data_6CX
# 
_chem_comp.id                                    6CX 
_chem_comp.name                                  "5'-{[(3S)-3-amino-3-carboxypropyl][(1H-imidazol-4-yl)methyl]amino}-5'-deoxyadenosine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H25 N9 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-03-15 
_chem_comp.pdbx_modified_date                    2017-03-24 
_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                        447.448 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     6CX 
_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        5ISB 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
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 
6CX C2     C1  C 0 1 Y N N 50.244 42.012 127.250 6.207  0.674  0.830  C2     6CX 1  
6CX C4     C2  C 0 1 Y N N 50.048 39.696 127.279 4.088  -0.111 0.409  C4     6CX 2  
6CX C5     C3  C 0 1 Y N N 50.246 39.649 125.907 4.460  -1.361 0.931  C5     6CX 3  
6CX C6     C4  C 0 1 Y N N 50.429 40.854 125.234 5.778  -1.523 1.390  C6     6CX 4  
6CX C8     C5  C 0 1 Y N N 49.986 37.604 126.579 2.385  -1.508 0.319  C8     6CX 5  
6CX N9     N1  N 0 1 Y N N 49.882 38.415 127.656 2.775  -0.234 0.031  N9     6CX 6  
6CX C10    C6  C 0 1 N N N 52.212 33.176 131.239 -2.661 2.334  -0.327 C10    6CX 7  
6CX ND     N2  N 0 1 N N N 51.209 34.188 131.518 -2.395 0.902  -0.520 ND     6CX 8  
6CX CG     C7  C 0 1 N N N 51.519 34.740 132.850 -3.647 0.146  -0.646 CG     6CX 9  
6CX CB     C8  C 0 1 N N N 52.909 35.267 133.108 -3.364 -1.346 -0.457 CB     6CX 10 
6CX CA     C9  C 0 1 N N S 53.235 35.908 134.496 -4.683 -2.121 -0.463 CA     6CX 11 
6CX C      C10 C 0 1 N N N 53.727 34.811 135.387 -4.397 -3.599 -0.400 C      6CX 12 
6CX O      O1  O 0 1 N N N 54.907 34.415 135.188 -4.489 -4.188 0.651  O      6CX 13 
6CX OXT    O2  O 0 1 N N N 52.974 34.211 136.223 -4.041 -4.262 -1.512 OXT    6CX 14 
6CX N      N3  N 0 1 N N N 54.303 36.843 134.258 -5.488 -1.727 0.701  N      6CX 15 
6CX "C5'"  C11 C 0 1 N N N 51.266 35.225 130.467 -1.526 0.680  -1.683 "C5'"  6CX 16 
6CX "C4'"  C12 C 0 1 N N R 50.561 36.557 130.590 -0.143 1.274  -1.408 "C4'"  6CX 17 
6CX "C3'"  C13 C 0 1 N N S 49.094 36.399 130.610 0.750  1.164  -2.664 "C3'"  6CX 18 
6CX "C2'"  C14 C 0 1 N N R 48.644 37.027 129.382 2.154  0.853  -2.100 "C2'"  6CX 19 
6CX "O2'"  O3  O 0 1 N N N 47.363 37.625 129.505 3.075  1.887  -2.451 "O2'"  6CX 20 
6CX "C1'"  C15 C 0 1 N N R 49.700 38.031 129.067 1.944  0.812  -0.570 "C1'"  6CX 21 
6CX N3     N4  N 0 1 Y N N 50.047 40.887 127.914 4.985  0.869  0.378  N3     6CX 22 
6CX N1     N5  N 0 1 Y N N 50.428 42.011 125.936 6.604  -0.484 1.324  N1     6CX 23 
6CX N6     N6  N 0 1 N N N 50.653 40.878 123.862 6.201  -2.732 1.915  N6     6CX 24 
6CX N7     N7  N 0 1 Y N N 50.190 38.354 125.511 3.375  -2.168 0.846  N7     6CX 25 
6CX "O4'"  O4  O 0 1 N N N 50.861 37.314 129.471 0.544  0.503  -0.398 "O4'"  6CX 26 
6CX "O3'"  O5  O 0 1 N N N 48.605 37.012 131.780 0.760  2.400  -3.381 "O3'"  6CX 27 
