data_JB3
# 
_chem_comp.id                                    JB3 
_chem_comp.name                                  GDP-N-acetylperosamine 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H28 N6 O15 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2012-03-23 
_chem_comp.pdbx_modified_date                    2012-03-30 
_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                        630.394 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     JB3 
_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        4EA8 
_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 
JB3 O4A   O4A   O 0 1 N N N -16.884 -35.837 17.364 -6.808 4.179  0.956  O4A   JB3 1  
JB3 C4A   C4A   C 0 1 N N N -15.785 -35.237 17.116 -5.768 4.363  0.359  C4A   JB3 2  
JB3 C5A   C5A   C 0 1 N N N -15.923 -33.722 16.942 -5.083 5.703  0.434  C5A   JB3 3  
JB3 N4A   N4A   N 0 1 N N N -14.497 -35.636 17.025 -5.221 3.367  -0.366 N4A   JB3 4  
JB3 C4G   C4G   C 0 1 N N S -14.187 -37.043 17.437 -5.884 2.062  -0.434 C4G   JB3 5  
JB3 C5G   C5G   C 0 1 N N R -12.763 -37.100 18.069 -5.469 1.214  0.771  C5G   JB3 6  
JB3 C6G   C6G   C 0 1 N N N -12.613 -36.272 19.341 -5.933 1.896  2.059  C6G   JB3 7  
JB3 O5G   O5G   O 0 1 N N N -12.343 -38.391 18.228 -6.070 -0.079 0.672  O5G   JB3 8  
JB3 C3G   C3G   C 0 1 N N S -14.298 -37.952 16.199 -5.469 1.344  -1.722 C3G   JB3 9  
JB3 O3G   O3G   O 0 1 N N N -15.669 -37.939 15.723 -5.918 2.093  -2.853 O3G   JB3 10 
JB3 C2G   C2G   C 0 1 N N S -13.861 -39.398 16.587 -6.105 -0.049 -1.744 C2G   JB3 11 
JB3 O2G   O2G   O 0 1 N N N -14.771 -40.066 17.522 -7.529 0.076  -1.769 O2G   JB3 12 
JB3 C1G   C1G   C 0 1 N N R -12.527 -39.358 17.191 -5.681 -0.816 -0.488 C1G   JB3 13 
JB3 O1G   O1G   O 0 1 N N N -11.578 -38.966 16.178 -4.263 -0.987 -0.491 O1G   JB3 14 
JB3 P2    P2    P 0 1 N N N -10.292 -39.816 15.873 -3.530 -2.247 0.193  P2    JB3 15 
JB3 O3P   O3P   O 0 1 N N N -9.322  -40.024 16.931 -3.942 -3.595 -0.586 O3P   JB3 16 
JB3 O4P   O4P   O 0 1 N N N -9.826  -39.229 14.600 -3.946 -2.350 1.610  O4P   JB3 17 
JB3 OPP   OPP   O 0 1 N N N -10.911 -41.276 15.590 -1.935 -2.049 0.114  OPP   JB3 18 
JB3 P     P     P 0 1 N N N -11.040 -42.134 14.237 -0.683 -2.747 0.848  P     JB3 19 
JB3 O1P   O1P   O 0 1 N N N -11.787 -41.309 13.171 -0.870 -4.215 0.852  O1P   JB3 20 
JB3 O2P   O2P   O 0 1 N N N -11.601 -43.427 14.647 -0.584 -2.214 2.364  O2P   JB3 21 
JB3 "O5'" "O5'" O 0 1 N N N -9.542  -42.291 13.781 0.673  -2.381 0.061  "O5'" JB3 22 
JB3 "C5'" "C5'" C 0 1 N N N -8.493  -42.791 14.688 1.945  -2.934 0.403  "C5'" JB3 23 
