RA C3    C4    DOUB Y N 7  
4RA C5    C4    SING Y N 8  
4RA C5    C5A   SING N N 9  
4RA C4    C4A   SING N N 10 
4RA O4P   C5A   SING N N 11 
4RA O4P   P     SING N N 12 
4RA C4A   "N4'" DOUB N N 13 
4RA O1P   P     DOUB N N 14 
4RA "N4'" "C4'" SING N N 15 
4RA "C6'" "C5'" SING N N 16 
4RA P     O2P   SING N N 17 
4RA P     O3P   SING N N 18 
4RA "C4'" "C5'" SING N N 19 
4RA "C4'" "C3'" SING N N 20 
4RA "O3'" "C3'" SING N N 21 
4RA "C5'" "O5'" SING N N 22 
4RA "C3'" "C2'" SING N N 23 
4RA "O5'" "C1'" SING N N 24 
4RA "C2'" "C1'" SING N N 25 
4RA "C2'" "N2'" SING N N 26 
4RA "C1'" "O1'" SING N N 27 
4RA "O7'" "C7'" DOUB N N 28 
4RA "O2'" C2B   SING N N 29 
4RA "N2'" "C7'" SING N N 30 
4RA "O1'" PB    SING N N 31 
4RA "C7'" "C8'" SING N N 32 
4RA O3B   C3B   SING N N 33 
4RA C2B   C3B   SING N N 34 
4RA C2B   C1B   SING N N 35 
4RA O2B   PB    DOUB N N 36 
4RA C3B   C4B   SING N N 37 
4RA PB    O3A   SING N N 38 
4RA PB    O1B   SING N N 39 
4RA O2A   PA    DOUB N N 40 
4RA O3A   PA    SING N N 41 
4RA O2C   C2C   DOUB N N 42 
4RA C1B   N1C   SING N N 43 
4RA C1B   O4B   SING N N 44 
4RA C2C   N1C   SING N N 45 
4RA C2C   N3C   SING N N 46 
4RA N1C   C6C   SING N N 47 
4RA PA    O5B   SING N N 48 
4RA PA    O1A   SING N N 49 
4RA N3C   C4C   SING N N 50 
4RA C4B   O4B   SING N N 51 
4RA C4B   C5B   SING N N 52 
4RA C6C   C5C   DOUB N N 53 
4RA O5B   C5B   SING N N 54 
4RA C4C   C5C   SING N N 55 
4RA C4C   O4C   DOUB N N 56 
4RA O3    H1    SING N N 57 
4RA C6    H2    SING N N 58 
4RA N3C   H3    SING N N 59 
4RA C5C   H4    SING N N 60 
4RA C6C   H5    SING N N 61 
4RA C1B   H6    SING N N 62 
4RA C2B   H7    SING N N 63 
4RA "O2'" H8    SING N N 64 
4RA C3B   H9    SING N N 65 
4RA O3B   H10   SING N N 66 
4RA C4B   H11   SING N N 67 
4RA C5B   H12   SING N N 68 
4RA C5B   H13   SING N N 69 
4RA O1A   H14   SING N N 70 
4RA O1B   H15   SING N N 71 
4RA "C1'" H16   SING N N 72 
4RA "C2'" H17   SING N N 73 
4RA "N2'" H18   SING N N 74 
4RA "C8'" H19   SING N N 75 
4RA "C8'" H20   SING N N 76 
4RA "C8'" H21   SING N N 77 
4RA "C3'" H22   SING N N 78 
4RA "O3'" H23   SING N N 79 
4RA "C4'" H24   SING N N 80 
4RA "C5'" H25   SING N N 81 
4RA "C6'" H26   SING N N 82 
4RA "C6'" H27   SING N N 83 
4RA "C6'" H28   SING N N 84 
4RA C4A   H29   SING N N 85 
4RA C2A   H30   SING N N 86 
4RA C2A   H31   SING N N 87 
4RA C2A   H32   SING N N 88 
4RA C5A   H33   SING N N 89 
4RA C5A   H34   SING N N 90 
4RA O3P   H35   SING N N 91 
4RA O2P   H36   SING N N 92 
# 
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 
4RA SMILES           ACDLabs              12.01 "O=C1N(C=CC(N1)=O)C2OC(C(C2O)O)COP(O)(=O)OP(O)(=O)OC3C(NC(C)=O)C(O)C(C(O3)C)\N=C\c4c(O)c(C)ncc4COP(O)(O)=O" 
4RA InChI            InChI                1.03  
;InChI=1S/C25H36N5O20P3/c1-10-19(33)14(13(6-26-10)8-45-51(38,39)40)7-27-17-11(2)47-24(18(21(17)35)28-12(3)31)49-53(43,44)50-52(41,42)46-9-15-20(34)22(36)23(48-15)30-5-4-16(32)29-25(30)37/h4-7,11,15,17-18,20-24,33-36H,8-9H2,1-3H3,(H,28,31)(H,41,42)(H,43,44)(H,29,32,37)(H2,38,39,40)/b27-7+/t11-,15-,17-,18-,20-,21+,22-,23-,24-/m1/s1
;
4RA InChIKey         InChI                1.03  BKHPSAUTHKIVAK-OTBUILFPSA-N 
4RA SMILES_CANONICAL CACTVS               3.385 "C[C@H]1O[C@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](NC(C)=O)[C@@H](O)[C@@H]1N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O" 
4RA SMILES           CACTVS               3.385 "C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](NC(C)=O)[CH](O)[CH]1N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O" 
4RA SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "Cc1c(c(c(cn1)COP(=O)(O)O)/C=N/[C@@H]2[C@H](O[C@@H]([C@@H]([C@H]2O)NC(=O)C)OP(=O)(O)OP(=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)N4C=CC(=O)NC4=O)O)O)C)O" 
4RA SMILES           "OpenEye OEToolkits" 1.9.2 "Cc1c(c(c(cn1)COP(=O)(O)O)C=NC2C(OC(C(C2O)NC(=O)C)OP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)N4C=CC(=O)NC4=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 
4RA "SYSTEMATIC NAME" ACDLabs              12.01 
;(2R,3R,4R,5S,6R)-3-(acetylamino)-4-hydroxy-5-[(E)-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)amino]-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)
;
4RA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 
;[(2R,3R,4R,5S,6R)-3-acetamido-6-methyl-5-[(E)-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-4-oxidanyl-oxan-2-yl] [[(2R,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen 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 
4RA "Create component" 2015-05-14 RCSB 
4RA "Modify name"      2015-06-03 RCSB 
4RA "Initial release"  2015-07-29 RCSB 
# 
