data_P5F # _chem_comp.id P5F _chem_comp.name "N-propargylglycine-modified flavin adenine dinucleotide" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H40 N10 O17 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2013-11-25 _chem_comp.pdbx_modified_date 2014-02-14 _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 898.664 _chem_comp.one_letter_code ? _chem_comp.three_letter_code P5F _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 Y _chem_comp.pdbx_model_coordinates_db_code 4NME _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 P5F PA PA P 0 1 N N N 68.121 12.362 -8.940 ? ? ? PA P5F 1 P5F O1A O1A O 0 1 N N N 69.451 13.124 -8.629 ? ? ? O1A P5F 2 P5F O2A O2A O 0 1 N N N 66.951 13.178 -9.139 ? ? ? O2A P5F 3 P5F O5B O5B O 0 1 N N N 67.588 11.476 -7.865 ? ? ? O5B P5F 4 P5F C5B C5B C 0 1 N N N 66.309 10.857 -7.893 ? ? ? C5B P5F 5 P5F C4B C4B C 0 1 N N R 66.243 9.752 -6.830 ? ? ? C4B P5F 6 P5F O4B O4B O 0 1 N N N 66.327 10.223 -5.504 ? ? ? O4B P5F 7 P5F C3B C3B C 0 1 N N S 64.976 8.953 -6.820 ? ? ? C3B P5F 8 P5F O3B O3B O 0 1 N N N 64.922 8.036 -7.833 ? ? ? O3B P5F 9 P5F C2B C2B C 0 1 N N R 65.019 8.308 -5.494 ? ? ? C2B P5F 10 P5F O2B O2B O 0 1 N N N 65.784 7.157 -5.535 ? ? ? O2B P5F 11 P5F C1B C1B C 0 1 N N R 65.670 9.327 -4.645 ? ? ? C1B P5F 12 P5F N9A N9A N 0 1 Y N N 64.746 10.069 -3.806 ? ? ? N9A P5F 13 P5F C8A C8A C 0 1 Y N N 63.680 10.876 -4.181 ? ? ? C8A P5F 14 P5F N7A N7A N 0 1 Y N N 63.110 11.393 -3.087 ? ? ? N7A P5F 15 P5F C5A C5A C 0 1 Y N N 63.797 10.953 -1.959 ? ? ? C5A P5F 16 P5F C6A C6A C 0 1 Y N N 63.658 11.167 -0.595 ? ? ? C6A P5F 17 P5F N6A N6A N 0 1 N N N 62.613 12.024 -0.091 ? ? ? N6A P5F 18 P5F N1A N1A N 0 1 Y N N 64.512 10.568 0.256 ? ? ? N1A P5F 19 P5F C2A C2A C 0 1 Y N N 65.518 9.760 -0.176 ? ? ? C2A P5F 20 P5F N3A N3A N 0 1 Y N N 65.692 9.531 -1.504 ? ? ? N3A P5F 21 P5F C4A C4A C 0 1 Y N N 64.854 10.099 -2.399 ? ? ? C4A P5F 22 P5F N1 N1 N 0 1 N N N 66.146 1.738 -10.068 ? ? ? N1 P5F 23 P5F C2 C2 C 0 1 N N N 66.069 0.548 -9.265 ? ? ? C2 P5F 24 P5F O2 O2 O 0 1 N N N 65.567 0.631 -7.990 ? ? ? O2 P5F 25 P5F N3 N3 N 0 1 N N N 66.500 -0.700 -9.779 ? ? ? N3 P5F 26 P5F C4 C4 C 0 1 N N N 67.009 -0.787 -11.087 ? ? ? C4 P5F 27 P5F O4 O4 O 0 1 N N N 67.430 -1.999 -11.587 ? ? ? O4 P5F 28 P5F C4X C4X C 0 1 Y N N 67.085 0.440 -11.934 ? ? ? C4X P5F 29 P5F N5 N5 N 0 1 Y N N 67.433 0.353 -13.342 ? ? ? N5 P5F 30 P5F C5X C5X C 0 1 Y N N 68.036 1.562 -13.881 ? ? ? C5X P5F 31 P5F C6 C6 C 0 1 Y N N 69.001 1.437 -15.005 ? ? ? C6 P5F 32 P5F C7 C7 C 0 1 Y N N 69.614 2.604 -15.500 ? ? ? C7 P5F 33 P5F C7M C7M C 0 1 N N N 70.595 2.476 -16.635 ? ? ? C7M P5F 34 P5F C8 C8 C 0 1 Y N N 69.317 3.886 -14.932 ? ? ? C8 P5F 35 P5F C8M C8M C 0 1 N N N 69.991 5.122 -15.474 ? ? ? C8M