JB3 "C4'" "C4'" C 0 1 N N R -7.305  -42.981 13.752 3.014  -2.378 -0.540 "C4'" JB3 24 
JB3 "O4'" "O4'" O 0 1 N N N -6.187  -43.203 14.639 3.177  -0.967 -0.316 "O4'" JB3 25 
JB3 "C3'" "C3'" C 0 1 N N S -7.403  -44.194 12.841 4.370  -3.049 -0.249 "C3'" JB3 26 
JB3 "O3'" "O3'" O 0 1 N N N -7.102  -43.878 11.464 4.847  -3.737 -1.407 "O3'" JB3 27 
JB3 "C2'" "C2'" C 0 1 N N R -6.466  -45.234 13.487 5.308  -1.869 0.105  "C2'" JB3 28 
JB3 "O2'" "O2'" O 0 1 N N N -5.840  -46.162 12.630 6.598  -2.049 -0.483 "O2'" JB3 29 
JB3 "C1'" "C1'" C 0 1 N N R -5.408  -44.282 14.108 4.572  -0.665 -0.535 "C1'" JB3 30 
JB3 N9    N9    N 0 1 Y N N -4.631  -44.826 15.213 4.941  0.583  0.138  N9    JB3 31 
JB3 C8    C8    C 0 1 Y N N -5.107  -45.477 16.320 4.260  1.183  1.157  C8    JB3 32 
JB3 N7    N7    N 0 1 Y N N -4.091  -45.911 17.137 4.871  2.274  1.513  N7    JB3 33 
JB3 C4    C4    C 0 1 Y N N -3.289  -44.744 15.397 6.036  1.357  -0.137 C4    JB3 34 
JB3 C5    C5    C 0 1 Y N N -2.968  -45.388 16.605 5.976  2.441  0.747  C5    JB3 35 
JB3 N3    N3    N 0 1 N N N -2.385  -44.130 14.608 7.045  1.270  -1.012 N3    JB3 36 
JB3 C2    C2    C 0 1 N N N -1.131  -44.162 15.024 7.987  2.185  -1.055 C2    JB3 37 
JB3 N2    N2    N 0 1 N N N -0.132  -43.627 14.292 9.002  2.053  -1.969 N2    JB3 38 
JB3 N1    N1    N 0 1 N N N -0.791  -44.772 16.191 7.986  3.261  -0.218 N1    JB3 39 
JB3 C6    C6    C 0 1 N N N -1.641  -45.412 17.000 6.997  3.419  0.689  C6    JB3 40 
JB3 O6    O6    O 0 1 N N N -1.238  -46.086 17.970 6.985  4.379  1.440  O6    JB3 41 
JB3 H1    H1    H 0 1 N N N -16.977 -33.432 17.068 -5.666 6.374  1.065  H1    JB3 42 
JB3 H2    H2    H 0 1 N N N -15.309 -33.209 17.697 -4.087 5.579  0.859  H2    JB3 43 
JB3 H3    H3    H 0 1 N N N -15.582 -33.436 15.936 -5.001 6.126  -0.567 H3    JB3 44 
JB3 H4    H4    H 0 1 N N N -13.782 -35.019 16.697 -4.390 3.514  -0.843 H4    JB3 45 
JB3 H5    H5    H 0 1 N N N -14.919 -37.374 18.189 -6.965 2.201  -0.426 H5    JB3 46 
JB3 H6    H6    H 0 1 N N N -12.100 -36.627 17.329 -4.384 1.110  0.785  H6    JB3 47 
JB3 H7    H7    H 0 1 N N N -11.585 -36.366 19.721 -7.018 1.999  2.045  H7    JB3 48 
JB3 H8    H8    H 0 1 N N N -12.827 -35.216 19.118 -5.637 1.292  2.917  H8    JB3 49 
JB3 H9    H9    H 0 1 N N N -13.320 -36.637 20.101 -5.475 2.882  2.134  H9    JB3 50 
JB3 H10   H10   H 0 1 N N N -13.621 -37.576 15.417 -4.383 1.249  -1.753 H10   JB3 51 
JB3 H11   H11   H 0 1 N N N -16.163 -37.280 16.197 -5.694 1.691  -3.704 H11   JB3 52 
JB3 H12   H12   H 0 1 N N N -13.811 -39.989 15.661 -5.771 -0.589 -2.630 H12   JB3 53 
