data_SSJ
# 
_chem_comp.id                                    SSJ 
_chem_comp.name                                  
;2'-deoxy-5-[(1-hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)ethynyl]uridine 5'-(tetrahydrogen triphosphate)
;
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C19 H28 N3 O15 P3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2010-09-20 
_chem_comp.pdbx_modified_date                    2011-06-04 
_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                        631.358 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     SSJ 
_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        3OJU 
_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 
SSJ N1     N1   N 0 1 N N N 19.019 -19.829 -7.121  2.003  -2.096 -0.063 N1   SSJ 1  
SSJ C2     C2   C 0 1 N N N 18.533 -20.169 -5.845  1.800  -2.710 1.113  C2   SSJ 2  
SSJ O2     O2   O 0 1 N N N 17.899 -21.239 -5.682  0.802  -3.389 1.260  O2   SSJ 3  
SSJ N3     N3   N 0 1 N N N 18.744 -19.350 -4.815  2.668  -2.598 2.134  N3   SSJ 4  
SSJ C4     C4   C 0 1 N N N 19.418 -18.207 -4.983  3.784  -1.852 2.001  C4   SSJ 5  
SSJ O4     O4   O 0 1 N N N 19.600 -17.461 -3.995  4.574  -1.747 2.921  O4   SSJ 6  
SSJ C5     C5   C 0 1 N N N 19.910 -17.842 -6.227  4.028  -1.169 0.720  C5   SSJ 7  
SSJ C6     C6   C 0 1 N N N 19.704 -18.689 -7.313  3.106  -1.323 -0.281 C6   SSJ 8  
SSJ PA     PA   P 0 1 N N N 19.459 -16.409 -10.841 -4.666 -1.438 0.080  PA   SSJ 9  
SSJ PB     PB   P 0 1 N N N 16.783 -16.292 -11.858 -6.152 1.066  0.637  PB   SSJ 10 
SSJ PG     PG   P 0 1 N N N 16.920 -13.867 -13.393 -7.703 3.405  -0.314 PG   SSJ 11 
SSJ "C1'"  C1*  C 0 1 N N R 18.742 -20.782 -8.200  1.022  -2.263 -1.138 C1*  SSJ 12 
SSJ O1A    O1A  O 0 1 N N N 20.261 -15.568 -9.873  -5.769 -2.408 -0.580 O1A  SSJ 13 
SSJ O1B    O1B  O 0 1 N N N 17.337 -17.015 -13.057 -7.375 0.307  0.980  O1B  SSJ 14 
SSJ O1G    O1G  O 0 1 N N N 18.100 -14.616 -13.943 -9.091 2.730  -0.773 O1G  SSJ 15 
SSJ "C2'"  C2*  C 0 1 N N N 17.334 -20.489 -8.701  0.985  -3.736 -1.590 C2*  SSJ 16 
SSJ O2A    O2A  O 0 1 N N N 19.856 -16.452 -12.291 -4.550 -1.734 1.525  O2A  SSJ 17 
SSJ O2B    O2B  O 0 1 N N N 15.639 -16.974 -11.156 -5.475 1.631  1.984  O2B  SSJ 18 
SSJ O2G    O2G  O 0 1 N N N 15.799 -13.640 -14.378 -7.849 3.951  1.054  O2G  SSJ 19 
SSJ "C3'"  C3*  C 0 1 N N S 17.576 -19.623 -9.921  -0.484 -4.167 -1.361 C3*  SSJ 20 
SSJ "O3'"  O3*  O 0 1 N N N 16.532 -19.756 -10.892 -0.951 -4.978 -2.440 O3*  SSJ 21 
SSJ C30    C30  C 0 1 N N N 20.544 -16.723 -6.308  5.196  -0.365 0.526  C30  SSJ 22 
