data_5BU # _chem_comp.id 5BU _chem_comp.name "5-BROMO-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H12 Br N2 O9 P" _chem_comp.mon_nstd_parent_comp_id U _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-11-05 _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 403.077 _chem_comp.one_letter_code U _chem_comp.three_letter_code 5BU _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1JZV _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 5BU P P P 0 1 N N N 8.918 26.449 66.999 2.787 0.324 -4.407 P 5BU 1 5BU OP1 O1P O 0 1 N N N 9.879 27.593 66.855 3.659 1.172 -5.286 OP1 5BU 2 5BU OP2 O2P O 0 1 N N N 8.687 25.535 65.863 1.198 0.588 -4.548 OP2 5BU 3 5BU OP3 O3P O 0 1 N Y N ? ? ? 2.921 -1.270 -4.647 OP3 5BU 4 5BU "O5'" O5* O 0 1 N N N 7.559 27.076 67.518 3.063 0.476 -2.819 "O5'" 5BU 5 5BU "C5'" C5* C 0 1 N N N 6.433 26.247 67.792 2.282 -0.292 -1.921 "C5'" 5BU 6 5BU "C4'" C4* C 0 1 N N R 5.190 27.097 67.997 2.725 0.023 -0.498 "C4'" 5BU 7 5BU "O4'" O4* O 0 1 N N N 5.272 27.835 69.250 2.470 1.422 -0.246 "O4'" 5BU 8 5BU "C3'" C3* C 0 1 N N S 4.951 28.186 66.961 1.940 -0.742 0.560 "C3'" 5BU 9 5BU "O3'" O3* O 0 1 N N N 4.330 27.702 65.781 2.742 -0.809 1.739 "O3'" 5BU 10 5BU "C2'" C2* C 0 1 N N R 4.030 29.129 67.705 0.748 0.163 0.786 "C2'" 5BU 11 5BU "O2'" O2* O 0 1 N N N 2.714 28.628 67.777 0.137 -0.058 2.041 "O2'" 5BU 12 5BU "C1'" C1* C 0 1 N N R 4.644 29.095 69.102 1.373 1.543 0.675 "C1'" 5BU 13 5BU N1 N1 N 0 1 N N N 5.637 30.152 69.329 0.452 2.524 0.177 N1 5BU 14 5BU C2 C2 C 0 1 N N N 5.166 31.351 69.802 -0.299 3.337 1.055 C2 5BU 15 5BU O2 O2 O 0 1 N N N 3.971 31.574 69.935 -0.225 3.268 2.284 O2 5BU 16 5BU N3 N3 N 0 1 N N N 6.124 32.282 70.094 -1.158 4.250 0.432 N3 5BU 17 5BU C4 C4 C 0 1 N N N 7.492 32.132 69.925 -1.340 4.431 -0.932 C4 5BU 18 5BU O4 O4 O 0 1 N N N 8.263 33.029 70.302 -2.117 5.257 -1.404 O4 5BU 19 5BU C5 C5 C 0 1 N N N 7.885 30.873 69.373 -0.515 3.539 -1.787 C5 5BU 20 5BU C6 C6 C 0 1 N N N 6.984 29.949 69.104 0.309 2.664 -1.199 C6 5BU 21 5BU BR BR BR 0 0 N N N 9.700 30.535 69.023 -0.667 3.683 -3.638 BR 5BU 22 5BU HOP2 2HOP H 0 0 N N N 8.078 24.810 65.954 0.799 0.616 -5.443 HOP2 5BU 23 5BU HOP3 3HOP H 0 0 N N N -0.608 -0.724 0.091 2.886 -1.617 -5.563 HOP3 5BU 24 5BU "H5'" 1H5* H 0 1 N N N 6.283 25.474 67.001 1.229 -0.035 -2.051 "H5'" 5BU 25 5BU "H5''" 2H5* H 0 0 N N N 6.618 25.566 68.655 2.428 -1.352 -2.133 "H5''" 5BU 26 5BU "H4'" H4* H 0 1 N N N 4.372 26.341 67.946 3.804 -0.139 -0.410 "H4'" 5BU 27 5BU "H3'" H3* H 0 1 N N N 5.898 