data_VKJ # _chem_comp.id VKJ _chem_comp.name ;2'-deoxy-N-[(7R,8S,9R,10S)-7,8,9-trihydroxy-7,8,9,10-tetrahydrobenzo[pqr]tetraphen-10-yl]guanosine 5'-(dihydrogen phosphate) ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H28 N5 O10 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2014-08-27 _chem_comp.pdbx_modified_date 2016-01-22 _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 649.545 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VKJ _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 4U7C _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 VKJ O1 O6 O 0 1 N N N 19.223 38.589 55.720 0.283 2.621 4.834 O1 VKJ 1 VKJ C1 C6 C 0 1 N N N 18.735 38.119 54.670 0.265 2.222 3.683 C1 VKJ 2 VKJ N1 N1 N 0 1 N N N 17.779 37.159 54.724 -0.900 2.121 3.004 N1 VKJ 3 VKJ C2 C2 C 0 1 N N N 17.243 36.639 53.591 -0.909 1.673 1.716 C2 VKJ 4 VKJ N2 N2 N 0 1 N N N 16.287 35.683 53.685 -2.106 1.581 1.052 N2 VKJ 5 VKJ N3 N3 N 0 1 N N N 17.655 37.074 52.379 0.195 1.328 1.093 N3 VKJ 6 VKJ C3 C4 C 0 1 Y N N 18.614 38.034 52.288 1.385 1.402 1.701 C3 VKJ 7 VKJ C4 C5 C 0 1 Y N N 19.170 38.576 53.435 1.461 1.859 3.022 C4 VKJ 8 VKJ N4 N7 N 0 1 Y N N 20.082 39.493 53.054 2.768 1.832 3.382 N4 VKJ 9 VKJ C5 C8 C 0 1 Y N N 20.087 39.516 51.697 3.480 1.396 2.385 C5 VKJ 10 VKJ N5 N9 N 0 1 Y N N 19.181 38.640 51.247 2.670 1.121 1.322 N5 VKJ 11 VKJ C6 "C1'A" C 0 1 N N R 18.885 38.324 49.839 3.096 0.612 0.016 C6 VKJ 12 VKJ O2 "O4'" O 0 1 N N N 20.102 37.816 49.289 4.377 -0.046 0.126 O2 VKJ 13 VKJ C7 "C2'A" C 0 1 N N N 18.472 39.510 48.984 3.332 1.780 -0.966 C7 VKJ 14 VKJ C8 "C3'A" C 0 1 N N S 19.090 39.157 47.650 4.557 1.333 -1.794 C8 VKJ 15 VKJ O3 "O3'A" O 0 1 N N N 18.230 38.251 46.970 4.215 1.224 -3.177 O3 VKJ 16 VKJ C9 "C4'A" C 0 1 N N R 20.328 38.355 47.990 4.916 -0.056 -1.214 C9 VKJ 17 VKJ C10 "C5'" C 0 1 N N N 21.581 39.199 48.030 6.434 -0.242 -1.176 C10 VKJ 18 VKJ O4 "O5'" O 0 1 N N N 21.353 40.275 48.927 6.741 -1.570 -0.747 O4 VKJ 19 VKJ P1 P P 0 1 N N N 22.288 41.697 48.726 8.248 -2.115 -0.592 P1 VKJ 20 VKJ O5 O1P O 0 1 N N N 22.550 42.092 47.408 9.008 -1.217 0.306 O5 VKJ 21 VKJ O6 O2P O 0 1 N N N 22.297 42.649 49.759 8.220 -3.599 0.032 O6 VKJ 22 VKJ O7 "O3'" O 0 1 N N N 13.362 34.769 51.762 -1.664 1.776 -2.605 O7 VKJ 23 VKJ C11 "C3'" C 0 1 N N R 14.174 35.223 52.852 -1.840 2.266 -1.274 C11 VKJ 24 VKJ C12 "C4'" C 0 1 N N S 15.655 35.087 52.518 -2.140 1.102 -0.332 C12 VKJ 25 VKJ C13 C61 C 0 1 Y N N 16.123 