data_126 # _chem_comp.id 126 _chem_comp.name "2'-O-METHYL-[TRI(OXYETHYL)]-5-METHYL-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C17 H29 N2 O12 P" _chem_comp.mon_nstd_parent_comp_id U _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2001-02-09 _chem_comp.pdbx_modified_date 2011-06-04 _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 484.392 _chem_comp.one_letter_code U _chem_comp.three_letter_code 126 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1I0Q _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 126 P P P 0 1 N N N -5.037 7.560 11.637 0.064 -0.498 6.490 P 126 1 126 OP1 O1P O 0 1 N N N -6.399 8.147 11.572 0.588 -1.810 6.049 OP1 126 2 126 OP2 O2P O 0 1 N N N -4.874 6.109 11.888 1.045 0.123 7.605 OP2 126 3 126 OP3 O3P O 0 1 N Y N -4.226 8.417 12.735 -1.406 -0.690 7.115 OP3 126 4 126 "O5'" O5* O 0 1 N N N -4.282 7.884 10.277 -0.014 0.499 5.229 "O5'" 126 5 126 "C5'" C5* C 0 1 N N N -4.298 9.209 9.738 -0.894 -0.105 4.279 "C5'" 126 6 126 "C4'" C4* C 0 1 N N R -3.394 9.286 8.540 -1.014 0.797 3.049 "C4'" 126 7 126 "O4'" O4* O 0 1 N N N -2.011 9.058 8.938 0.268 0.941 2.418 "O4'" 126 8 126 "C3'" C3* C 0 1 N N R -3.625 8.227 7.477 -1.962 0.154 2.018 "C3'" 126 9 126 "O3'" O3* O 0 1 N N N -4.754 8.507 6.661 -3.081 1.005 1.764 "O3'" 126 10 126 "C2'" C2* C 0 1 N N R -2.302 8.280 6.722 -1.094 0.007 0.744 "C2'" 126 11 126 "O2'" O2* O 0 1 N N N -2.228 9.436 5.913 -1.843 0.343 -0.424 "O2'" 126 12 126 "C1'" C1* C 0 1 N N R -1.317 8.411 7.885 0.031 1.042 0.997 "C1'" 126 13 126 N1 N1 N 0 1 N N N -0.853 7.090 8.357 1.239 0.690 0.246 N1 126 14 126 C2 C2 C 0 1 N N N 0.207 6.517 7.704 1.798 -0.521 0.413 C2 126 15 126 O2 O2 O 0 1 N N N 0.755 7.046 6.757 1.291 -1.314 1.183 O2 126 16 126 N3 N3 N 0 1 N N N 0.596 5.294 8.196 2.905 -0.872 -0.266 N3 126 17 126 C4 C4 C 0 1 N N N 0.031 4.604 9.247 3.480 -0.004 -1.123 C4 126 18 126 O4 O4 O 0 1 N N N 0.486 3.519 9.583 4.484 -0.319 -1.736 O4 126 19 126 C5 C5 C 0 1 N N N -1.094 5.260 9.881 2.905 1.276 -1.305 C5 126 20 126 C5M C5M C 0 1 N N N -1.791 4.576 11.015 3.527 2.264 -2.256 C5M 126 21 126 C6 C6 C 0 1 N N N -1.466 6.457 9.418 1.791 1.600 -0.613 C6 126 22 126 "CA'" CA* C 0 1 N N N -0.967 9.635 5.272 -2.373 -0.878 -0.941 "CA'" 126 23 126 "CB'" CB* C 0 1 N N N -1.064 10.715 4.343 -3.190 -0.587 -2.201 "CB'" 126 24 126 "OC'" OC* O 0 1 N N N -2.073 10.393 3.378 -2.350 0.020 -3.184 "OC'" 126 25 126 "CD'" CD* C 0 1 N N N -2.476 11.539 2.624 -3.167 0.266 -4.331 "CD'" 126 26 126 "CE'" CE* C 0 1 N N N -3.496 11.170 1.694 -2.323 0.920 -5.427 "CE'" 126 27 126 "OF'" OF* O 0 1 N N N -3.020 10.145 0.817 -1.249 0.048 -5.785 "OF'" 126 28 126 "CG'" CG* C 0 1 N N N -4.096 9.498 0.127 -0.502 0.712 -6.807 "CG'" 126 29 126 "CH'" CH* C 0 1 N N