28.648 66.598 1.675 -1.764 0.277 "H3'" 5BU 28 5BU "HO3'" H3T H 0 0 N Y N 4.180 28.381 65.134 3.447 -0.153 1.628 "HO3'" 5BU 29 5BU "H2'" H2* H 0 1 N N N 3.952 30.133 67.228 -0.000 0.004 -0.000 "H2'" 5BU 30 5BU "HO2'" 2HO* H 0 0 N N N 2.135 29.219 68.244 -0.494 0.669 2.185 "HO2'" 5BU 31 5BU "H1'" H1* H 0 1 N N N 3.830 29.262 69.845 1.754 1.910 1.633 "H1'" 5BU 32 5BU H3 H3 H 0 1 N N N 5.788 33.167 70.471 -1.708 4.845 1.045 H3 5BU 33 5BU H6 H6 H 0 1 N N N 7.359 28.999 68.687 0.928 1.994 -1.788 H6 5BU 34 # 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 5BU P OP1 DOUB N N 1 5BU P OP2 SING N N 2 5BU P OP3 SING N N 3 5BU P "O5'" SING N N 4 5BU OP2 HOP2 SING N N 5 5BU OP3 HOP3 SING N N 6 5BU "O5'" "C5'" SING N N 7 5BU "C5'" "C4'" SING N N 8 5BU "C5'" "H5'" SING N N 9 5BU "C5'" "H5''" SING N N 10 5BU "C4'" "O4'" SING N N 11 5BU "C4'" "C3'" SING N N 12 5BU "C4'" "H4'" SING N N 13 5BU "O4'" "C1'" SING N N 14 5BU "C3'" "O3'" SING N N 15 5BU "C3'" "C2'" SING N N 16 5BU "C3'" "H3'" SING N N 17 5BU "O3'" "HO3'" SING N N 18 5BU "C2'" "O2'" SING N N 19 5BU "C2'" "C1'" SING N N 20 5BU "C2'" "H2'" SING N N 21 5BU "O2'" "HO2'" SING N N 22 5BU "C1'" N1 SING N N 23 5BU "C1'" "H1'" SING N N 24 5BU N1 C2 SING N N 25 5BU N1 C6 SING N N 26 5BU C2 O2 DOUB N N 27 5BU C2 N3 SING N N 28 5BU N3 C4 SING N N 29 5BU N3 H3 SING N N 30 5BU C4 O4 DOUB N N 31 5BU C4 C5 SING N N 32 5BU C5 C6 DOUB N N 33 5BU C5 BR SING N N 34 5BU C6 H6 SING N N 35 # 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 5BU SMILES ACDLabs 10.04 "BrC=1C(=O)NC(=O)N(C=1)C2OC(C(O)C2O)COP(=O)(O)O" 5BU SMILES_CANONICAL CACTVS 3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(Br)C(=O)NC2=O" 5BU SMILES CACTVS 3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=C(Br)C(=O)NC2=O" 5BU SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)Br" 5BU SMILES "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)O)Br" 5BU InChI InChI 1.03 "InChI=1S/C9H12BrN2O9P/c10-3-1-12(9(16)11-7(3)15)8-6(14)5(13)4(21-8)2-20-22(17,18)19/h1,4-6,8,13-14H,2H2,(H,11,15,16)(H2,17,18,19)/t4-,5-,6-,8-/m1/s1" 5BU InChIKey InChI 1.03 IDPVUMJNEZFMNU-UAKXSSHOSA-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 5BU "SYSTEMATIC NAME" ACDLabs 10.04 ;5-bromouridine 5'-(dihydrogen phosphate) ; 5BU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(5-bromo-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-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 5BU "Create component" 2003-11-05 RCSB 5BU "Modify descriptor" 2011-06-04 RCSB #