P5F 36 P5F C9 C9 C 0 1 Y N N 68.399 4.002 -13.859 ? ? ? C9 P5F 37 P5F C9A C9A C 0 1 Y N N 67.748 2.775 -13.333 ? ? ? C9A P5F 38 P5F N10 N10 N 0 1 Y N N 66.818 2.846 -12.207 ? ? ? N10 P5F 39 P5F C10 C10 C 0 1 Y N N 66.664 1.646 -11.427 ? ? ? C10 P5F 40 P5F "C1'" "C1'" C 0 1 N N N 66.163 4.102 -11.781 ? ? ? "C1'" P5F 41 P5F "C2'" "C2'" C 0 1 N N S 66.990 4.764 -10.695 ? ? ? "C2'" P5F 42 P5F "O2'" "O2'" O 0 1 N N N 66.922 3.975 -9.566 ? ? ? "O2'" P5F 43 P5F "C3'" "C3'" C 0 1 N N S 66.552 6.175 -10.313 ? ? ? "C3'" P5F 44 P5F "O3'" "O3'" O 0 1 N N N 65.242 6.124 -9.887 ? ? ? "O3'" P5F 45 P5F "C4'" "C4'" C 0 1 N N R 66.652 7.245 -11.394 ? ? ? "C4'" P5F 46 P5F "O4'" "O4'" O 0 1 N N N 67.645 6.906 -12.304 ? ? ? "O4'" P5F 47 P5F "C5'" "C5'" C 0 1 N N N 66.819 8.678 -10.842 ? ? ? "C5'" P5F 48 P5F "O5'" "O5'" O 0 1 N N N 68.056 8.943 -10.217 ? ? ? "O5'" P5F 49 P5F P P P 0 1 N N N 68.951 10.255 -10.496 ? ? ? P P5F 50 P5F O1P O1P O 0 1 N N N 70.429 10.281 -9.951 ? ? ? O1P P5F 51 P5F O2P O2P O 0 1 N N N 68.754 10.281 -12.072 ? ? ? O2P P5F 52 P5F O3P O3P O 0 1 N N N 67.968 11.512 -10.159 ? ? ? O3P P5F 53 P5F C21 C21 C 0 1 N N N 65.392 -0.958 -13.849 ? ? ? C21 P5F 54 P5F C22 C22 C 0 1 N N N 66.546 -0.320 -14.155 ? ? ? C22 P5F 55 P5F C23 C23 C 0 1 N N N 64.927 -2.170 -14.665 ? ? ? C23 P5F 56 P5F H1 H1 H 0 1 N N N 69.285 14.059 -8.616 ? ? ? H1 P5F 57 P5F H2 H2 H 0 1 N N N 65.534 11.610 -7.686 ? ? ? H2 P5F 58 P5F H3 H3 H 0 1 N N N 66.137 10.418 -8.887 ? ? ? H3 P5F 59 P5F H4 H4 H 0 1 N N N 67.077 9.061 -7.020 ? ? ? H4 P5F 60 P5F H5 H5 H 0 1 N N N 64.118 9.640 -6.864 ? ? ? H5 P5F 61 P5F H6 H6 H 0 1 N N N 64.103 7.557 -7.784 ? ? ? H6 P5F 62 P5F H7 H7 H 0 1 N N N 63.999 8.107 -5.134 ? ? ? H7 P5F 63 P5F H8 H8 H 0 1 N N N 65.800 6.756 -4.674 ? ? ? H8 P5F 64 P5F H9 H9 H 0 1 N N N 66.409 8.826 -4.003 ? ? ? H9 P5F 65 P5F H10 H10 H 0 1 N N N 63.361 11.058 -5.197 ? ? ? H10 P5F 66 P5F H11 H11 H 0 1 N N N 62.666 12.063 0.907 ? ? ? H11 P5F 67 P5F H12 H12 H 0 1 N N N 62.726 12.944 -0.467 ? ? ? H12 P5F 68 P5F H13 H13 H 0 1 N N N 66.182 9.298 0.540 ? ? ? H13 P5F 69 P5F H14 H14 H 0 1 N N N 65.848 2.618 -9.699 ? ? ? H14 P5F 70 P5F H15 H15 H 0 1 N N N 66.442 -1.521 -9.210 ? ? ? H15 P5F 71 P5F H16 H16 H 0 1 N N N 69.227 0.471 -15.433 ? ? ? H16 P5F 72 P5F H17 H17 H 0 1 N N N 70.980 3.471 -16.901 ? ? ? H17 P5F 73 P5F H18 H18 H 0 1 N N N 71.430 1.830 -16.327 ? ? ? H18 P5F 74 P5F H19 H19 H 0 1 N N N 70.091 2.033 -17.507 ? ? ? H19 P5F 75 P5F H20 H20 H 0 1 N N N 69.641 6.005 -14.918 ? ? ? H20 P5F 76 P5F H21 H21 H 0 1 N N N 71.081 5.025 -15.360 ? ? ? H21 P5F 77 P5F H22 H22 H 0 1 N N N 69.743 5.238 -16.539 ? ? ? H22 P5F 78 P5F H23 H23 H 0 1 N N N 68.176 4.968 -13.430 ? ? ? H23 P5F 79 P5F H24 H24 H 0 1 N N N 66.078 4.781 -12.642 ? ? ? H24 P5F 80 P5F H25 H25 H 0 1 N N N 65.159 3.877 -11.391 ? ? ? H25 P5F 81 P5F H26 H26 H 0 1 N N N 68.030 4.819 -11.048 ? ? ? H26 P5F 82 P5F H27 H27 H 0 1 N N N 67.434 4.371 -8.871 ? ? ? H27 P5F 83 P5F H28 H28 H 0 1 N N N 67.190 6.497 -9.477 ? ? ? H28 P5F 84 P5F H29 H29 H 0 1 N N N 65.154 5.462 -9.211 ? ? ? H29 P5F 85 P5F H30 H30 H 0 1 N N N 65.689 7.235 -11.926 ? ? ? H30 P5F 86 P5F H31 H31 H 0 1 N N N 67.501 6.020 -12.615 ? ? ? H31 P5F 87 P5F H32 H32 H 0 1 N N N 66.704 9.381 -11.681 ? ? ? H32 P5F 88 P5F H33 H33 H 0 1 N N N 66.021 8.853 -10.105 ? ? ? H33 P5F 89 P5F H34 H34 H 0 1 N N N 71.036 10.310 -10.681 ? ? ? H34 P5F 90 P5F H35 H35 H 0 1 N N N 64.792 -0.610 -13.021 ? ? ? H35 P5F 91 P5F H37 H37 H 0 1 N N N 66.814 -0.342 -15.201 ? ? ? H37 P5F 92 P5F H39 H39 H 0 1 N N N 65.484 -2.853 -15.289 ? ? ? H39 P5F 93 P5F N2 N2 N 0 1 N Y N ? ? ? ? ? ? N2 P5F 94 P5F C1 C1 C 0 1 N Y N ? ? ? ? ? ? C1 P5F 95 P5F C3 C3 C 0 1 N Y N ? ? ? ? ? ? C3 P5F 96 P5F O1 O1 O 0 1 N Y N ? ? ? ? ? ? O1 P5F 97 P5F O3 O3 O 0 1 N Y N ? ? ? ? ? ? O3 P5F 98 P5F H36 H36 H 0 1 N N N ? ? ? ? ? ? H36 P5F 99 P5F H38 H38 H 0 1 N N N ? ? ? ? ? ? H38 P5F 100 P5F H40 H40 H 0 1 N N N ? ? ? ? ? ? H40 P5F 101 # # 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 P5F C7M C7 SING N N 1 P5F C7 C6 DOUB Y N 2 P5F C7 C8 SING Y N 3 P5F C8M C8 SING N N 4 P5F C6 C5X SING Y N 5 P5F C8 C9 DOUB Y N 6 P5F C23 C21 SING N N 7 P5F C22 C21 DOUB N E 8 P5F C22 N5 SING N N 9 P5F C5X N5 DOUB Y N 10 P5F C5X C9A SING Y N 11 P5F C9 C9A SING Y N 12 P5F N5 C4X SING Y N 13 P5F C9A N10 DOUB Y N 14 P5F "O4'" "C4'" SING N N 15 P5F N10 "C1'" SING N N 16 P5F N10 C10 SING Y N 17 P5F O2P P DOUB N N 18 P5F C4X C10 DOUB Y N 19 P5F C4X C4 SING N N 20 P5F "C1'" "C2'" SING N N 21 P5F O4 C4 DOUB N N 22 P5F C10 N1 SING N N 23 P5F "C4'" "C5'" SING N N 24 P5F "C4'" "C3'" SING N N 25 P5F C4 N3 SING N N 26 P5F "C5'" "O5'" SING N N 27 P5F "C2'" "C3'" SING N N 28 P5F "C2'" "O2'" SING N N 29 P5F P "O5'" SING N N 30 P5F P O3P SING N N 31 P5F P O1P SING N N 32 P5F "C3'" "O3'" SING N N 33 P5F O3P PA SING N N 34 P5F N1 C2 SING N N 35 P5F N3 C2 SING N N 36 P5F C2 O2 DOUB N N 37 P5F O2A PA DOUB N N 38 P5F PA O1A SING N N 39 P5F PA O5B SING N N 40 P5F C5B O5B SING N N 41 P5F C5B C4B SING N N 42 P5F O3B C3B SING N N 43 P5F C4B C3B SING N N 44 P5F C4B O4B SING N N 45 P5F C3B C2B SING N N 46 P5F O2B C2B SING N N 47 P5F O4B C1B SING N N 48 P5F C2B C1B SING N N 49 P5F C1B N9A SING N N 50 P5F C8A N9A SING Y N 51 P5F C8A N7A DOUB Y N 52 P5F N9A C4A SING Y N 53 P5F N7A C5A SING Y N 54 P5F C4A C5A DOUB Y N 55 P5F C4A N3A SING Y N 56 P5F C5A C6A SING Y N 57 P5F N3A C2A DOUB Y N 58 P5F C6A N6A SING N N 59 P5F C6A N1A DOUB Y N 60 P5F C2A N1A SING Y N 61 P5F O1A H1 SING N N 62 P5F