data_127 # _chem_comp.id 127 _chem_comp.name "2'-O-AMINOOXY-ETHYL-5-METHYL-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H20 N3 O10 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 397.275 _chem_comp.one_letter_code U _chem_comp.three_letter_code 127 _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 1I0F _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 127 P P P 0 1 N N N -5.011 7.651 11.483 0.145 -0.109 -5.073 P 127 1 127 OP1 O1P O 0 1 N N N -6.407 8.279 11.487 0.766 1.228 -4.952 OP1 127 2 127 OP2 O2P O 0 1 N N N -4.877 6.189 11.660 1.053 -1.039 -6.022 OP2 127 3 127 OP3 O3P O 0 1 N Y N -4.220 8.487 12.608 -1.324 0.038 -5.714 OP3 127 4 127 "O5'" O5* O 0 1 N N N -4.329 8.012 10.106 0.029 -0.781 -3.615 "O5'" 127 5 127 "C5'" C5* C 0 1 N N N -4.276 9.334 9.620 -0.784 0.086 -2.823 "C5'" 127 6 127 "C4'" C4* C 0 1 N N R -3.379 9.381 8.417 -0.934 -0.497 -1.417 "C4'" 127 7 127 "O4'" O4* O 0 1 N N N -1.992 9.164 8.816 0.354 -0.602 -0.775 "O4'" 127 8 127 "C3'" C3* C 0 1 N N R -3.612 8.280 7.380 -1.746 0.460 -0.518 "C3'" 127 9 127 "O3'" O3* O 0 1 N N N -4.718 8.517 6.496 -3.112 0.045 -0.448 "O3'" 127 10 127 "C2'" C2* C 0 1 N N R -2.301 8.345 6.615 -1.070 0.339 0.867 "C2'" 127 11 127 "O2'" O2* O 0 1 N N N -2.266 9.513 5.813 -1.999 -0.151 1.836 "O2'" 127 12 127 "C1'" C1* C 0 1 N N R -1.312 8.489 7.775 0.071 -0.675 0.638 "C1'" 127 13 127 N1 N1 N 0 1 N N N -0.878 7.162 8.274 1.253 -0.296 1.416 N1 127 14 127 C2 C2 C 0 1 N N N 0.168 6.571 7.609 1.822 0.907 1.220 C2 127 15 127 O2 O2 O 0 1 N N N 0.695 7.072 6.621 1.347 1.668 0.400 O2 127 16 127 N3 N3 N 0 1 N N N 0.566 5.359 8.129 2.908 1.280 1.921 N3 127 17 127 C4 C4 C 0 1 N N N 0.015 4.693 9.211 3.444 0.450 2.839 C4 127 18 127 O4 O4 O 0 1 N N N 0.498 3.636 9.581 4.427 0.787 3.473 O4 127 19 127 C5 C5 C 0 1 N N N -1.108 5.355 9.846 2.859 -0.821 3.050 C5 127 20 127 C5M C5M C 0 1 N N N -1.789 4.685 11.013 3.441 -1.769 4.067 C5M 127 21 127 C6 C6 C 0 1 N N N -1.489 6.548 9.356 1.769 -1.170 2.334 C6 127 22 127 "CA'" CA* C 0 1 N N N -1.186 9.610 4.860 -2.615 0.990 2.434 "CA'" 127 23 127 "CB'" CB* C 0 1 N N N -1.162 10.911 4.203 -3.626 0.532 3.487 "CB'" 127 24 127 "OC'" OC* O 0 1 N N N -2.173 11.051 3.189 -2.954 -0.228 4.493 "OC'" 127 25 127 "ND'" ND* N 0 1 N N N -2.231 9.845 2.289 -3.970 -0.634 5.464 "ND'" 127 26 127 HOP2 2HOP H 0 0 N N N -4.010 5.799 11.657 1.097 -0.601 -6.883 HOP2 127 27 127 HOP3 3HOP H 0 0 N N N -3.353 8.097 12.605 -1.693 -0.853 -5.775 HOP3 127 28 127 "H5'" 1H5* H 0 1 N N N -5.289 9.748 9.409 -1.767 0.182 -3.284 "H5'" 127 29 127 "H5''" 2H5* H 0 0 N N N -3.968 10.062 10.406 -0.314 1.067 -2.760 "H5''" 127 30 127 "H4'" H4* H 0 1 N N N -3.601 10.380 7.975 -1.416 -1.474 -1.462 "H4'" 127 31 127 "H3'" H3* H 0 1 N N N -3.870 7.300 7.846 -1.678 1.483 -0.890 "H3'" 127 32 127 "HO3'" H3T H 0 0 N Y N -4.862 7.833 5.852 -3.462 0.083 -1.348 "HO3'" 127 33 127 "H2'" H2* H 0 1 N N N -2.112 7.484 5.931 -0.666 1.302 1.181 "H2'" 127 34 127 "H1'" H1* H 0 1 N N N -0.407 9.044 7.433 -0.254 -1.679 0.909 "H1'" 127 35 127 H3 H3 H 0 1 N N N 1.352 4.906 7.663 3.306 2.152 1.768 H3 127 36 127 H71 1H5M H 0 1 N N N -2.652 