data_4E9
# 
_chem_comp.id                                    4E9 
_chem_comp.name                                  
;2'-deoxy-8-[(7-oxo-7H-benzo[de]anthracen-3-yl)amino]guanosine 5'-(dihydrogen phosphate)
;
_chem_comp.type                                  "DNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C27 H23 N6 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-07-16 
_chem_comp.pdbx_modified_date                    2016-07-01 
_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                        590.481 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     4E9 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        2N4M 
_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 
4E9 "O5'"  "O5'"  O 0 1 N N N 0.137  -7.792  26.226 -2.245 3.852  -0.909 "O5'"  4E9 1  
4E9 "C5'"  "C5'"  C 0 1 N N N -0.623 -6.596  26.364 -1.959 3.328  0.389  "C5'"  4E9 2  
4E9 "C4'"  "C4'"  C 0 1 N N R -0.841 -5.883  25.016 -3.023 2.296  0.769  "C4'"  4E9 3  
4E9 "O4'"  "O4'"  O 0 1 N N N 0.406  -5.410  24.514 -2.939 1.139  -0.090 "O4'"  4E9 4  
4E9 "C1'"  "C1'"  C 0 1 N N R 0.465  -5.677  23.135 -3.572 0.052  0.606  "C1'"  4E9 5  
4E9 N9     N9     N 0 1 Y N N 1.889  -5.604  22.674 -2.892 -1.206 0.288  N9     4E9 6  
4E9 C4     C4     C 0 1 Y N N 2.829  -6.616  22.575 -3.495 -2.403 -0.003 C4     4E9 7  
4E9 N3     N3     N 0 1 N N N 2.675  -7.925  22.925 -4.768 -2.806 -0.091 N3     4E9 8  
4E9 C2     C2     C 0 1 N N N 3.796  -8.630  22.890 -5.068 -4.049 -0.396 C2     4E9 9  
4E9 N1     N1     N 0 1 N N N 4.988  -8.152  22.471 -4.104 -4.983 -0.636 N1     4E9 10 
4E9 C6     C6     C 0 1 N N N 5.183  -6.856  22.041 -2.797 -4.649 -0.565 C6     4E9 11 
4E9 C5     C5     C 0 1 Y N N 4.001  -6.033  22.138 -2.461 -3.315 -0.239 C5     4E9 12 
4E9 N7     N7     N 0 1 Y N N 3.816  -4.665  21.950 -1.289 -2.648 -0.085 N7     4E9 13 
4E9 C8     C8     C 0 1 Y N N 2.594  -4.470  22.342 -1.538 -1.400 0.221  C8     4E9 14 
4E9 "C2'"  "C2'"  C 0 1 N N N -0.298 -6.996  22.988 -3.454 0.345  2.115  "C2'"  4E9 15 
4E9 "C3'"  "C3'"  C 0 1 N N S -1.468 -6.793  23.943 -2.744 1.719  2.180  "C3'"  4E9 16 
4E9 "O3'"  "O3'"  O 0 1 N N N -2.536 -6.195  23.213 -3.325 2.544  3.193  "O3'"  4E9 17 
4E9 P      P      P 0 1 N N N 0.774  -8.552  27.497 -1.329 4.964  -1.627 P      4E9 18 
4E9 OP1    OP1    O 0 1 N N N -0.135 -8.405  28.655 -1.871 5.222  -3.121 OP1    4E9 19 
4E9 OP2    OP2    O 0 1 N N N 1.186  -9.907  27.067 -1.394 6.337  -0.788 OP2    4E9 20 
4E9 O6     O6     O 0 1 N N N 6.313  -6.553  21.661 -1.928 -5.478 -0.777 O6     4E9 21 
