data_KGV
# 
_chem_comp.id                                    KGV 
_chem_comp.name                                  
;3'-deoxy-3'-(D-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)
;
_chem_comp.type                                  "RNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C19 H24 N7 O7 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-12-04 
_chem_comp.pdbx_modified_date                    2018-12-07 
_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                        493.410 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     KGV 
_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        6N9F 
_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 
KGV C2    C1  C 0 1 Y N N 87.963 -45.987 3.301  0.949  -5.307 -0.600 C2    KGV 1  
KGV C4    C2  C 0 1 Y N N 89.307 -46.755 1.553  1.971  -3.274 -0.275 C4    KGV 2  
KGV C5    C3  C 0 1 Y N N 89.849 -45.399 1.401  3.184  -3.936 -0.021 C5    KGV 3  
KGV C6    C4  C 0 1 Y N N 89.336 -44.360 2.314  3.196  -5.341 -0.072 C6    KGV 4  
KGV N7    N1  N 0 1 Y N N 90.740 -45.444 0.400  4.112  -2.984 0.236  N7    KGV 5  
KGV O     O1  O 0 1 N N N 91.297 -50.046 -4.264 -2.100 1.024  2.397  O     KGV 6  
KGV C     C5  C 0 1 N N N 90.418 -50.806 -3.901 -2.320 1.045  1.204  C     KGV 7  
KGV CA    C6  C 0 1 N N R 90.104 -52.025 -4.704 -3.739 1.132  0.702  CA    KGV 8  
KGV CB    C7  C 0 1 N N N 90.381 -53.227 -3.818 -4.219 -0.260 0.287  CB    KGV 9  
KGV CG    C8  C 0 1 Y N N 90.206 -54.505 -4.597 -5.590 -0.154 -0.329 CG    KGV 10 
KGV CD2   C9  C 0 1 Y N N 91.232 -54.961 -5.412 -6.716 -0.251 0.468  CD2   KGV 11 
KGV CE2   C10 C 0 1 Y N N 91.074 -56.142 -6.126 -7.973 -0.149 -0.096 CE2   KGV 12 
KGV CZ    C11 C 0 1 Y N N 89.892 -56.866 -6.021 -8.106 0.049  -1.458 CZ    KGV 13 
KGV CE1   C12 C 0 1 Y N N 88.865 -56.412 -5.203 -6.981 0.147  -2.255 CE1   KGV 14 
KGV CD1   C13 C 0 1 Y N N 89.027 -55.232 -4.490 -5.723 0.044  -1.691 CD1   KGV 15 
KGV N     N2  N 0 1 N N N 88.706 -51.988 -5.080 -4.605 1.652  1.768  N     KGV 16 
KGV "N3'" N3  N 0 1 N N N 89.710 -50.621 -2.790 -1.297 0.989  0.329  "N3'" KGV 17 
KGV "C3'" C14 C 0 1 N N S 90.103 -49.584 -1.862 0.081  0.904  0.817  "C3'" KGV 18 
KGV "C4'" C15 C 0 1 N N S 91.239 -50.059 -0.980 1.061  1.464  -0.232 "C4'" KGV 19 
KGV "C5'" C16 C 0 1 N N N 92.541 -49.459 -1.487 1.833  2.647  0.355  "C5'" KGV 20 
KGV "O5'" O2  O 0 1 N N N 93.401 -49.143 -0.400 2.652  3.232  -0.659 "O5'" KGV 21 
KGV P     P1  P 0 1 N N N 94.850 -48.521 -0.704 3.604  4.503  -0.393 P     KGV 22 
KGV OP2   O3  O 0 1 N N N 95.865 -49.612 -0.460 2.698  5.786  -0.039 OP2   KGV 23 
KGV OP1   O4  O 0 1 N N N 94.816 -47.823 -2.042 4.511  4.212  0.739  OP1   KGV 24 
KGV "C2'" C17 C 0 1 N N R 88.998 -49.189 -0.908 0.507  -0.575 0.984  "C2'" KGV 25 
KGV "O2'" O5  O 0 1 N N N 88.083 -50.272 -0.769 -0.636 -1.426 1.082  "O2'" KGV 26 
KGV "C1'" C18 C 0 1 N N R 89.686 -48.965 0.422  1.282  -0.839 -0.332 "C1'" KGV 27 