SSJ C31    C31  C 0 1 N N N 21.095 -15.678 -6.247  6.155  0.294  0.367  C31  SSJ 23 
SSJ C32    C32  C 0 1 N N N 21.682 -14.569 -6.181  7.323  1.099  0.172  C32  SSJ 24 
SSJ C33    C33  C 0 1 N N N 22.727 -14.209 -6.940  8.279  1.306  1.079  C33  SSJ 25 
SSJ C34    C34  C 0 1 N N N 23.367 -12.962 -6.369  9.335  2.210  0.485  C34  SSJ 26 
SSJ N35    N35  N 0 1 N N N 22.425 -12.576 -5.335  9.115  2.166  -0.979 N35  SSJ 27 
SSJ C36    C36  C 0 1 N N N 21.364 -13.533 -5.139  7.675  1.843  -1.095 C36  SSJ 28 
SSJ C37    C37  C 0 1 N N N 24.740 -13.309 -5.817  9.162  3.639  1.004  C37  SSJ 29 
SSJ C38    C38  C 0 1 N N N 23.464 -11.866 -7.423  10.732 1.688  0.828  C38  SSJ 30 
SSJ C39    C39  C 0 1 N N N 20.007 -12.904 -5.383  7.426  0.956  -2.317 C39  SSJ 31 
SSJ O3A    O3A  O 0 1 N N N 17.895 -16.025 -10.712 -5.113 0.096  -0.120 O3A  SSJ 32 
SSJ O3B    O3B  O 0 1 N N N 16.275 -14.803 -12.239 -6.536 2.296  -0.327 O3B  SSJ 33 
SSJ O3G    O3G  O 0 1 N N N 17.334 -12.601 -12.690 -7.324 4.596  -1.329 O3G  SSJ 34 
SSJ "C4'"  C4*  C 0 1 N N R 18.908 -20.137 -10.447 -1.222 -2.804 -1.334 C4*  SSJ 35 
SSJ "O4'"  O4*  O 0 1 N N N 19.626 -20.643 -9.316  -0.291 -1.928 -0.658 O4*  SSJ 36 
SSJ C40    C40  C 0 1 N N N 21.490 -14.129 -3.744  6.854  3.131  -1.198 C40  SSJ 37 
SSJ O41    O41  O 0 1 N N N 22.495 -11.397 -4.585  9.417  3.459  -1.594 O41  SSJ 38 
SSJ "C5'"  C5*  C 0 1 N N N 19.694 -19.016 -11.094 -2.528 -2.914 -0.545 C5*  SSJ 39 
SSJ "O5'"  O5*  O 0 1 N N N 19.479 -17.896 -10.247 -3.243 -1.680 -0.633 O5*  SSJ 40 
SSJ HN3    HN3  H 0 1 N N N 18.396 -19.592 -3.909  2.490  -3.056 2.970  HN3  SSJ 41 
SSJ H6     H6   H 0 1 N N N 20.087 -18.435 -8.290  3.251  -0.837 -1.234 H6   SSJ 42 
SSJ "H1'"  H1*  H 0 1 N N N 18.869 -21.797 -7.797  1.283  -1.623 -1.981 H1*  SSJ 43 
SSJ HO1A   HO1A H 0 0 N N N 20.970 -15.139 -10.338 -5.898 -2.270 -1.528 HO1A SSJ 44 
SSJ HO1G   HO1G H 0 0 N N N 17.942 -14.832 -14.854 -9.068 2.351  -1.662 HO1G SSJ 45 
SSJ "H2'"  H2*  H 0 1 N N N 16.795 -21.412 -8.959  1.247  -3.818 -2.645 H2*  SSJ 46 
SSJ "H2'A" H2*A H 0 0 N N N 16.735 -19.964 -7.943  1.661  -4.338 -0.982 H2*A SSJ 47 
SSJ HO2B   HO2B H 0 0 N N N 15.436 -17.790 -11.599 -4.666 2.139  1.834  HO2B SSJ 48 
SSJ "H3'"  H3*  H 0 1 N N N 17.590 -18.548 -9.686  -0.593 -4.687 -0.410 H3*  SSJ 49 
SSJ "HO3'" HO3* H 0 0 N N N 16.720 -19.199 -11.638 -0.459 -5.803 -2.553 HO3* SSJ 50 
SSJ H33    H33  H 0 1 N N N 23.061 -14.730 -7.825  8.295  0.895  2.077  H33  SSJ 51 
SSJ H37    H37  H 0 1 N N N 25.208 -12.404 -5.401  9.375  3.665  2.073  H37  SSJ 52 
SSJ H37A   H37A H 0 0 N N N 24.636 -14.065 -5.025  9.851  4.302  0.480  H37A SSJ 53 
