data_MIA # _chem_comp.id MIA _chem_comp.name "2-METHYLTHIO-N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C16 H24 N5 O7 P S" _chem_comp.mon_nstd_parent_comp_id A _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2019-06-13 _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 461.430 _chem_comp.one_letter_code A _chem_comp.three_letter_code MIA _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 1B23 _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 MIA OP3 O3P O 0 1 N Y N 28.273 43.169 -31.562 6.510 -2.754 -1.685 OP3 MIA 1 MIA P P P 0 1 N N N 27.665 43.645 -30.146 6.383 -1.827 -0.375 P MIA 2 MIA OP1 O1P O 0 1 N N N 28.001 42.610 -29.130 6.044 -2.668 0.794 OP1 MIA 3 MIA OP2 O2P O 0 1 N N N 26.242 44.014 -30.375 7.783 -1.078 -0.109 OP2 MIA 4 MIA "O5'" "O5'" O 0 1 N N N 28.469 44.977 -29.789 5.224 -0.733 -0.603 "O5'" MIA 5 MIA "C5'" "C5'" C 0 1 N N N 29.783 44.912 -29.203 4.797 0.173 0.417 "C5'" MIA 6 MIA "C4'" "C4'" C 0 1 N N R 30.486 46.249 -29.309 3.686 1.071 -0.131 "C4'" MIA 7 MIA "O4'" "O4'" O 0 1 N N N 30.537 46.647 -30.706 2.515 0.286 -0.409 "O4'" MIA 8 MIA "C3'" "C3'" C 0 1 N N S 29.834 47.435 -28.613 3.293 2.122 0.926 "C3'" MIA 9 MIA "O3'" "O3'" O 0 1 N N N 30.117 47.523 -27.221 3.511 3.442 0.424 "O3'" MIA 10 MIA "C2'" "C2'" C 0 1 N N R 30.402 48.619 -29.385 1.784 1.874 1.164 "C2'" MIA 11 MIA "O2'" "O2'" O 0 1 N N N 31.697 49.014 -28.973 1.076 3.111 1.280 "O2'" MIA 12 MIA "C1'" "C1'" C 0 1 N N R 30.438 48.059 -30.804 1.371 1.120 -0.126 "C1'" MIA 13 MIA N9 N9 N 0 1 Y N N 29.165 48.396 -31.428 0.181 0.300 0.114 N9 MIA 14 MIA C8 C8 C 0 1 Y N N 28.145 47.581 -31.863 0.167 -1.000 0.527 C8 MIA 15 MIA N7 N7 N 0 1 Y N N 27.092 48.236 -32.275 -1.061 -1.417 0.639 N7 MIA 16 MIA C5 C5 C 0 1 Y N N 27.433 49.556 -32.119 -1.910 -0.414 0.306 C5 MIA 17 MIA C6 C6 C 0 1 Y N N 26.736 50.727 -32.385 -3.309 -0.286 0.242 C6 MIA 18 MIA N6 N6 N 0 1 N N N 25.457 50.809 -32.838 -4.131 -1.350 0.567 N6 MIA 19 MIA N1 N1 N 0 1 Y N N 27.387 51.915 -32.138 -3.824 0.878 -0.136 N1 MIA 20 MIA C2 C2 C 0 1 Y N N 28.658 51.886 -31.641 -3.042 1.905 -0.449 C2 MIA 21 MIA N3 N3 N 0 1 Y N N 29.405 50.813 -31.372 -1.722 1.827 -0.403 N3 MIA 22 MIA C4 C4 C 0 1 Y N N 28.723 49.682 -31.625 -1.123 0.701 -0.029 C4 MIA 23 MIA S10 S10 S 0 1 N N N 29.436 53.434 -31.351 -3.788 3.423 -0.943 S10 MIA 24 MIA C11 C11 C 0 1 N N N 31.066 52.985 -30.692 -5.536 2.966 -0.827 C11 MIA 25 MIA C12 C12 C 0 1 N N N 24.884 52.233 -32.581 -5.587 -1.200 0.495 C12 MIA 26 MIA C13 C13 C 0 1 N N N 23.650 52.745 -33.358 -6.246 -2.494 0.896 C13 MIA 27 MIA C14 C14 C 0 1 N N N 23.528 54.128 -33.291 -7.088 -3.080 0.081 C14 MIA 28 MIA C15 C15 C 0 1 N N N 22.852 55.030 -34.243 -7.505 -2.393 -1.194 C15 MIA 29 MIA C16 C16 C 0 1 N N N 24.529 54.909 -32.423 -7.639 -4.441 0.418 C16 MIA 30 MIA HOP3 HOP3 H 0 0 N Y N 28.715 42.335 -31.453 7.191 -3.438 -1.618 HOP3 MIA 31 MIA HOP2 HOP2 H 0 0 N N N 25.685 43.503 -29.799 8.068 -0.507 -0.836 HOP2 MIA 32 MIA "H5'" "H5'1" H 0 1 N N N 29.691 44.636 -28.142 4.420 -0.392 1.270 "H5'" MIA 33 MIA "H5''" "H5'2" H 0 0 N N N 30.376 44.150 -29.730 5.640 0.788 0.733 "H5''" MIA 34 MIA "H4'" "H4'" H 0 1 N N N 31.510 46.138 -28.923 4.025 1.566 -1.041 "H4'" MIA 35 MIA "H3'" "H3'" H 0 1 N N N 28.747 47.391 -28.778 3.857 1.967 1.846 "H3'" MIA 36 MIA "HO3'" H3T H 0 0 N Y N 29.679 48.283 -26.856 3.280 4.143 1.048 "HO3'" MIA 37 MIA "H2'" "H2'" H 0 1 N N N 29.697 49.462 -29.339 1.625 1.253 2.046 "H2'" MIA 38 MIA "HO2'" "HO'2" H 0 0 N N N 31.984 49.753 -29.496 1.364 3.660 2.022 "HO2'" MIA 39 MIA "H1'" "H1'" H 0 1 N N N 31.282 48.491 -31.362 1.197 1.822 -0.942 "H1'" MIA 40 MIA H8 H8 H 0 1 N N N 28.209 46.503 -31.864 1.044 -1.596 0.730 H8 MIA 41 MIA HN6 HN6 H 0 1 N N N 25.442 50.619 -33.820 -3.744 -2.196 0.842 HN6 MIA 42 MIA H111 H111 H 0 0 N N N 31.639 53.899 -30.475 -5.767 2.672 0.196 H111 MIA 43 MIA H112 H112 H 0 0 N N N 30.940 52.403 -29.767 -6.154 3.819 -1.108 H112 MIA 44 MIA H113 H113 H 0 0 N N N 31.608 52.380 -31.434 -5.739 2.133 -1.500 H113 MIA 45 MIA H121 H121 H 0 0 N N N 24.622 52.277 -31.514 -5.904 -0.406 1.171 H121 MIA 46 MIA H122 H122 H 0 0 N N N 25.700 52.941 -32.788 -5.876 -0.945 -0.525 H122 MIA 47 MIA H131 H131 H 0 0 N N N 22.963 52.104 -33.890 -6.024 -2.939 1.855 H131 MIA 48 MIA H151 H151 H 0 0 N N N 22.941 56.068 -33.891 -6.771 -2.597 -1.974 H151 MIA 49 MIA H152 H152 H 0 0 N N N 23.322 54.937 -35.233 -8.480 -2.766 -1.506 H152 MIA 50 MIA H153 H153 H 0 0 N N N 21.789 54.757 -34.315 -7.565 -1.318 -1.025 H153 MIA 51 MIA H161 H161 H 0 0 N N N 24.300 55.984 -32.475 -8.180 -4.390 1.363 H161 MIA 52 MIA H162 H162 H 0 0 N N N 24.453 54.568 -31.380 -8.318 -4.764 -0.371 H162 MIA 53 MIA H163 H163 H 0 0 N N N 25.550 54.733 -32.793 -6.819 -5.154 0.507 H163 MIA 54 # # 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 MIA OP3 P SING N N 1 MIA OP3 HOP3 SING N N 2 MIA P OP1 DOUB N N 3 MIA P OP2 SING N N 4 MIA P "O5'" SING N N 5 MIA OP2 HOP2 SING N N 6 MIA "O5'" "C5'" SING N N 7 MIA "C5'" "C4'" SING N N 8 MIA "C5'" "H5'" SING N N 9 MIA "C5'" "H5''" SING N N 10 MIA "C4'" "O4'" SING