KGV "O4'" O6  O 0 1 N N N 90.963 -49.602 0.343  1.973  0.406  -0.572 "O4'" KGV 28 
KGV N9    N4  N 0 1 Y N N 89.908 -47.511 0.640  2.240  -1.934 -0.156 N9    KGV 29 
KGV C8    C19 C 0 1 Y N N 90.762 -46.725 -0.047 3.560  -1.808 0.157  C8    KGV 30 
KGV N3    N5  N 0 1 Y N N 88.383 -46.982 2.506  0.889  -3.993 -0.558 N3    KGV 31 
KGV N1    N6  N 0 1 Y N N 88.411 -44.725 3.222  2.065  -5.974 -0.363 N1    KGV 32 
KGV N6    N7  N 0 1 N N N 89.794 -43.037 2.242  4.361  -6.048 0.169  N6    KGV 33 
KGV OP3   O7  O 0 1 N Y N 93.843 -48.478 0.484  4.474  4.808  -1.713 O1    KGV 34 
KGV H1    H1  H 0 1 N N N 87.219 -46.215 4.050  0.052  -5.861 -0.833 H1    KGV 35 
KGV H2    H2  H 0 1 N N N 90.746 -52.065 -5.596 -3.779 1.802  -0.157 H2    KGV 36 
KGV H3    H3  H 0 1 N N N 91.413 -53.170 -3.442 -3.526 -0.682 -0.440 H3    KGV 37 
KGV H4    H4  H 0 1 N N N 89.681 -53.221 -2.970 -4.264 -0.905 1.164  H4    KGV 38 
KGV H5    H5  H 0 1 N N N 92.151 -54.399 -5.491 -6.612 -0.406 1.532  H5    KGV 39 
KGV H6    H6  H 0 1 N N N 91.870 -56.498 -6.763 -8.852 -0.225 0.527  H6    KGV 40 
KGV H7    H7  H 0 1 N N N 89.772 -57.784 -6.577 -9.089 0.128  -1.899 H7    KGV 41 
KGV H8    H8  H 0 1 N N N 87.946 -56.974 -5.122 -7.085 0.302  -3.319 H8    KGV 42 
KGV H9    H9  H 0 1 N N N 88.233 -54.878 -3.849 -4.844 0.124  -2.313 H9    KGV 43 
KGV H10   H10 H 0 1 N N N 88.484 -52.800 -5.619 -4.585 1.048  2.577  H10   KGV 44 
KGV H11   H11 H 0 1 N N N 88.140 -51.969 -4.256 -4.348 2.596  2.016  H11   KGV 45 
KGV H13   H13 H 0 1 N N N 88.913 -51.194 -2.598 -1.474 1.006  -0.625 H13   KGV 46 
KGV H14   H14 H 0 1 N N N 90.431 -48.692 -2.416 0.185  1.441  1.760  H14   KGV 47 
KGV H15   H15 H 0 1 N N N 91.300 -51.157 -1.013 0.513  1.780  -1.120 H15   KGV 48 
KGV H16   H16 H 0 1 N N N 93.041 -50.184 -2.145 1.129  3.391  0.727  H16   KGV 49 
KGV H17   H17 H 0 1 N N N 92.321 -48.542 -2.053 2.461  2.300  1.175  H17   KGV 50 
KGV HOP2  H18 H 0 0 N N N 96.396 -49.731 -1.239 2.079  6.035  -0.738 H18   KGV 51 
KGV H19   H19 H 0 1 N N N 88.501 -48.269 -1.248 1.157  -0.697 1.850  H19   KGV 52 
KGV H20   H20 H 0 1 N N N 87.388 -50.025 -0.170 -0.421 -2.363 1.187  H20   KGV 53 
KGV H21   H21 H 0 1 N N N 89.079 -49.387 1.236  0.592  -1.061 -1.146 H21   KGV 54 
KGV H22   H22 H 0 1 N N N 91.388 -47.073 -0.855 4.073  -0.871 0.317  H22   KGV 55 
KGV H23   H23 H 0 1 N N N 89.333 -42.486 2.937  5.182  -5.574 0.376  H23   KGV 56 
KGV H24   H24 H 0 1 N N N 90.781 -43.017 2.402  4.357  -7.017 0.131  H24   KGV 57 
KGV HOP3  H25 H 0 0 N Y N 93.118 -47.904 0.265  5.071  5.563  -1.624 H25   KGV 58 
# 
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 
KGV CE2   CZ    DOUB Y N 1  
KGV CE2   CD2   SING Y N 2  
KGV CZ    CE1   SING Y N 3  
KGV CD2   CG    DOUB Y N 4  
KGV CE1   CD1   DOUB Y N 5  
KGV N     CA    SING N N 6  
KGV CA    C     SING N N 7  
KGV CA    CB    SING N N 8  
KGV CG    CD1   SING Y N 9  
KGV CG    CB    SING N N 10 