N -3.697 8.202 -0.339 0.668 -0.172 -7.238 "CH'" 126 30 126 "OI'" OI* O 0 1 N N N -2.638 8.273 -1.303 0.168 -1.412 -7.743 "OI'" 126 31 126 "CK'" CK* C 0 1 N N N -1.862 7.075 -1.306 1.304 -2.190 -8.127 "CK'" 126 32 126 HOP2 2HOP H 0 0 N N N -4.002 5.733 11.929 1.064 -0.504 8.341 HOP2 126 33 126 HOP3 3HOP H 0 0 N N N -3.354 8.041 12.776 -1.710 0.185 7.389 HOP3 126 34 126 "H5'" 1H5* H 0 1 N N N -5.332 9.553 9.504 -1.878 -0.238 4.729 "H5'" 126 35 126 "H5''" 2H5* H 0 0 N N N -4.041 9.975 10.505 -0.496 -1.075 3.980 "H5''" 126 36 126 "H4'" H4* H 0 1 N N N -3.612 10.298 8.126 -1.395 1.775 3.343 "H4'" 126 37 126 "H3'" H3* H 0 1 N N N -3.870 7.216 7.878 -2.298 -0.822 2.365 "H3'" 126 38 126 "HO3'" H3T H 0 0 N Y N -4.898 7.844 5.995 -3.584 1.059 2.589 "HO3'" 126 39 126 "H2'" H2* H 0 1 N N N -2.130 7.413 6.041 -0.686 -1.000 0.666 "H2'" 126 40 126 "H1'" H1* H 0 1 N N N -0.419 8.984 7.554 -0.303 2.045 0.734 "H1'" 126 41 126 H3 H3 H 0 1 N N N 1.388 4.851 7.731 3.293 -1.752 -0.137 H3 126 42 126 H71 1H5M H 0 1 N N N -2.657 5.081 11.503 4.411 1.820 -2.715 H71 126 43 126 H72 2H5M H 0 1 N N N -2.110 3.561 10.679 2.808 2.525 -3.032 H72 126 44 126 H73 3H5M H 0 1 N N N -1.038 4.320 11.796 3.814 3.163 -1.710 H73 126 45 126 H6 H6 H 0 1 N N N -2.312 6.941 9.932 1.338 2.572 -0.739 H6 126 46 126 "HA'1" 1HA* H 0 0 N N N -0.141 9.785 6.006 -3.014 -1.342 -0.191 "HA'1" 126 47 126 "HA'2" 2HA* H 0 0 N N N -0.587 8.702 4.793 -1.554 -1.554 -1.187 "HA'2" 126 48 126 "HB'1" 1HB* H 0 0 N N N -1.246 11.694 4.842 -4.009 0.088 -1.955 "HB'1" 126 49 126 "HB'2" 2HB* H 0 0 N N N -0.084 10.964 3.871 -3.595 -1.520 -2.595 "HB'2" 126 50 126 "HD'1" 1HD* H 0 0 N N N -2.791 12.383 3.280 -3.986 0.931 -4.057 "HD'1" 126 51 126 "HD'2" 2HD* H 0 0 N N N -1.612 12.037 2.124 -3.571 -0.676 -4.698 "HD'2" 126 52 126 "HE'1" 1HE* H 0 0 N N N -4.439 10.872 2.207 -1.919 1.863 -5.060 "HE'1" 126 53 126 "HE'2" 2HE* H 0 0 N N N -3.885 12.050 1.131 -2.946 1.107 -6.301 "HE'2" 126 54 126 "HG'1" 1HG* H 0 0 N N N -5.015 9.445 0.754 -0.121 1.658 -6.423 "HG'1" 126 55 126 "HG'2" 2HG* H 0 0 N N N -4.493 10.129 -0.701 -1.149 0.902 -7.664 "HG'2" 126 56 126 "HH'1" 1HH* H 0 0 N N N -3.423 7.534 0.511 1.314 -0.362 -6.382 "HH'1" 126 57 126 "HH'2" 2HH* H 0 0 N N N -4.568 7.632 -0.738 1.238 0.333 -8.018 "HH'2" 126 58 126 "HK'1" 1HK* H 0 0 N N N -1.038 7.130 -2.055 0.971 -3.150 -8.520 "HK'1" 126 59 126 "HK'2" 2HK* H 0 0 N N N -1.474 6.834 -0.288 1.866 -1.658 -8.895 "HK'2" 126 60 126 "HK'3" 3HK* H 0 0 N N N -2.499 6.173 -1.463 1.942 -2.354 -7.258 "HK'3" 126 61 # 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 126 P OP1 DOUB N N 1 126 P OP2 SING N N 2 126 P OP3 SING N N 3 126 P "O5'" SING N N 4 126 OP2 HOP2 SING N N 5 126 OP3 HOP3 SING N N 6 126 "O5'" "C5'" SING