SSJ H37B   H37B H 0 0 N N N 25.370 -13.709 -6.625  8.137  3.967  0.829  H37B SSJ 54 
SSJ H38    H38  H 0 1 N N N 23.932 -10.973 -6.982  10.845 0.674  0.446  H38  SSJ 55 
SSJ H38A   H38A H 0 0 N N N 24.075 -12.221 -8.266  11.483 2.334  0.372  H38A SSJ 56 
SSJ H38B   H38B H 0 0 N N N 22.456 -11.612 -7.782  10.863 1.686  1.910  H38B SSJ 57 
SSJ H39    H39  H 0 1 N N N 19.805 -12.153 -4.605  6.369  0.693  -2.365 H39  SSJ 58 
SSJ H39A   H39A H 0 0 N N N 20.000 -12.420 -6.371  7.707  1.496  -3.221 H39A SSJ 59 
SSJ H39B   H39B H 0 0 N N N 19.231 -13.683 -5.350  8.023  0.048  -2.234 H39B SSJ 60 
SSJ HO3G   HO3G H 0 0 N N N 16.803 -11.877 -13.001 -7.985 5.301  -1.372 HO3G SSJ 61 
SSJ "H4'"  H4*  H 0 1 N N N 18.752 -20.916 -11.208 -1.412 -2.450 -2.347 H4*  SSJ 62 
SSJ H40    H40  H 0 1 N N N 21.255 -13.360 -2.994  6.974  3.712  -0.283 H40  SSJ 63 
SSJ H40A   H40A H 0 0 N N N 20.788 -14.970 -3.640  7.203  3.716  -2.049 H40A SSJ 64 
SSJ H40B   H40B H 0 0 N N N 22.518 -14.488 -3.590  5.802  2.881  -1.335 H40B SSJ 65 
SSJ "H5'"  H5*  H 0 1 N N N 20.763 -19.266 -11.158 -3.137 -3.717 -0.961 H5*  SSJ 66 
SSJ "H5'A" H5*A H 0 0 N N N 19.335 -18.817 -12.115 -2.305 -3.131 0.499  H5*A SSJ 67 
SSJ HO41   HO41 H 0 0 N N N 21.770 -11.367 -3.972  10.329 3.753  -1.464 HO41 SSJ 68 
# 
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 
SSJ N1    C2     SING N N 1  
SSJ C2    O2     DOUB N N 2  
SSJ C2    N3     SING N N 3  
SSJ N3    HN3    SING N N 4  
SSJ C4    N3     SING N N 5  
SSJ C4    O4     DOUB N N 6  
SSJ C5    C4     SING N N 7  
SSJ C6    N1     SING N N 8  
SSJ C6    C5     DOUB N N 9  
SSJ C6    H6     SING N N 10 
SSJ PA    O3A    SING N N 11 
SSJ PA    "O5'"  SING N N 12 
SSJ PA    O1A    SING N N 13 
SSJ PB    O2B    SING N N 14 
SSJ PB    O3A    SING N N 15 
SSJ PG    O3G    SING N N 16 
SSJ PG    O3B    SING N N 17 
SSJ "C1'" N1     SING N N 18 
SSJ "C1'" "H1'"  SING N N 19 
SSJ O1A   HO1A   SING N N 20 
SSJ O1B   PB     DOUB N N 21 
SSJ O1G   PG     SING N N 22 
SSJ O1G   HO1G   SING N N 23 
SSJ "C2'" "C1'"  SING N N 24 
SSJ "C2'" "H2'"  SING N N 25 
SSJ "C2'" "H2'A" SING N N 26 
SSJ O2A   PA     DOUB N N 27 
SSJ O2B   HO2B   SING N N 28 
SSJ O2G   PG     DOUB N N 29 
SSJ "C3'" "C2'"  SING N N 30 
SSJ "C3'" "H3'"  SING N N 31 
SSJ "O3'" "C3'"  SING N N 32 
SSJ "O3'" "HO3'" SING N N 33 
SSJ C30   C5     SING N N 34 
SSJ C30   C31    TRIP N N 35 
SSJ C31   C32    SING N N 36 
SSJ C32   C36    SING N N 37 
SSJ C33   C32    DOUB N N 38 
SSJ C33   C34    SING N N 39 
SSJ C33   H33    SING N N 40 
SSJ C34   C37    SING N N 41 
SSJ C34   N35    SING N N 42 
SSJ N35   C36    SING N N 43 