C5B H2 SING N N 63 P5F C5B H3 SING N N 64 P5F C4B H4 SING N N 65 P5F C3B H5 SING N N 66 P5F O3B H6 SING N N 67 P5F C2B H7 SING N N 68 P5F O2B H8 SING N N 69 P5F C1B H9 SING N N 70 P5F C8A H10 SING N N 71 P5F N6A H11 SING N N 72 P5F N6A H12 SING N N 73 P5F C2A H13 SING N N 74 P5F N1 H14 SING N N 75 P5F N3 H15 SING N N 76 P5F C6 H16 SING N N 77 P5F C7M H17 SING N N 78 P5F C7M H18 SING N N 79 P5F C7M H19 SING N N 80 P5F C8M H20 SING N N 81 P5F C8M H21 SING N N 82 P5F C8M H22 SING N N 83 P5F C9 H23 SING N N 84 P5F "C1'" H24 SING N N 85 P5F "C1'" H25 SING N N 86 P5F "C2'" H26 SING N N 87 P5F "O2'" H27 SING N N 88 P5F "C3'" H28 SING N N 89 P5F "O3'" H29 SING N N 90 P5F "C4'" H30 SING N N 91 P5F "O4'" H31 SING N N 92 P5F "C5'" H32 SING N N 93 P5F "C5'" H33 SING N N 94 P5F O1P H34 SING N N 95 P5F C21 H35 SING N N 96 P5F C22 H37 SING N N 97 P5F C23 H39 SING N N 98 P5F C23 N2 DOUB N N 99 P5F N2 C1 SING N N 100 P5F C1 C3 SING N N 101 P5F C3 O1 SING N N 102 P5F C3 O3 DOUB N N 103 P5F C1 H36 SING N N 104 P5F C1 H38 SING N N 105 P5F O1 H40 SING N N 106 # # 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 P5F InChI InChI 1.03 "InChI=1S/C32H40N10O17P2/c1-14-6-16-17(7-15(14)2)41(29-23(30(50)39-32(51)38-29)40(16)5-3-4-34-8-21(45)46)9-18(43)24(47)19(44)10-56-60(52,53)59-61(54,55)57-11-20-25(48)26(49)31(58-20)42-13-37-22-27(33)35-12-36-28(22)42/h3-7,12-13,18-20,24-26,31,43-44,47-49H,8-11H2,1-2H3,(H,45,46)(H,52,53)(H,54,55)(H2,33,35,36)(H2,38,39,50,51)/b5-3+,34-4?/t18-,19+,20+,24-,25+,26+,31+/m0/s1" P5F InChIKey InChI 1.03 IRSTVKNHNHEQIM-RDJFLKOLSA-N P5F SMILES_CANONICAL CACTVS 3.385 "Cc1cc2c(cc1C)n(\C=C\C=NCC(O)=O)c3C(=O)NC(=O)Nc3n2C[C@H](O)[C@H](O)[C@H](O)CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6c(N)ncnc56" P5F SMILES CACTVS 3.385 "Cc1cc2c(cc1C)n(C=CC=NCC(O)=O)c3C(=O)NC(=O)Nc3n2C[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)n5cnc6c(N)ncnc56" P5F SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CC1=CC2=[N](C3=C(C(=O)NC(=O)N3)[N](=C2C=C1C)C=CC=NCC(=O)O)C[C@@H]([C@@H]([C@@H](COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)O)O)O)O" P5F SMILES "OpenEye OEToolkits" 1.7.6 "CC1=CC2=[N](C3=C(C(=O)NC(=O)N3)[N](=C2C=C1C)C=CC=NCC(=O)O)CC(C(C(COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)O)O)O)O" # _pdbx_chem_comp_identifier.comp_id P5F _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 1.7.6 _pdbx_chem_comp_identifier.identifier "2-[3-[10-[(2S,3S,4R)-5-[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-2,3,4-tris(oxidanyl)pentyl]-7,8-dimethyl-2,4-bis(oxidanylidene)-1H-benzo[g]pteridin-5-yl]prop-2-enylideneamino]ethanoic 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 P5F "Create component" 2013-11-25 RCSB P5F "Initial release" 2014-02-19 RCSB ##