4E9 N24    N24    N 0 1 N N N 3.779  -9.831  23.392 -6.388 -4.417 -0.475 N24    4E9 22 
4E9 N8     N8     N 0 1 N N N 2.048  -3.210  22.493 -0.581 -0.427 0.445  N8     4E9 23 
4E9 C10    C10    C 0 1 Y N N 2.658  -2.016  22.272 0.759  -0.710 0.229  C10    4E9 24 
4E9 C11    C11    C 0 1 Y N N 2.447  -0.897  23.155 1.758  0.144  0.750  C11    4E9 25 
4E9 C12    C12    C 0 1 Y N N 1.619  -1.002  24.287 1.419  1.286  1.489  C12    4E9 26 
4E9 C13    C13    C 0 1 Y N N 1.421  0.093   25.133 2.405  2.106  1.988  C13    4E9 27 
4E9 C14    C14    C 0 1 Y N N 2.044  1.317   24.869 3.744  1.823  1.772  C14    4E9 28 
4E9 C15    C15    C 0 1 Y N N 2.884  1.480   23.757 4.117  0.697  1.042  C15    4E9 29 
4E9 C16    C16    C 0 1 N N N 3.481  2.677   23.521 5.537  0.394  0.811  C16    4E9 30 
4E9 O27    O27    O 0 1 N N N 3.270  3.614   24.302 6.405  1.124  1.256  O27    4E9 31 
4E9 C17    C17    C 0 1 Y N N 4.302  2.874   22.454 5.894  -0.804 0.036  C17    4E9 32 
4E9 C18    C18    C 0 1 Y N N 4.897  4.135   22.260 7.233  -1.122 -0.203 C18    4E9 33 
4E9 C19    C19    C 0 1 Y N N 5.748  4.380   21.176 7.549  -2.247 -0.932 C19    4E9 34 
4E9 C20    C20    C 0 1 Y N N 6.011  3.356   20.264 6.547  -3.068 -1.431 C20    4E9 35 
4E9 C21    C21    C 0 1 Y N N 5.434  2.087   20.435 5.221  -2.771 -1.207 C21    4E9 36 
4E9 C22    C22    C 0 1 Y N N 4.573  1.807   21.521 4.877  -1.636 -0.471 C22    4E9 37 
4E9 C23    C23    C 0 1 Y N N 3.952  0.518   21.741 3.463  -1.307 -0.223 C23    4E9 38 
4E9 C24    C24    C 0 1 Y N N 4.130  -0.602  20.908 2.454  -2.130 -0.723 C24    4E9 39 
4E9 C26    C26    C 0 1 Y N N 3.094  0.363   22.882 3.120  -0.159 0.520  C26    4E9 40 
4E9 C25    C25    C 0 1 Y N N 3.498  -1.830  21.171 1.124  -1.834 -0.494 C25    4E9 41 
4E9 "H5'"  "H5'"  H 0 1 N N N -1.604 -6.848  26.794 -0.978 2.852  0.380  "H5'"  4E9 42 
4E9 "H5''" "H5''" H 0 0 N N N -0.089 -5.914  27.043 -1.962 4.139  1.118  "H5''" 4E9 43 
4E9 "H4'"  "H4'"  H 0 1 N N N -1.519 -5.033  25.184 -4.018 2.738  0.722  "H4'"  4E9 44 
4E9 "H1'"  "H1'"  H 0 1 N N N -0.104 -4.905  22.595 -4.621 -0.011 0.319  "H1'"  4E9 45 
4E9 H1     H1     H 0 1 N N N 5.772  -8.772  22.473 -4.359 -5.892 -0.859 H1     4E9 46 
4E9 "H2'"  "H2'"  H 0 1 N N N -0.646 -7.143  21.955 -4.442 0.403  2.570  "H2'"  4E9 47 
4E9 "H2''" "H2''" H 0 0 N N N 0.322  -7.852  23.292 -2.851 -0.420 2.605  "H2''" 4E9 48 
4E9 "H3'"  "H3'"  H 0 1 N N N -1.767 -7.753  24.390 -1.674 1.597  2.346  "H3'"  4E9 49 
4E9 H2     H2     H 0 1 N N N -2.869 -6.814  22.574 -3.178 2.225  4.093  H2     4E9 50 