5.194 11.501 4.310 -1.310 4.537 H71 127 37 127 H72 2H5M H 0 1 N N N -2.104 3.660 10.704 2.691 -1.992 4.827 H72 127 38 127 H73 3H5M H 0 1 N N N -1.023 4.452 11.789 3.741 -2.693 3.571 H73 127 39 127 H6 H6 H 0 1 N N N -2.335 7.042 9.861 1.306 -2.134 2.485 H6 127 40 127 "HA'1" 1HA* H 0 0 N N N -0.204 9.375 5.333 -1.852 1.608 2.908 "HA'1" 127 41 127 "HA'2" 2HA* H 0 0 N N N -1.223 8.779 4.116 -3.127 1.570 1.667 "HA'2" 127 42 127 "HB'1" 1HB* H 0 0 N N N -1.232 11.734 4.950 -4.096 1.403 3.943 "HB'1" 127 43 127 "HB'2" 2HB* H 0 0 N N N -0.150 11.127 3.787 -4.389 -0.085 3.013 "HB'2" 127 44 127 "HD'1" 1HD* H 0 0 N N N -2.947 9.944 1.570 -3.494 -1.171 6.174 "HD'1" 127 45 127 "HD'2" 2HD* H 0 0 N N N -2.358 8.986 2.825 -4.299 0.208 5.910 "HD'2" 127 46 # 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 127 P OP1 DOUB N N 1 127 P OP2 SING N N 2 127 P OP3 SING N N 3 127 P "O5'" SING N N 4 127 OP2 HOP2 SING N N 5 127 OP3 HOP3 SING N N 6 127 "O5'" "C5'" SING N N 7 127 "C5'" "C4'" SING N N 8 127 "C5'" "H5'" SING N N 9 127 "C5'" "H5''" SING N N 10 127 "C4'" "O4'" SING N N 11 127 "C4'" "C3'" SING N N 12 127 "C4'" "H4'" SING N N 13 127 "O4'" "C1'" SING N N 14 127 "C3'" "O3'" SING N N 15 127 "C3'" "C2'" SING N N 16 127 "C3'" "H3'" SING N N 17 127 "O3'" "HO3'" SING N N 18 127 "C2'" "O2'" SING N N 19 127 "C2'" "C1'" SING N N 20 127 "C2'" "H2'" SING N N 21 127 "O2'" "CA'" SING N N 22 127 "C1'" N1 SING N N 23 127 "C1'" "H1'" SING N N 24 127 N1 C2 SING N N 25 127 N1 C6 SING N N 26 127 C2 O2 DOUB N N 27 127 C2 N3 SING N N 28 127 N3 C4 SING N N 29 127 N3 H3 SING N N 30 127 C4 O4 DOUB N N 31 127 C4 C5 SING N N 32 127 C5 C5M SING N N 33 127 C5 C6 DOUB N N 34 127 C5M H71 SING N N 35 127 C5M H72 SING N N 36 127 C5M H73 SING N N 37 127 C6 H6 SING N N 38 127 "CA'" "CB'" SING N N 39 127 "CA'" "HA'1" SING N N 40 127 "CA'" "HA'2" SING N N 41 127 "CB'" "OC'" SING N N 42 127 "CB'" "HB'1" SING N N 43 127 "CB'" "HB'2" SING N N 44 127 "OC'" "ND'" SING N N 45 127 "ND'" "HD'1" SING N N 46 127 "ND'" "HD'2" SING N N 47 # 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 127 SMILES ACDLabs 10.04 "O=C1NC(=O)N(C=C1C)C2OC(C(O)C2OCCON)COP(=O)(O)O" 127 SMILES_CANONICAL CACTVS 3.341 "CC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2OCCON)C(=O)NC1=O" 127 SMILES CACTVS 3.341 "CC1=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2OCCON)C(=O)NC1=O" 127 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)OCCON" 127 SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)OCCON" 127 InChI InChI 1.03 "InChI=1S/C12H20N3O10P/c1-6-4-15(12(18)14-10(6)17)11-9(22-2-3-23-13)8(16)7(25-11)5-24-26(19,20)21/h4,7-9,11,16H,2-3,5,13H2,1H3,(H,14,17,18)(H2,19,20,21)/t7-,8-,9-,11-/m1/s1" 127 InChIKey InChI 1.03 JDSWLJMCXJILRI-TURQNECASA-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 127 "SYSTEMATIC NAME" ACDLabs 10.04 ;2'-O-[2-(aminooxy)ethyl]-5-methyluridine 5'-(dihydrogen phosphate) ; 127 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4R,5R)-4-(2-aminooxyethoxy)-3-hydroxy-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 127 "Create component" 2001-02-09 RCSB 127 "Modify descriptor" 2011-06-04 RCSB #