33.635 52.549 -3.499 0.519 -0.622 C13 VKJ 26 VKJ C14 "C2'" C 0 1 N N S 13.806 34.479 54.136 -3.027 3.236 -1.234 C14 VKJ 27 VKJ O8 "O2'" O 0 1 N N N 12.387 34.560 54.297 -2.689 4.441 -1.924 O8 VKJ 28 VKJ C15 "C1'" C 0 1 N N R 14.222 33.003 54.148 -4.216 2.567 -1.919 C15 VKJ 29 VKJ O9 "O1'" O 0 1 N N N 14.953 32.704 55.343 -5.383 3.369 -1.724 O9 VKJ 30 VKJ C16 C7 C 0 1 Y N N 15.050 32.676 52.967 -4.457 1.192 -1.347 C16 VKJ 31 VKJ C17 C81 C 0 1 Y N N 14.799 31.453 52.340 -5.702 0.623 -1.588 C17 VKJ 32 VKJ C18 C8A C 0 1 Y N N 15.511 31.044 51.223 -6.013 -0.647 -1.106 C18 VKJ 33 VKJ C19 C5B C 0 1 Y N N 16.566 31.929 50.702 -5.035 -1.346 -0.364 C19 VKJ 34 VKJ C20 C5A C 0 1 Y N N 16.856 33.231 51.337 -3.774 -0.763 -0.120 C20 VKJ 35 VKJ C21 C51 C 0 1 Y N N 17.877 34.004 50.788 -2.808 -1.482 0.627 C21 VKJ 36 VKJ C22 C41 C 0 1 Y N N 18.582 33.568 49.660 -3.082 -2.717 1.107 C22 VKJ 37 VKJ C23 C3B C 0 1 Y N N 17.330 31.508 49.518 -5.321 -2.629 0.134 C23 VKJ 38 VKJ C24 C1A C 0 1 Y N N 17.036 30.287 48.926 -6.585 -3.209 -0.111 C24 VKJ 39 VKJ C25 C10 C 0 1 Y N N 16.025 29.472 49.451 -7.548 -2.487 -0.857 C25 VKJ 40 VKJ C26 C9 C 0 1 Y N N 15.273 29.834 50.574 -7.272 -1.253 -1.337 C26 VKJ 41 VKJ C27 C1 C 0 1 Y N N 17.761 29.896 47.805 -6.850 -4.485 0.394 C27 VKJ 42 VKJ C28 C3A C 0 1 Y N N 18.321 32.346 49.030 -4.340 -3.325 0.877 C28 VKJ 43 VKJ C29 C3 C 0 1 Y N N 19.041 31.948 47.907 -4.644 -4.598 1.363 C29 VKJ 44 VKJ C30 C21 C 0 1 Y N N 18.761 30.725 47.302 -5.884 -5.157 1.118 C30 VKJ 45 VKJ H1 H1 H 0 1 N N N 17.464 36.829 55.614 -1.733 2.368 3.435 H1 VKJ 46 VKJ H2 H2 H 0 1 N N N 16.005 35.375 54.593 -2.930 1.833 1.499 H2 VKJ 47 VKJ H3 H3 H 0 1 N N N 20.719 40.139 51.081 4.553 1.273 2.395 H3 VKJ 48 VKJ H4 H4 H 0 1 N N N 18.097 37.558 49.791 2.350 -0.075 -0.384 H4 VKJ 49 VKJ H5 H5 H 0 1 N N N 18.882 40.451 49.379 2.464 1.918 -1.612 H5 VKJ 50 VKJ H6 H6 H 0 1 N N N 17.377 39.589 48.910 3.551 2.698 -0.421 H6 VKJ 51 VKJ H7 H7 H 0 1 N N N 19.332 40.054 47.060 5.385 2.029 -1.658 H7 VKJ 52 VKJ H8 H8 H 0 1 N N N 17.427 38.697 46.727 3.981 2.066 -3.592 H8 VKJ 53 VKJ H9 H9 H 0 1 N N N 20.454 37.549 47.252 4.452 -0.846 -1.805 H9 VKJ 54 VKJ H10 H10 H 0 1 N N N 22.429 38.593 48.381 6.845 -0.077 -2.172 H10 VKJ 55 VKJ H11 H11 H 0 1 N N N 21.801 39.590 47.026 6.871 0.475 -0.480 H11 VKJ 56 VKJ H13 H13 H 0 1 N N N 22.496 43.505 49.399 9.096 -3.991 0.153 H13 VKJ 57 VKJ H14 H14 H 0 1 N N N 12.444 34.862 51.990 -1.488 2.466 -3.259 H14 