4E9 H3     H3     H 0 1 N N N 0.235  -8.851  29.408 -1.365 5.883  -3.614 H3     4E9 51 
4E9 H4     H4     H 0 1 N N N 1.565  -10.372 27.804 -2.284 6.707  -0.709 H4     4E9 52 
4E9 H21    H21    H 0 1 N N N 2.936  -10.195 23.788 -7.084 -3.763 -0.306 H21    4E9 53 
4E9 H22    H22    H 0 1 N N N 4.609  -10.389 23.381 -6.624 -5.331 -0.699 H22    4E9 54 
4E9 H10    H10    H 0 1 N N N 1.097  -3.172  22.799 -0.847 0.453  0.753  H10    4E9 55 
4E9 H12    H12    H 0 1 N N N 1.130  -1.940  24.505 0.380  1.524  1.667  H12    4E9 56 
4E9 H13    H13    H 0 1 N N N 0.782  -0.007  25.998 2.132  2.984  2.556  H13    4E9 57 
4E9 H14    H14    H 0 1 N N N 1.875  2.152   25.533 4.503  2.479  2.172  H14    4E9 58 
4E9 H18    H18    H 0 1 N N N 4.693  4.930   22.962 8.018  -0.488 0.182  H18    4E9 59 
4E9 H19    H19    H 0 1 N N N 6.198  5.353   21.046 8.585  -2.493 -1.116 H19    4E9 60 
4E9 H20    H20    H 0 1 N N N 6.662  3.541   19.422 6.810  -3.947 -2.001 H20    4E9 61 
4E9 H23    H23    H 0 1 N N N 5.653  1.307   19.721 4.448  -3.415 -1.600 H23    4E9 62 
4E9 H24    H24    H 0 1 N N N 4.770  -0.516  20.042 2.716  -3.009 -1.293 H24    4E9 63 
4E9 H25    H25    H 0 1 N N N 3.668  -2.658  20.499 0.358  -2.487 -0.887 H25    4E9 64 
4E9 OP3    OP3    O 0 1 N N N ?      ?       ?      0.071  4.487  -1.686 OP3    4E9 65 
# 
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 
4E9 "O5'" "C5'"  SING N N 1  
4E9 "O5'" P      SING N N 2  
4E9 "C5'" "C4'"  SING N N 3  
4E9 "C4'" "O4'"  SING N N 4  
4E9 "C4'" "C3'"  SING N N 5  
4E9 "O4'" "C1'"  SING N N 6  
4E9 "C1'" N9     SING N N 7  
4E9 "C1'" "C2'"  SING N N 8  
4E9 N9    C4     SING Y N 9  
4E9 N9    C8     SING Y N 10 
4E9 C4    N3     SING N N 11 
4E9 C4    C5     DOUB Y N 12 
4E9 N3    C2     DOUB N N 13 
4E9 C2    N1     SING N N 14 
4E9 C2    N24    SING N N 15 
4E9 N1    C6     SING N N 16 
4E9 C6    C5     SING N N 17 
4E9 C6    O6     DOUB N N 18 
4E9 C5    N7     SING Y N 19 
4E9 N7    C8     DOUB Y N 20 
4E9 C8    N8     SING N N 21 
4E9 "C2'" "C3'"  SING N N 22 
4E9 "C3'" "O3'"  SING N N 23 
4E9 P     OP1    SING N N 24 
4E9 P     OP2    SING N N 25 
4E9 N8    C10    SING N N 26 
4E9 C10   C11    DOUB Y N 27 
4E9 C10   C25    SING Y N 28 
4E9 C11   C12    SING Y N 29 
4E9 C11   C26    SING Y N 30 
4E9 C12   C13    DOUB Y N 31 
4E9 C13   C14    SING Y N 32 
4E9 C14   C15    DOUB Y N 33 
4E9 C15   C16    SING N N 34 
4E9 C15   C26    SING Y N 35 
4E9 C16   O27    DOUB N N 36 
4E9 C16   C17    SING N N 37 
4E9 C17   C18    DOUB Y N 38 
4E9 C17   C22    SING Y N 39 
4E9 C18   C19    SING Y N 40 
4E9 C19   C20    DOUB Y N 41 