N N 7 126 "C5'" "C4'" SING N N 8 126 "C5'" "H5'" SING N N 9 126 "C5'" "H5''" SING N N 10 126 "C4'" "O4'" SING N N 11 126 "C4'" "C3'" SING N N 12 126 "C4'" "H4'" SING N N 13 126 "O4'" "C1'" SING N N 14 126 "C3'" "O3'" SING N N 15 126 "C3'" "C2'" SING N N 16 126 "C3'" "H3'" SING N N 17 126 "O3'" "HO3'" SING N N 18 126 "C2'" "O2'" SING N N 19 126 "C2'" "C1'" SING N N 20 126 "C2'" "H2'" SING N N 21 126 "O2'" "CA'" SING N N 22 126 "C1'" N1 SING N N 23 126 "C1'" "H1'" SING N N 24 126 N1 C2 SING N N 25 126 N1 C6 SING N N 26 126 C2 O2 DOUB N N 27 126 C2 N3 SING N N 28 126 N3 C4 SING N N 29 126 N3 H3 SING N N 30 126 C4 O4 DOUB N N 31 126 C4 C5 SING N N 32 126 C5 C5M SING N N 33 126 C5 C6 DOUB N N 34 126 C5M H71 SING N N 35 126 C5M H72 SING N N 36 126 C5M H73 SING N N 37 126 C6 H6 SING N N 38 126 "CA'" "CB'" SING N N 39 126 "CA'" "HA'1" SING N N 40 126 "CA'" "HA'2" SING N N 41 126 "CB'" "OC'" SING N N 42 126 "CB'" "HB'1" SING N N 43 126 "CB'" "HB'2" SING N N 44 126 "OC'" "CD'" SING N N 45 126 "CD'" "CE'" SING N N 46 126 "CD'" "HD'1" SING N N 47 126 "CD'" "HD'2" SING N N 48 126 "CE'" "OF'" SING N N 49 126 "CE'" "HE'1" SING N N 50 126 "CE'" "HE'2" SING N N 51 126 "OF'" "CG'" SING N N 52 126 "CG'" "CH'" SING N N 53 126 "CG'" "HG'1" SING N N 54 126 "CG'" "HG'2" SING N N 55 126 "CH'" "OI'" SING N N 56 126 "CH'" "HH'1" SING N N 57 126 "CH'" "HH'2" SING N N 58 126 "OI'" "CK'" SING N N 59 126 "CK'" "HK'1" SING N N 60 126 "CK'" "HK'2" SING N N 61 126 "CK'" "HK'3" SING N N 62 # 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 126 SMILES ACDLabs 10.04 "O=C1NC(=O)N(C=C1C)C2OC(C(O)C2OCCOCCOCCOC)COP(=O)(O)O" 126 SMILES_CANONICAL CACTVS 3.341 "COCCOCCOCCO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=C(C)C(=O)NC2=O" 126 SMILES CACTVS 3.341 "COCCOCCOCCO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=C(C)C(=O)NC2=O" 126 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)OCCOCCOCCOC" 126 SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)OCCOCCOCCOC" 126 InChI InChI 1.03 "InChI=1S/C17H29N2O12P/c1-11-9-19(17(22)18-15(11)21)16-14(13(20)12(31-16)10-30-32(23,24)25)29-8-7-28-6-5-27-4-3-26-2/h9,12-14,16,20H,3-8,10H2,1-2H3,(H,18,21,22)(H2,23,24,25)/t12-,13-,14-,16-/m1/s1" 126 InChIKey InChI 1.03 ACTYZQFOUQVCOE-IXYNUQLISA-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 126 "SYSTEMATIC NAME" ACDLabs 10.04 ;2'-O-{2-[2-(2-methoxyethoxy)ethoxy]ethyl}-5-methyluridine 5'-(dihydrogen phosphate) ; 126 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4R,5R)-3-hydroxy-4-[2-[2-(2-methoxyethoxy)ethoxy]ethoxy]-5-(5-methyl-2,4-dioxo-pyrimidin-1-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 126 "Create component" 2001-02-09 RCSB 126 "Modify descriptor" 2011-06-04 RCSB #