VKJ 58 VKJ H15 H15 H 0 1 N N N 13.970 36.291 53.021 -0.935 2.779 -0.949 H15 VKJ 59 VKJ H16 H16 H 0 1 N N N 15.917 35.589 51.575 -1.383 0.330 -0.463 H16 VKJ 60 VKJ H17 H17 H 0 1 N N N 14.301 34.982 54.979 -3.280 3.464 -0.198 H17 VKJ 61 VKJ H18 H18 H 0 1 N N N 12.131 34.104 55.090 -3.397 5.099 -1.936 H18 VKJ 62 VKJ H19 H19 H 0 1 N N N 13.308 32.392 54.118 -4.014 2.481 -2.986 H19 VKJ 63 VKJ H20 H20 H 0 1 N N N 14.421 32.914 56.101 -6.182 3.007 -2.133 H20 VKJ 64 VKJ H21 H21 H 0 1 N N N 14.029 30.808 52.737 -6.439 1.171 -2.157 H21 VKJ 65 VKJ H22 H22 H 0 1 N N N 18.128 34.953 51.239 -1.841 -1.039 0.815 H22 VKJ 66 VKJ H23 H23 H 0 1 N N N 19.360 34.201 49.259 -2.330 -3.247 1.673 H23 VKJ 67 VKJ H24 H24 H 0 1 N N N 15.818 28.527 48.970 -8.516 -2.928 -1.046 H24 VKJ 68 VKJ H25 H25 H 0 1 N N N 14.503 29.171 50.940 -8.023 -0.721 -1.903 H25 VKJ 69 VKJ H26 H26 H 0 1 N N N 17.549 28.952 47.326 -7.810 -4.946 0.218 H26 VKJ 70 VKJ H27 H27 H 0 1 N N N 19.815 32.586 47.506 -3.909 -5.148 1.933 H27 VKJ 71 VKJ H28 H28 H 0 1 N N N 19.325 30.416 46.434 -6.103 -6.142 1.502 H28 VKJ 72 VKJ O3P O3P O 0 1 N N N 23.755 41.118 49.017 8.956 -2.154 -2.038 O3P VKJ 73 VKJ H12 H12 H 0 1 N N N 24.297 41.224 48.244 8.511 -2.724 -2.679 H12 VKJ 74 # 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 VKJ O3 C8 SING N N 1 VKJ C30 C27 DOUB Y N 2 VKJ C30 C29 SING Y N 3 VKJ O5 P1 DOUB N N 4 VKJ C8 C9 SING N N 5 VKJ C8 C7 SING N N 6 VKJ C27 C24 SING Y N 7 VKJ C29 C28 DOUB Y N 8 VKJ C9 C10 SING N N 9 VKJ C9 O2 SING N N 10 VKJ C10 O4 SING N N 11 VKJ P1 O4 SING N N 12 VKJ P1 O6 SING N N 13 VKJ C24 C25 DOUB Y N 14 VKJ C24 C23 SING Y N 15 VKJ C7 C6 SING N N 16 VKJ C28 C23 SING Y N 17 VKJ C28 C22 SING Y N 18 VKJ O2 C6 SING N N 19 VKJ C25 C26 SING Y N 20 VKJ C23 C19 DOUB Y N 21 VKJ C22 C21 DOUB Y N 22 VKJ C6 N5 SING N N 23 VKJ C26 C18 DOUB Y N 24 VKJ C19 C18 SING Y N 25 VKJ C19 C20 SING Y N 26 VKJ C21 C20 SING Y N 27 VKJ C18 C17 SING Y N 28 VKJ N5 C5 SING Y N 29 VKJ N5 C3 SING Y N 30 VKJ C20 C13 DOUB Y N 31 VKJ C5 N4 DOUB Y N 32 VKJ O7 C11 SING N N 33 VKJ C3 N3 SING N N 34 VKJ C3 C4 DOUB Y N 35 VKJ C17 C16 DOUB Y N 36 VKJ N3 C2 DOUB N N 37 VKJ C12 C13 SING N N 38 VKJ C12 C11 SING N N 39 VKJ C12 N2 SING N N 40 VKJ C13 C16 SING Y N 41 VKJ C11 C14 SING N N 42 VKJ C16 C15 SING N N 43 VKJ N4 C4 SING Y N 44 VKJ C4 C1 SING N N 45 VKJ C2 N2 SING N N 46 VKJ C2 N1 SING N N 47 VKJ C14 C15 SING N N 48 VKJ C14 O8 SING N N 49 VKJ C15 O9 SING N N 50 VKJ C1 N1 SING N