4E9 C20   C21    SING Y N 42 
4E9 C21   C22    DOUB Y N 43 
4E9 C22   C23    SING N N 44 
4E9 C23   C24    SING Y N 45 
4E9 C23   C26    DOUB Y N 46 
4E9 C24   C25    DOUB Y N 47 
4E9 "C5'" "H5'"  SING N N 48 
4E9 "C5'" "H5''" SING N N 49 
4E9 "C4'" "H4'"  SING N N 50 
4E9 "C1'" "H1'"  SING N N 51 
4E9 N1    H1     SING N N 52 
4E9 "C2'" "H2'"  SING N N 53 
4E9 "C2'" "H2''" SING N N 54 
4E9 "C3'" "H3'"  SING N N 55 
4E9 "O3'" H2     SING N N 56 
4E9 OP1   H3     SING N N 57 
4E9 OP2   H4     SING N N 58 
4E9 N24   H21    SING N N 59 
4E9 N24   H22    SING N N 60 
4E9 N8    H10    SING N N 61 
4E9 C12   H12    SING N N 62 
4E9 C13   H13    SING N N 63 
4E9 C14   H14    SING N N 64 
4E9 C18   H18    SING N N 65 
4E9 C19   H19    SING N N 66 
4E9 C20   H20    SING N N 67 
4E9 C21   H23    SING N N 68 
4E9 C24   H24    SING N N 69 
4E9 C25   H25    SING N N 70 
4E9 P     OP3    DOUB N N 71 
# 
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 
4E9 SMILES           ACDLabs              12.01 "O(CC7OC(n2c1N=C(NC(c1nc2Nc4c5cccc6C(=O)c3ccccc3c(cc4)c56)=O)N)CC7O)P(O)(O)=O" 
4E9 InChI            InChI                1.03  
"InChI=1S/C27H23N6O8P/c28-26-31-24-22(25(36)32-26)30-27(33(24)20-10-18(34)19(41-20)11-40-42(37,38)39)29-17-9-8-13-12-4-1-2-5-14(12)23(35)16-7-3-6-15(17)21(13)16/h1-9,18-20,34H,10-11H2,(H,29,30)(H2,37,38,39)(H3,28,31,32,36)/t18-,19+,20+/m0/s1" 
4E9 InChIKey         InChI                1.03  JKGHGBFHLIPVJU-XUVXKRRUSA-N 
4E9 SMILES_CANONICAL CACTVS               3.385 "NC1=Nc2n([C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)c(Nc4ccc5c6ccccc6C(=O)c7cccc4c57)nc2C(=O)N1" 
4E9 SMILES           CACTVS               3.385 "NC1=Nc2n([CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)c(Nc4ccc5c6ccccc6C(=O)c7cccc4c57)nc2C(=O)N1" 
4E9 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "c1ccc2c(c1)-c3ccc(c4c3c(ccc4)C2=O)Nc5nc6c(n5[C@H]7C[C@@H]([C@H](O7)COP(=O)(O)O)O)N=C(NC6=O)N" 
4E9 SMILES           "OpenEye OEToolkits" 1.7.6 "c1ccc2c(c1)-c3ccc(c4c3c(ccc4)C2=O)Nc5nc6c(n5C7CC(C(O7)COP(=O)(O)O)O)N=C(NC6=O)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 
4E9 "SYSTEMATIC NAME" ACDLabs              12.01 
;2'-deoxy-8-[(7-oxo-7H-benzo[de]anthracen-3-yl)amino]guanosine 5'-(dihydrogen phosphate)
;
4E9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3S,5R)-5-[2-azanyl-6-oxidanylidene-8-[(7-oxidanylidenebenzo[a]phenalen-3-yl)amino]-1H-purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen 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 
4E9 "Create component" 2015-07-16 RCSB 
4E9 "Initial release"  2016-07-06 RCSB 
# 