JB3 H13   H13   H 0 1 N N N -14.445 -40.938 17.713 -7.998 -0.769 -1.784 H13   JB3 54 
JB3 H14   H14   H 0 1 N N N -12.270 -40.359 17.568 -6.166 -1.792 -0.478 H14   JB3 55 
JB3 H15   H15   H 0 1 N N N -8.466  -39.734 16.638 -3.700 -3.598 -1.522 H15   JB3 56 
JB3 H16   H16   H 0 1 N N N -12.404 -43.591 14.166 -0.460 -1.258 2.437  H16   JB3 57 
JB3 H17   H17   H 0 1 N N N -8.790  -43.744 15.151 2.193  -2.667 1.431  H17   JB3 58 
JB3 H18   H18   H 0 1 N N N -8.265  -42.056 15.474 1.907  -4.019 0.309  H18   JB3 59 
JB3 H19   H19   H 0 1 N N N -7.155  -42.072 13.150 2.724  -2.557 -1.575 H19   JB3 60 
JB3 H20   H20   H 0 1 N N N -8.430  -44.584 12.903 4.284  -3.734 0.594  H20   JB3 61 
JB3 H21   H21   H 0 1 N N N -7.722  -43.234 11.144 5.724  -4.129 -1.298 H21   JB3 62 
JB3 H22   H22   H 0 1 N N N -7.003  -45.748 14.298 5.388  -1.746 1.185  H22   JB3 63 
JB3 H23   H23   H 0 1 N N N -5.292  -46.746 13.141 7.061  -2.842 -0.179 H23   JB3 64 
JB3 H24   H24   H 0 1 N N N -4.739  -43.922 13.312 4.789  -0.606 -1.602 H24   JB3 65 
JB3 H25   H25   H 0 1 N N N -6.156  -45.631 16.526 3.350  0.807  1.601  H25   JB3 66 
JB3 H26   H26   H 0 1 N N N -0.333  -43.194 13.413 9.016  1.293  -2.572 H26   JB3 67 
JB3 H27   H27   H 0 1 N N N 0.809   -43.664 14.628 9.705  2.721  -2.013 H27   JB3 68 
JB3 H28   H28   H 0 1 N N N 0.170   -44.739 16.465 8.697  3.918  -0.276 H28   JB3 69 
# 
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 
JB3 "O3'" "C3'" SING N N 1  
JB3 "O2'" "C2'" SING N N 2  
JB3 "C3'" "C2'" SING N N 3  
JB3 "C3'" "C4'" SING N N 4  
JB3 O1P   P     DOUB N N 5  
JB3 "C2'" "C1'" SING N N 6  
JB3 "C4'" "O4'" SING N N 7  
JB3 "C4'" "C5'" SING N N 8  
JB3 "O5'" P     SING N N 9  
JB3 "O5'" "C5'" SING N N 10 
JB3 "C1'" "O4'" SING N N 11 
JB3 "C1'" N9    SING N N 12 
JB3 P     O2P   SING N N 13 
JB3 P     OPP   SING N N 14 
JB3 N2    C2    SING N N 15 
JB3 O4P   P2    DOUB N N 16 
JB3 N3    C2    DOUB N N 17 
JB3 N3    C4    SING N N 18 
JB3 C2    N1    SING N N 19 
JB3 N9    C4    SING Y N 20 
JB3 N9    C8    SING Y N 21 
JB3 C4    C5    DOUB Y N 22 
JB3 OPP   P2    SING N N 23 
JB3 O3G   C3G   SING N N 24 
JB3 P2    O1G   SING N N 25 
JB3 P2    O3P   SING N N 26 
JB3 O1G   C1G   SING N N 27 
JB3 N1    C6    SING N N 28 
JB3 C3G   C2G   SING N N 29 
JB3 C3G   C4G   SING N N 30 
JB3 C8    N7    DOUB Y N 31 
JB3 C2G   C1G   SING N N 32 
JB3 C2G   O2G   SING N N 33 
JB3 C5    C6    SING N N 34 
JB3 C5    N7    SING Y N 35 
JB3 C5A   C4A   SING N N 36 
JB3 C6    O6    DOUB N N 37 
JB3 N4A   C4A   SING N N 38 
JB3 N4A   C4G   SING N N 39 
JB3 C4A   O4A   DOUB N N 40 
JB3 C1G   O5G   SING N N 41 