6CX C51    C16 C 0 1 Y N N 52.085 32.378 129.979 -3.123 2.574  1.087  C51    6CX 28 
6CX C52    C17 C 0 1 Y N N 50.907 31.985 129.463 -2.344 2.937  2.123  C52    6CX 29 
6CX N53    N8  N 0 1 Y N N 51.098 31.262 128.298 -3.162 3.045  3.215  N53    6CX 30 
6CX C54    C18 C 0 1 Y N N 52.500 31.289 128.224 -4.414 2.744  2.808  C54    6CX 31 
6CX N55    N9  N 0 1 Y N N 53.050 31.968 129.241 -4.384 2.468  1.533  N55    6CX 32 
6CX H21    H1  H 0 1 N N N 50.255 42.949 127.786 6.912  1.491  0.790  H21    6CX 33 
6CX H81    H2  H 0 1 N N N 49.914 36.526 126.590 1.399  -1.911 0.136  H81    6CX 34 
6CX H102   H3  H 0 0 N N N 52.198 32.464 132.078 -1.750 2.902  -0.513 H102   6CX 35 
6CX H101   H4  H 0 0 N N N 53.187 33.685 131.205 -3.437 2.656  -1.023 H101   6CX 36 
6CX HG2    H6  H 0 1 N N N 50.819 35.570 133.028 -4.353 0.481  0.115  HG2    6CX 37 
6CX HG3    H7  H 0 1 N N N 51.334 33.941 133.583 -4.074 0.312  -1.635 HG3    6CX 38 
6CX HB2    H8  H 0 1 N N N 53.603 34.424 132.972 -2.730 -1.701 -1.269 HB2    6CX 39 
6CX HB3    H9  H 0 1 N N N 53.109 36.034 132.345 -2.856 -1.501 0.495  HB3    6CX 40 
6CX HA     H10 H 0 1 N N N 52.341 36.394 134.914 -5.232 -1.895 -1.377 HA     6CX 41 
6CX H3     H11 H 0 1 N N N 53.448 33.486 136.613 -3.868 -5.209 -1.422 H3     6CX 42 
6CX H2     H12 H 0 1 N N N 54.556 37.287 135.118 -6.391 -2.177 0.685  H2     6CX 43 
6CX H      H13 H 0 1 N N N 55.095 36.357 133.889 -5.000 -1.926 1.562  H      6CX 44 
6CX "H5'2" H15 H 0 0 N N N 50.870 34.755 129.555 -1.431 -0.390 -1.867 "H5'2" 6CX 45 
6CX "H5'1" H16 H 0 0 N N N 52.332 35.457 130.327 -1.961 1.162  -2.559 "H5'1" 6CX 46 
6CX "H4'1" H17 H 0 0 N N N 50.894 37.060 131.510 -0.233 2.315  -1.097 "H4'1" 6CX 47 
6CX "H3'1" H18 H 0 0 N N N 48.839 35.329 130.599 0.406  0.354  -3.306 "H3'1" 6CX 48 
6CX "H2'1" H19 H 0 0 N N N 48.624 36.275 128.579 2.507  -0.112 -2.465 "H2'1" 6CX 49 
6CX "H2'2" H20 H 0 0 N N N 46.719 36.956 129.705 3.199  1.997  -3.404 "H2'2" 6CX 50 
6CX "H1'1" H21 H 0 0 N N N 49.559 38.928 129.687 2.177  1.781  -0.129 "H1'1" 6CX 51 
6CX H61    H22 H 0 1 N N N 50.793 41.822 123.563 5.586  -3.480 1.969  H61    6CX 52 
6CX H62    H23 H 0 1 N N N 51.466 40.337 123.648 7.114  -2.831 2.228  H62    6CX 53 
6CX "H3'2" H24 H 0 0 N N N 48.938 36.552 132.542 1.306  2.387  -4.179 "H3'2" 6CX 54 
6CX H521   H25 H 0 0 N N N 49.943 32.204 129.898 -1.278 3.109  2.098  H521   6CX 55 
6CX H531   H26 H 0 0 N N N 50.429 30.841 127.685 -2.893 3.292  4.114  H531   6CX 56 
6CX H541   H27 H 0 0 N N N 53.070 30.817 127.438 -5.295 2.737  3.433  H541   6CX 57 
# 
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 
6CX N6    C6     SING N N 1  
6CX C6    C5     DOUB Y N 2  
6CX C6    N1     SING Y N 3  
6CX N7    C5     SING Y N 4  
6CX N7    C8     DOUB Y N 5  
6CX C5    C4     SING Y N 6  
6CX N1    C2     DOUB Y N 7  
6CX C8    N9     SING Y N 8  
6CX C2    N3     SING Y N 9  
6CX C4    N9     SING Y N 10 
6CX C4    N3     DOUB Y N 11 
6CX N9    "C1'"  SING N N 12 
6CX C54   N53    SING Y N 13 
