data_2JV
# 
_chem_comp.id                                    2JV 
_chem_comp.name                                  "N-(8-aminopyren-1-yl)-2'-deoxy-5'-O-(trihydroxy-lambda~5~-phosphanyl)guanosine" 
_chem_comp.type                                  "DNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C26 H25 N6 O7 P" 
_chem_comp.mon_nstd_parent_comp_id               DG 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2013-11-12 
_chem_comp.pdbx_modified_date                    2015-09-11 
_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                        564.486 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     2JV 
_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        4NF3 
_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 
2JV C2  C2  C 0 1 N N N 12.453 70.531 47.597 1.523  2.878  -0.465 C2  2JV 1  
2JV C5  C5  C 0 1 Y N N 12.644 69.628 50.205 -0.971 3.766  0.124  C5  2JV 2  
2JV C6  C6  C 0 1 N N N 11.369 70.106 49.648 0.080  4.695  -0.062 C6  2JV 3  
2JV C4  C4  C 0 1 Y N N 13.804 69.646 49.314 -0.689 2.401  -0.002 C4  2JV 4  
2JV O6  O6  O 0 1 N N N 10.337 70.118 50.346 -0.120 5.893  0.039  O6  2JV 5  
2JV N7  N7  N 0 1 Y N N 13.062 69.156 51.387 -2.289 3.879  0.419  N7  2JV 6  
2JV C8  C8  C 0 1 Y N N 14.382 68.886 51.268 -2.820 2.693  0.479  C8  2JV 7  
2JV N9  N9  N 0 1 Y N N 14.830 69.186 50.027 -1.869 1.747  0.226  N9  2JV 8  
2JV CAQ CAQ C 0 1 N N R 16.204 69.045 49.458 -2.075 0.297  0.201  CAQ 2JV 9  
2JV OAP OAP O 0 1 N N N 16.573 67.655 49.368 -3.460 0.004  -0.046 OAP 2JV 10 
2JV CAR CAR C 0 1 N N N 17.271 69.768 50.276 -1.717 -0.306 1.573  CAR 2JV 11 
2JV CAT CAT C 0 1 N N S 18.379 68.741 50.349 -3.021 -1.003 2.033  CAT 2JV 12 
2JV OAS OAS O 0 1 N N N 19.265 68.901 49.229 -2.737 -2.263 2.644  OAS 2JV 13 
2JV CAU CAU C 0 1 N N R 17.642 67.416 50.278 -3.776 -1.196 0.693  CAU 2JV 14 
2JV CAV CAV C 0 1 N N N 16.994 67.066 51.601 -5.283 -1.298 0.935  CAV 2JV 15 
2JV OAB OAB O 0 1 N N N 17.773 66.262 52.455 -5.954 -1.487 -0.313 OAB 2JV 16 
2JV PAD PAD P 0 1 N N N 17.291 66.281 53.990 -7.663 -1.618 -0.176 PAD 2JV 17 
2JV OAC OAC O 0 1 N N N 18.365 65.743 54.863 -8.624 -1.849 -1.584 OAC 2JV 18 
2JV OAA OAA O 0 1 N N N 16.914 67.795 54.409 -7.518 -3.323 0.003  OAA 2JV 19 
2JV N1  N1  N 0 1 N N N 11.350 70.522 48.384 1.311  4.220  -0.355 N1  2JV 20 
2JV N3  N3  N 0 1 N N N 13.655 70.094 48.046 0.555  2.006  -0.294 N3  2JV 21 
2JV N2  N2  N 0 1 N N N 12.267 70.997 46.333 2.783  2.426  -0.768 N2  2JV 22 
2JV CBD CBD C 0 1 Y N N 13.185 71.128 45.324 2.991  1.107  -1.000 CBD 2JV 23 
2JV CBC CBC C 0 1 Y N N 12.711 71.358 44.013 4.052  0.530  -0.486 CBC 2JV 24 
2JV CAX CAX C 0 1 Y N N 13.612 71.448 42.947 4.276  -0.906 -0.733 CAX 2JV 25 
2JV CBG CBG C 0 1 Y N N 14.975 71.292 43.184 3.304  -1.656 -1.551 CBG 2JV 26 
2JV CBF CBF C 0 1 Y N N 15.442 71.053 44.472 2.146  -0.917 -2.083 CBF 2JV 27 
2JV CBE CBE C 0 1 Y N N 14.563 70.968 45.532 2.020  0.366  -1.816 CBE 2JV 28 
2JV CBB CBB C 0 1 Y N N 11.340 71.518 43.738 5.023  1.278  0.330  CBB 2JV 29 
2JV CBA CBA C 0 1 Y N N 10.887 71.746 42.439 6.079  0.668  0.833  CBA 2JV 30 