JB3 C4G   C5G   SING N N 42 
JB3 C5G   O5G   SING N N 43 
JB3 C5G   C6G   SING N N 44 
JB3 C5A   H1    SING N N 45 
JB3 C5A   H2    SING N N 46 
JB3 C5A   H3    SING N N 47 
JB3 N4A   H4    SING N N 48 
JB3 C4G   H5    SING N N 49 
JB3 C5G   H6    SING N N 50 
JB3 C6G   H7    SING N N 51 
JB3 C6G   H8    SING N N 52 
JB3 C6G   H9    SING N N 53 
JB3 C3G   H10   SING N N 54 
JB3 O3G   H11   SING N N 55 
JB3 C2G   H12   SING N N 56 
JB3 O2G   H13   SING N N 57 
JB3 C1G   H14   SING N N 58 
JB3 O3P   H15   SING N N 59 
JB3 O2P   H16   SING N N 60 
JB3 "C5'" H17   SING N N 61 
JB3 "C5'" H18   SING N N 62 
JB3 "C4'" H19   SING N N 63 
JB3 "C3'" H20   SING N N 64 
JB3 "O3'" H21   SING N N 65 
JB3 "C2'" H22   SING N N 66 
JB3 "O2'" H23   SING N N 67 
JB3 "C1'" H24   SING N N 68 
JB3 C8    H25   SING N N 69 
JB3 N2    H26   SING N N 70 
JB3 N2    H27   SING N N 71 
JB3 N1    H28   SING N N 72 
# 
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 
JB3 SMILES           ACDLabs              12.01 "O=C4NC(=Nc1c4ncn1C2OC(C(O)C2O)COP(=O)(OP(=O)(OC3OC(C(NC(=O)C)C(O)C3O)C)O)O)N" 
JB3 InChI            InChI                1.03  
;InChI=1S/C18H28N6O15P2/c1-5-8(21-6(2)25)11(27)13(29)17(36-5)38-41(33,34)39-40(31,32)35-3-7-10(26)12(28)16(37-7)24-4-20-9-14(24)22-18(19)23-15(9)30/h4-5,7-8,10-13,16-17,26-29H,3H2,1-2H3,(H,21,25)(H,31,32)(H,33,34)(H3,19,22,23,30)/t5-,7-,8-,10-,11+,12-,13+,16-,17-/m1/s1
;
JB3 InChIKey         InChI                1.03  QYYLCPNKZRMSFL-XEDXKBCUSA-N 
JB3 SMILES_CANONICAL CACTVS               3.370 "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)n3cnc4C(=O)NC(=Nc34)N)[C@@H](O)[C@@H](O)[C@@H]1NC(C)=O" 
JB3 SMILES           CACTVS               3.370 "C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4C(=O)NC(=Nc34)N)[CH](O)[CH](O)[CH]1NC(C)=O" 
JB3 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C[C@@H]1[C@H]([C@@H]([C@@H]([C@H](O1)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3N=C(NC4=O)N)O)O)O)O)NC(=O)C" 
JB3 SMILES           "OpenEye OEToolkits" 1.7.6 "CC1C(C(C(C(O1)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3N=C(NC4=O)N)O)O)O)O)NC(=O)C" 
# 
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 
JB3 "SYSTEMATIC NAME" ACDLabs              12.01 
"(2R,3S,4S,5S,6R)-5-(acetylamino)-3,4-dihydroxy-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)" 
JB3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3S,4S,5S,6R)-5-acetamido-6-methyl-3,4-bis(oxidanyl)oxan-2-yl] [[(2R,3S,4R,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-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 
JB3 "Create component" 2012-03-23 RCSB 
# 