6CX C54   N55    DOUB Y N 14 
6CX N53   C52    SING Y N 15 
6CX "C1'" "C2'"  SING N N 16 
6CX "C1'" "O4'"  SING N N 17 
6CX N55   C51    SING Y N 18 
6CX "C2'" "O2'"  SING N N 19 
6CX "C2'" "C3'"  SING N N 20 
6CX C52   C51    DOUB Y N 21 
6CX "O4'" "C4'"  SING N N 22 
6CX C51   C10    SING N N 23 
6CX "C5'" "C4'"  SING N N 24 
6CX "C5'" ND     SING N N 25 
6CX "C4'" "C3'"  SING N N 26 
6CX "C3'" "O3'"  SING N N 27 
6CX C10   ND     SING N N 28 
6CX ND    CG     SING N N 29 
6CX CG    CB     SING N N 30 
6CX CB    CA     SING N N 31 
6CX N     CA     SING N N 32 
6CX CA    C      SING N N 33 
6CX O     C      DOUB N N 34 
6CX C     OXT    SING N N 35 
6CX C2    H21    SING N N 36 
6CX C8    H81    SING N N 37 
6CX C10   H102   SING N N 38 
6CX C10   H101   SING N N 39 
6CX CG    HG2    SING N N 40 
6CX CG    HG3    SING N N 41 
6CX CB    HB2    SING N N 42 
6CX CB    HB3    SING N N 43 
6CX CA    HA     SING N N 44 
6CX OXT   H3     SING N N 45 
6CX N     H2     SING N N 46 
6CX N     H      SING N N 47 
6CX "C5'" "H5'2" SING N N 48 
6CX "C5'" "H5'1" SING N N 49 
6CX "C4'" "H4'1" SING N N 50 
6CX "C3'" "H3'1" SING N N 51 
6CX "C2'" "H2'1" SING N N 52 
6CX "O2'" "H2'2" SING N N 53 
6CX "C1'" "H1'1" SING N N 54 
6CX N6    H61    SING N N 55 
6CX N6    H62    SING N N 56 
6CX "O3'" "H3'2" SING N N 57 
6CX C52   H521   SING N N 58 
6CX N53   H531   SING N N 59 
6CX C54   H541   SING N N 60 
# 
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 
6CX SMILES           ACDLabs              12.01 "c2nc1n(cnc1c(n2)N)C4C(C(C(CN(Cc3cncn3)CCC(C(O)=O)N)O4)O)O" 
6CX InChI            InChI                1.03  
"InChI=1S/C18H25N9O5/c19-10(18(30)31)1-2-26(4-9-3-21-6-22-9)5-11-13(28)14(29)17(32-11)27-8-25-12-15(20)23-7-24-16(12)27/h3,6-8,10-11,13-14,17,28-29H,1-2,4-5,19H2,(H,21,22)(H,30,31)(H2,20,23,24)/t10-,11+,13+,14+,17+/m0/s1" 
6CX InChIKey         InChI                1.03  PWEFHAQFFKNLPL-YRGUDCOPSA-N 
6CX SMILES_CANONICAL CACTVS               3.385 "N[C@@H](CCN(C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)Cc4c[nH]cn4)C(O)=O" 
6CX SMILES           CACTVS               3.385 "N[CH](CCN(C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)Cc4c[nH]cn4)C(O)=O" 
6CX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "c1c(nc[nH]1)CN(CC[C@@H](C(=O)O)N)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" 
6CX SMILES           "OpenEye OEToolkits" 2.0.4 "c1c(nc[nH]1)CN(CCC(C(=O)O)N)CC2C(C(C(O2)n3cnc4c3ncnc4N)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 
6CX "SYSTEMATIC NAME" ACDLabs              12.01 "5'-{[(3S)-3-amino-3-carboxypropyl][(1H-imidazol-4-yl)methyl]amino}-5'-deoxyadenosine"                                                                     
6CX "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.4 "(2~{S})-4-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(1~{H}-imidazol-4-ylmethyl)amino]-2-azanyl-butanoic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
6CX "Create component" 2016-03-15 EBI  
6CX "Initial release"  2017-03-29 RCSB 
# 