2JV CAZ CAZ C 0 1 Y N N 11.785 71.840 41.372 6.297  -0.767 0.582  CAZ 2JV 31 
2JV CAY CAY C 0 1 Y N N 13.149 71.692 41.632 5.320  -1.510 -0.235 CAY 2JV 32 
2JV CBM CBM C 0 1 Y N N 11.365 72.078 40.059 7.336  -1.404 1.068  CBM 2JV 33 
2JV NAW NAW N 0 1 N N N 10.066 72.227 39.746 8.233  -0.720 1.819  NAW 2JV 34 
2JV CBL CBL C 0 1 Y N N 12.293 72.167 39.014 7.556  -2.835 0.823  CBL 2JV 35 
2JV CBK CBK C 0 1 Y N N 13.642 72.011 39.282 6.734  -3.570 0.106  CBK 2JV 36 
2JV CBJ CBJ C 0 1 Y N N 14.066 71.771 40.582 5.538  -2.947 -0.487 CBJ 2JV 37 
2JV CBI CBI C 0 1 Y N N 15.441 71.622 40.845 4.676  -3.618 -1.212 CBI 2JV 38 
2JV CBH CBH C 0 1 Y N N 15.890 71.386 42.140 3.493  -2.934 -1.777 CBH 2JV 39 
2JV H1  H1  H 0 1 N N N 14.997 68.484 52.059 -3.858 2.488  0.697  H1  2JV 40 
2JV H2  H2  H 0 1 N N N 16.204 69.479 48.447 -1.454 -0.152 -0.574 H2  2JV 41 
2JV H3  H3  H 0 1 N N N 17.610 70.683 49.768 -0.911 -1.033 1.472  H3  2JV 42 
2JV H4  H4  H 0 1 N N N 16.898 70.023 51.279 -1.437 0.480  2.274  H4  2JV 43 
2JV H5  H5  H 0 1 N N N 18.918 68.827 51.304 -3.586 -0.363 2.710  H5  2JV 44 
2JV H6  H6  H 0 1 N N N 19.959 68.254 49.279 -2.189 -2.201 3.439  H6  2JV 45 
2JV H7  H7  H 0 1 N N N 18.310 66.610 49.940 -3.409 -2.078 0.169  H7  2JV 46 
2JV H8  H8  H 0 1 N N N 16.769 68.005 52.129 -5.490 -2.145 1.589  H8  2JV 47 
2JV H9  H9  H 0 1 N N N 16.057 66.530 51.390 -5.640 -0.381 1.404  H9  2JV 48 
2JV H10 H10 H 0 1 N N N 18.075 65.757 55.768 -9.572 -1.911 -1.408 H10 2JV 49 
2JV H11 H11 H 0 1 N N N 16.629 67.812 55.315 -8.363 -3.780 0.115  H11 2JV 50 
2JV H13 H13 H 0 1 N N N 11.335 71.282 46.110 3.524  3.049  -0.816 H13 2JV 51 
2JV H14 H14 H 0 1 N N N 16.501 70.933 44.644 1.408  -1.423 -2.687 H14 2JV 52 
2JV H15 H15 H 0 1 N N N 14.938 70.777 46.527 1.164  0.894  -2.208 H15 2JV 53 
2JV H16 H16 H 0 1 N N N 10.627 71.463 44.547 4.870  2.330  0.518  H16 2JV 54 
2JV H17 H17 H 0 1 N N N 9.828  71.851 42.255 6.787  1.223  1.430  H17 2JV 55 
2JV H18 H18 H 0 1 N N N 9.511  72.143 40.574 8.102  0.225  1.990  H18 2JV 56 
2JV H19 H19 H 0 1 N N N 9.923  73.129 39.339 9.007  -1.177 2.186  H19 2JV 57 
2JV H20 H20 H 0 1 N N N 11.958 72.356 38.005 8.429  -3.305 1.252  H20 2JV 58 
2JV H21 H21 H 0 1 N N N 14.364 72.076 38.481 6.935  -4.620 -0.049 H21 2JV 59 
2JV H22 H22 H 0 1 N N N 16.152 71.691 40.035 4.829  -4.671 -1.395 H22 2JV 60 
2JV H23 H23 H 0 1 N N N 16.947 71.276 42.335 2.783  -3.487 -2.375 H23 2JV 61 
2JV OP3 OP3 O 0 1 N Y N ?      ?      ?      -7.808 0.086  -0.356 OP3 2JV 62 
2JV H24 H24 H 0 1 N N N ?      ?      ?      -8.303 -1.534 1.144  H24 2JV 63 
2JV H25 H25 H 0 1 N N N 10.484 70.842 47.998 2.047  4.838  -0.487 H25 2JV 64 
2JV H12 H12 H 0 1 N N N ?      ?      ?      -8.720 0.408  -0.326 H12 2JV 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 
2JV CBL CBK DOUB Y N 1  
2JV CBL CBM SING Y N 2  
2JV CBK CBJ SING Y N 3  
2JV NAW CBM SING N N 4  
2JV CBM CAZ DOUB Y N 5  
2JV CBJ CBI DOUB Y N 6  
2JV CBJ CAY SING Y N 7  
2JV CBI CBH SING Y N 8  
2JV CAZ CAY SING Y N 9  
2JV CAZ CBA SING Y N 10 
2JV CAY CAX DOUB Y N 11 
2JV CBH CBG DOUB Y N 12 
2JV CBA CBB DOUB Y N 13 