SSJ N35   O41    SING N N 44 
SSJ C36   C40    SING N N 45 
SSJ C37   H37    SING N N 46 
SSJ C37   H37A   SING N N 47 
SSJ C37   H37B   SING N N 48 
SSJ C38   C34    SING N N 49 
SSJ C38   H38    SING N N 50 
SSJ C38   H38A   SING N N 51 
SSJ C38   H38B   SING N N 52 
SSJ C39   C36    SING N N 53 
SSJ C39   H39    SING N N 54 
SSJ C39   H39A   SING N N 55 
SSJ C39   H39B   SING N N 56 
SSJ O3B   PB     SING N N 57 
SSJ O3G   HO3G   SING N N 58 
SSJ "C4'" "C3'"  SING N N 59 
SSJ "C4'" "O4'"  SING N N 60 
SSJ "C4'" "H4'"  SING N N 61 
SSJ "O4'" "C1'"  SING N N 62 
SSJ C40   H40    SING N N 63 
SSJ C40   H40A   SING N N 64 
SSJ C40   H40B   SING N N 65 
SSJ "C5'" "C4'"  SING N N 66 
SSJ "C5'" "O5'"  SING N N 67 
SSJ "C5'" "H5'"  SING N N 68 
SSJ "C5'" "H5'A" SING N N 69 
SSJ O41   HO41   SING N N 70 
# 
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 
SSJ SMILES           ACDLabs              12.01 "O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(N2C(=O)NC(=O)C(C#CC1=CC(N(O)C1(C)C)(C)C)=C2)CC3O" 
SSJ SMILES_CANONICAL CACTVS               3.370 "CC1(C)C=C(C#CC2=CN([C@H]3C[C@H](O)[C@@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O3)C(=O)NC2=O)C(C)(C)N1O" 
SSJ SMILES           CACTVS               3.370 "CC1(C)C=C(C#CC2=CN([CH]3C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O3)C(=O)NC2=O)C(C)(C)N1O" 
SSJ SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1(C=C(C(N1O)(C)C)C#CC2=CN(C(=O)NC2=O)[C@H]3C[C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(O)OP(=O)(O)O)O)C" 
SSJ SMILES           "OpenEye OEToolkits" 1.7.0 "CC1(C=C(C(N1O)(C)C)C#CC2=CN(C(=O)NC2=O)C3CC(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)C" 
SSJ InChI            InChI                1.03  
"InChI=1S/C19H28N3O15P3/c1-18(2)8-12(19(3,4)22(18)26)6-5-11-9-21(17(25)20-16(11)24)15-7-13(23)14(35-15)10-34-39(30,31)37-40(32,33)36-38(27,28)29/h8-9,13-15,23,26H,7,10H2,1-4H3,(H,30,31)(H,32,33)(H,20,24,25)(H2,27,28,29)/t13-,14+,15+/m0/s1" 
SSJ InChIKey         InChI                1.03  GHJOELBEPYPBAG-RRFJBIMHSA-N 
# 
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 
SSJ "SYSTEMATIC NAME" ACDLabs              12.01 
;2'-deoxy-5-[(1-hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)ethynyl]uridine 5'-(tetrahydrogen triphosphate)
;
SSJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[hydroxy-[[(2R,3S,5R)-3-hydroxy-5-[5-[2-(1-hydroxy-2,2,5,5-tetramethyl-pyrrol-3-yl)ethynyl]-2,4-dioxo-pyrimidin-1-yl]oxolan-2-yl]methoxy]phosphoryl] phosphono 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 
SSJ "Create component"  2010-09-20 RCSB 
SSJ "Modify descriptor" 2011-06-04 RCSB 
# 