N N 11 MIA "C4'" "C3'" SING N N 12 MIA "C4'" "H4'" SING N N 13 MIA "O4'" "C1'" SING N N 14 MIA "C3'" "O3'" SING N N 15 MIA "C3'" "C2'" SING N N 16 MIA "C3'" "H3'" SING N N 17 MIA "O3'" "HO3'" SING N N 18 MIA "C2'" "O2'" SING N N 19 MIA "C2'" "C1'" SING N N 20 MIA "C2'" "H2'" SING N N 21 MIA "O2'" "HO2'" SING N N 22 MIA "C1'" N9 SING N N 23 MIA "C1'" "H1'" SING N N 24 MIA N9 C8 SING Y N 25 MIA N9 C4 SING Y N 26 MIA C8 N7 DOUB Y N 27 MIA C8 H8 SING N N 28 MIA N7 C5 SING Y N 29 MIA C5 C6 SING Y N 30 MIA C5 C4 DOUB Y N 31 MIA C6 N6 SING N N 32 MIA C6 N1 DOUB Y N 33 MIA N6 C12 SING N N 34 MIA N6 HN6 SING N N 35 MIA N1 C2 SING Y N 36 MIA C2 N3 DOUB Y N 37 MIA C2 S10 SING N N 38 MIA N3 C4 SING Y N 39 MIA S10 C11 SING N N 40 MIA C11 H111 SING N N 41 MIA C11 H112 SING N N 42 MIA C11 H113 SING N N 43 MIA C12 C13 SING N N 44 MIA C12 H121 SING N N 45 MIA C12 H122 SING N N 46 MIA C13 C14 DOUB N N 47 MIA C13 H131 SING N N 48 MIA C14 C15 SING N N 49 MIA C14 C16 SING N N 50 MIA C15 H151 SING N N 51 MIA C15 H152 SING N N 52 MIA C15 H153 SING N N 53 MIA C16 H161 SING N N 54 MIA C16 H162 SING N N 55 MIA C16 H163 SING N N 56 # # 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 MIA SMILES ACDLabs 12.01 "OP(=O)(O)OCC1OC(C(C1O)O)n2cnc3c(NC\C=C(\C)C)nc(nc23)SC" MIA InChI InChI 1.03 "InChI=1S/C16H24N5O7PS/c1-8(2)4-5-17-13-10-14(20-16(19-13)30-3)21(7-18-10)15-12(23)11(22)9(28-15)6-27-29(24,25)26/h4,7,9,11-12,15,22-23H,5-6H2,1-3H3,(H,17,19,20)(H2,24,25,26)/t9-,11-,12-,15-/m1/s1" MIA InChIKey InChI 1.03 XBXAAXAANNIENQ-SDBHATRESA-N MIA SMILES_CANONICAL CACTVS 3.385 "CSc1nc(NCC=C(C)C)c2ncn([C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O)c2n1" MIA SMILES CACTVS 3.385 "CSc1nc(NCC=C(C)C)c2ncn([CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O)c2n1" MIA SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=CCNc1c2c(nc(n1)SC)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)C" MIA SMILES "OpenEye OEToolkits" 2.0.7 "CC(=CCNc1c2c(nc(n1)SC)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)O)C" # # 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 MIA "SYSTEMATIC NAME" ACDLabs 12.01 "N-(3-methylbut-2-en-1-yl)-2-(methylsulfanyl)adenosine 5'-(dihydrogen phosphate)" MIA "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},4~{R},5~{R})-5-[6-(3-methylbut-2-enylamino)-2-methylsulfanyl-purin-9-yl]-3,4-bis(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 MIA "Create component" 1999-07-08 RCSB MIA "Modify descriptor" 2011-06-04 RCSB MIA "Other modification" 2019-06-13 RCSB ##