KGV O     C     DOUB N N 11 
KGV C     "N3'" SING N N 12 
KGV "N3'" "C3'" SING N N 13 
KGV OP1   P     DOUB N N 14 
KGV "C3'" "C4'" SING N N 15 
KGV "C3'" "C2'" SING N N 16 
KGV "C5'" "C4'" SING N N 17 
KGV "C5'" "O5'" SING N N 18 
KGV "C4'" "O4'" SING N N 19 
KGV "C2'" "O2'" SING N N 20 
KGV "C2'" "C1'" SING N N 21 
KGV P     OP2   SING N N 22 
KGV P     "O5'" SING N N 23 
KGV C8    N7    DOUB Y N 24 
KGV C8    N9    SING Y N 25 
KGV "O4'" "C1'" SING N N 26 
KGV N7    C5    SING Y N 27 
KGV "C1'" N9    SING N N 28 
KGV N9    C4    SING Y N 29 
KGV C5    C4    DOUB Y N 30 
KGV C5    C6    SING Y N 31 
KGV C4    N3    SING Y N 32 
KGV N6    C6    SING N N 33 
KGV C6    N1    DOUB Y N 34 
KGV N3    C2    DOUB Y N 35 
KGV N1    C2    SING Y N 36 
KGV P     OP3   SING N N 37 
KGV C2    H1    SING N N 38 
KGV CA    H2    SING N N 39 
KGV CB    H3    SING N N 40 
KGV CB    H4    SING N N 41 
KGV CD2   H5    SING N N 42 
KGV CE2   H6    SING N N 43 
KGV CZ    H7    SING N N 44 
KGV CE1   H8    SING N N 45 
KGV CD1   H9    SING N N 46 
KGV N     H10   SING N N 47 
KGV N     H11   SING N N 48 
KGV "N3'" H13   SING N N 49 
KGV "C3'" H14   SING N N 50 
KGV "C4'" H15   SING N N 51 
KGV "C5'" H16   SING N N 52 
KGV "C5'" H17   SING N N 53 
KGV OP2   HOP2  SING N N 54 
KGV "C2'" H19   SING N N 55 
KGV "O2'" H20   SING N N 56 
KGV "C1'" H21   SING N N 57 
KGV C8    H22   SING N N 58 
KGV N6    H23   SING N N 59 
KGV N6    H24   SING N N 60 
KGV OP3   HOP3  SING N N 61 
# 
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 
KGV SMILES           ACDLabs              12.01 "c1nc2c(c(n1)N)ncn2C4C(C(NC(=O)C(Cc3ccccc3)N)C(O4)COP(O)(O)=O)O" 
KGV InChI            InChI                1.03  
"InChI=1S/C19H24N7O7P/c20-11(6-10-4-2-1-3-5-10)18(28)25-13-12(7-32-34(29,30)31)33-19(15(13)27)26-9-24-14-16(21)22-8-23-17(14)26/h1-5,8-9,11-13,15,19,27H,6-7,20H2,(H,25,28)(H2,21,22,23)(H2,29,30,31)/t11-,12-,13-,15-,19-/m1/s1" 
KGV InChIKey         InChI                1.03  FGNMGARNYLAFLT-XDJZACDYSA-N 
KGV SMILES_CANONICAL CACTVS               3.385 "N[C@H](Cc1ccccc1)C(=O)N[C@H]2[C@@H](O)[C@@H](O[C@@H]2CO[P](O)(O)=O)n3cnc4c(N)ncnc34" 
KGV SMILES           CACTVS               3.385 "N[CH](Cc1ccccc1)C(=O)N[CH]2[CH](O)[CH](O[CH]2CO[P](O)(O)=O)n3cnc4c(N)ncnc34" 
KGV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1ccc(cc1)C[C@H](C(=O)N[C@@H]2[C@H](O[C@H]([C@@H]2O)n3cnc4c3ncnc4N)COP(=O)(O)O)N" 
KGV SMILES           "OpenEye OEToolkits" 2.0.6 "c1ccc(cc1)CC(C(=O)NC2C(OC(C2O)n3cnc4c3ncnc4N)COP(=O)(O)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 
KGV "SYSTEMATIC NAME" ACDLabs              12.01 
;3'-deoxy-3'-(D-phenylalanylamino)adenosine 5'-(dihydrogen phosphate)
;
KGV "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3-[[(2~{R})-2-azanyl-3-phenyl-propanoyl]amino]-4-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 
KGV "Create component" 2018-12-04 RCSB 
KGV "Initial release"  2018-12-12 RCSB 
# 