2JV CAX CBG SING Y N 14 
2JV CAX CBC SING Y N 15 
2JV CBG CBF SING Y N 16 
2JV CBB CBC SING Y N 17 
2JV CBC CBD DOUB Y N 18 
2JV CBF CBE DOUB Y N 19 
2JV CBD CBE SING Y N 20 
2JV CBD N2  SING N N 21 
2JV N2  C2  SING N N 22 
2JV C2  N3  DOUB N N 23 
2JV C2  N1  SING N N 24 
2JV N3  C4  SING N N 25 
2JV N1  C6  SING N N 26 
2JV OAS CAT SING N N 27 
2JV C4  N9  SING Y N 28 
2JV C4  C5  DOUB Y N 29 
2JV OAP CAQ SING N N 30 
2JV OAP CAU SING N N 31 
2JV CAQ N9  SING N N 32 
2JV CAQ CAR SING N N 33 
2JV C6  C5  SING N N 34 
2JV C6  O6  DOUB N N 35 
2JV N9  C8  SING Y N 36 
2JV C5  N7  SING Y N 37 
2JV CAR CAT SING N N 38 
2JV CAU CAT SING N N 39 
2JV CAU CAV SING N N 40 
2JV C8  N7  DOUB Y N 41 
2JV CAV OAB SING N N 42 
2JV OAB PAD SING N N 43 
2JV PAD OAA SING N N 44 
2JV PAD OAC SING N N 45 
2JV C8  H1  SING N N 46 
2JV CAQ H2  SING N N 47 
2JV CAR H3  SING N N 48 
2JV CAR H4  SING N N 49 
2JV CAT H5  SING N N 50 
2JV OAS H6  SING N N 51 
2JV CAU H7  SING N N 52 
2JV CAV H8  SING N N 53 
2JV CAV H9  SING N N 54 
2JV OAC H10 SING N N 55 
2JV OAA H11 SING N N 56 
2JV N2  H13 SING N N 57 
2JV CBF H14 SING N N 58 
2JV CBE H15 SING N N 59 
2JV CBB H16 SING N N 60 
2JV CBA H17 SING N N 61 
2JV NAW H18 SING N N 62 
2JV NAW H19 SING N N 63 
2JV CBL H20 SING N N 64 
2JV CBK H21 SING N N 65 
2JV CBI H22 SING N N 66 
2JV CBH H23 SING N N 67 
2JV PAD OP3 SING N N 68 
2JV PAD H24 SING N N 69 
2JV N1  H25 SING N N 70 
2JV OP3 H12 SING 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 
2JV SMILES           ACDLabs              12.01 "O=C5c6ncn(c6N=C(Nc4c1c3c2c(cc1)c(N)ccc2ccc3cc4)N5)C7OC(C(O)C7)COP(O)(O)O" 
2JV InChI            InChI                1.03  
"InChI=1S/C26H25N6O7P/c27-16-7-3-12-1-2-13-4-8-17(15-6-5-14(16)21(12)22(13)15)29-26-30-24-23(25(34)31-26)28-11-32(24)20-9-18(33)19(39-20)10-38-40(35,36)37/h1-8,11,18-20,33,35-37,40H,9-10,27H2,(H2,29,30,31,34)/t18-,19+,20+/m0/s1" 
2JV InChIKey         InChI                1.03  AFDQKKAHJUXROA-XUVXKRRUSA-N 
2JV SMILES_CANONICAL CACTVS               3.385 "Nc1ccc2ccc3ccc(NC4=Nc5n(cnc5C(=O)N4)[C@H]6C[C@H](O)[C@@H](CO[PH](O)(O)O)O6)c7ccc1c2c37" 
2JV SMILES           CACTVS               3.385 "Nc1ccc2ccc3ccc(NC4=Nc5n(cnc5C(=O)N4)[CH]6C[CH](O)[CH](CO[PH](O)(O)O)O6)c7ccc1c2c37" 
2JV SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "c1cc2ccc(c3c2c4c1ccc(c4cc3)N)NC5=Nc6c(ncn6[C@H]7C[C@@H]([C@H](O7)COP(O)(O)O)O)C(=O)N5" 
2JV SMILES           "OpenEye OEToolkits" 1.7.6 "c1cc2ccc(c3c2c4c1ccc(c4cc3)N)NC5=Nc6c(ncn6C7CC(C(O7)COP(O)(O)O)O)C(=O)N5" 
# 
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 
2JV "SYSTEMATIC NAME" ACDLabs              12.01 "N-(8-aminopyren-1-yl)-2'-deoxy-5'-O-(trihydroxy-lambda~5~-phosphanyl)guanosine"                                                    
2JV "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "2-[(8-azanylpyren-1-yl)amino]-9-[(2R,4S,5R)-4-oxidanyl-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]-1H-purin-6-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
2JV "Create component"   2013-11-12 RCSB 
2JV "Other modification" 2013-12-13 RCSB 
2JV "Initial release"    2015-09-16 RCSB 
# 