N 51 VKJ C1 O1 DOUB N N 52 VKJ N1 H1 SING N N 53 VKJ N2 H2 SING N N 54 VKJ C5 H3 SING N N 55 VKJ C6 H4 SING N N 56 VKJ C7 H5 SING N N 57 VKJ C7 H6 SING N N 58 VKJ C8 H7 SING N N 59 VKJ O3 H8 SING N N 60 VKJ C9 H9 SING N N 61 VKJ C10 H10 SING N N 62 VKJ C10 H11 SING N N 63 VKJ O6 H13 SING N N 64 VKJ O7 H14 SING N N 65 VKJ C11 H15 SING N N 66 VKJ C12 H16 SING N N 67 VKJ C14 H17 SING N N 68 VKJ O8 H18 SING N N 69 VKJ C15 H19 SING N N 70 VKJ O9 H20 SING N N 71 VKJ C17 H21 SING N N 72 VKJ C21 H22 SING N N 73 VKJ C22 H23 SING N N 74 VKJ C25 H24 SING N N 75 VKJ C26 H25 SING N N 76 VKJ C27 H26 SING N N 77 VKJ C29 H27 SING N N 78 VKJ C30 H28 SING N N 79 VKJ P1 O3P SING N N 80 VKJ O3P H12 SING N N 81 # 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 VKJ SMILES ACDLabs 12.01 "O=P(O)(O)OCC8OC(n7cnc6c7N=C(NC3c2c5c1c4c(ccc1cc2C(O)C(O)C3O)cccc4cc5)NC6=O)CC8O" VKJ InChI InChI 1.03 ;InChI=1S/C30H28N5O10P/c36-17-9-19(45-18(17)10-44-46(41,42)43)35-11-31-24-28(35)33-30(34-29(24)40)32-23-22-15-7-6-13-3-1-2-12-4-5-14(21(15)20(12)13)8-16(22)25(37)27(39)26(23)38/h1-8,11,17-19,23,25-27,36-39H,9-10H2,(H2,41,42,43)(H2,32,33,34,40)/t17-,18+,19+,23-,25+,26+,27-/m0/s1 ; VKJ InChIKey InChI 1.03 IKLPJCZKMODXAH-KCAXFQNZSA-N VKJ SMILES_CANONICAL CACTVS 3.385 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)n2cnc3C(=O)NC(=Nc23)N[C@@H]4[C@@H](O)[C@@H](O)[C@H](O)c5cc6ccc7cccc8ccc(c45)c6c78" VKJ SMILES CACTVS 3.385 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)n2cnc3C(=O)NC(=Nc23)N[CH]4[CH](O)[CH](O)[CH](O)c5cc6ccc7cccc8ccc(c45)c6c78" VKJ SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "c1cc2ccc3cc4c(c5c3c2c(c1)cc5)[C@@H]([C@H]([C@H]([C@@H]4O)O)O)NC6=Nc7c(ncn7[C@H]8C[C@@H]([C@H](O8)COP(=O)(O)O)O)C(=O)N6" VKJ SMILES "OpenEye OEToolkits" 1.9.2 "c1cc2ccc3cc4c(c5c3c2c(c1)cc5)C(C(C(C4O)O)O)NC6=Nc7c(ncn7C8CC(C(O8)COP(=O)(O)O)O)C(=O)N6" # 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 VKJ "SYSTEMATIC NAME" ACDLabs 12.01 ;2'-deoxy-N-[(7R,8S,9R,10S)-7,8,9-trihydroxy-7,8,9,10-tetrahydrobenzo[pqr]tetraphen-10-yl]guanosine 5'-(dihydrogen phosphate) ; VKJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "[(2R,3S,5R)-3-oxidanyl-5-[6-oxidanylidene-2-[[(7R,8S,9R,10S)-7,8,9-tris(oxidanyl)-7,8,9,10-tetrahydrobenzo[a]pyren-10-yl]amino]-1H-purin-9-yl]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 VKJ "Create component" 2014-08-27 RCSB VKJ "Modify descriptor" 2014-09-05 RCSB VKJ "Initial release" 2016-01-27 RCSB #