data_2OM # _chem_comp.id 2OM _chem_comp.name ;5,6-dihydroorotidine 5'-monophosphate ; _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H15 N2 O11 P" _chem_comp.mon_nstd_parent_comp_id U _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-02-06 _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 370.207 _chem_comp.one_letter_code U _chem_comp.three_letter_code 2OM _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 3G1F _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 2OM "O5'" "O5'" O 0 1 N N N -93.930 81.418 -70.854 3.187 -0.244 -0.486 "O5'" 2OM 1 2OM "C5'" "C5'" C 0 1 N N N -94.872 80.355 -70.702 2.615 0.851 0.232 "C5'" 2OM 2 2OM "C4'" "C4'" C 0 1 N N R -94.162 79.066 -70.293 1.404 1.386 -0.534 "C4'" 2OM 3 2OM "O4'" "O4'" O 0 1 N N N -93.906 79.048 -68.840 0.359 0.398 -0.548 "O4'" 2OM 4 2OM "C3'" "C3'" C 0 1 N N S -95.030 77.842 -70.600 0.844 2.634 0.176 "C3'" 2OM 5 2OM "O3'" "O3'" O 0 1 N N N -94.207 76.753 -71.047 0.888 3.766 -0.694 "O3'" 2OM 6 2OM "C2'" "C2'" C 0 1 N N R -95.712 77.567 -69.269 -0.622 2.259 0.504 "C2'" 2OM 7 2OM "O2'" "O2'" O 0 1 N N N -96.184 76.225 -69.199 -1.496 3.364 0.266 "O2'" 2OM 8 2OM "C1'" "C1'" C 0 1 N N R -94.600 77.890 -68.267 -0.895 1.111 -0.501 "C1'" 2OM 9 2OM N1 N1 N 0 1 N N N -95.143 78.199 -66.902 -1.965 0.239 -0.009 N1 2OM 10 2OM C2 C2 C 0 1 N N N -95.789 79.397 -66.634 -1.809 -0.408 1.157 C2 2OM 11 2OM N3 N3 N 0 1 N N N -96.428 79.612 -65.460 -2.805 -1.127 1.702 N3 2OM 12 2OM C4 C4 C 0 1 N N N -96.322 78.763 -64.414 -4.062 -1.036 1.232 C4 2OM 13 2OM C5 C5 C 0 1 N N N -95.904 77.324 -64.621 -4.390 -0.044 0.144 C5 2OM 14 2OM C6 C6 C 0 1 N N R -94.949 77.166 -65.836 -3.192 0.090 -0.794 C6 2OM 15 2OM P P P 0 1 N N N -94.628 82.519 -71.805 4.481 -1.051 0.031 P 2OM 16 2OM O2 O2 O 0 1 N N N -95.794 80.300 -67.461 -0.742 -0.341 1.734 O2 2OM 17 2OM O4 O4 O 0 1 N N N -96.571 79.153 -63.298 -4.931 -1.752 1.682 O4 2OM 18 2OM OP2 OP2 O 0 1 N N N -96.003 83.035 -71.118 4.125 -1.816 1.402 OP2 2OM 19 2OM OP3 OP3 O 0 1 N Y N -93.634 83.776 -72.001 4.923 -2.126 -1.084 OP3 2OM 20 2OM OP1 OP1 O 0 1 N N N -94.931 81.926 -73.136 5.592 -0.102 0.269 OP1 2OM 21 2OM C7 C7 C 0 1 N N N -93.534 77.153 -65.331 -3.092 -1.145 -1.653 C7 2OM 22 2OM O71 O71 O 0 1 N N N -92.826 78.126 -65.439 -2.098 -1.829 -1.613 O71 2OM 23 2OM O72 O72 O 0 1 N N N -93.046 76.044 -64.755 -4.108 -1.484 -2.462 O72 2OM 24 2OM "H5'" "H5'" H 0 1 N N N -95.601 80.628 -69.924 2.301 0.513 1.220 "H5'" 2OM 25 2OM "H5'A" "H5'A" H 0 0 N N N -95.383 80.191 -71.662 3.357 1.643 0.338 "H5'A" 2OM 26 2OM "H4'" "H4'" H 0 1 N N N -93.220 79.030 -70.860 1.692 1.636 -1.555 "H4'" 2OM 27 2OM "H3'" "H3'" H 0 1 N N N -95.761 77.990 -71.409 1.401 2.833 1.092 "H3'" 2OM 28 2OM "HO3'" "HO3'" H 0 0 N Y N -94.025 76.853 -71.974 0.548 4.580 -0.298 "HO3'" 2OM 29 2OM "H2'" "H2'" H 0 1 N N N -96.620 78.160 -69.084 -0.713 1.907 1.531 "H2'" 2OM 30 2OM "HO2'" "HO2'" H 0 0 N N N -96.289 75.880 -70.078 -1.305 4.140 0.810 "HO2'" 2OM 31 2OM "H1'" "H1'" H 0 1 N N N -93.928 77.032 -68.119 -1.146 1.512 -1.483 "H1'" 2OM 32 2OM HN3 HN3 H 0 1 N N N -96.998 80.428 -65.363 -2.614 -1.720 2.445 HN3 2OM 33 2OM H5 H5 H 0 1 N N N -95.384 76.975 -63.717 -5.257 -0.393 -0.418 H5 2OM 34 2OM H5A H5A H 0 1 N N N -96.809 76.730 -64.818 -4.611 0.925 0.589 H5A 2OM 35 2OM H6 H6 H 0 1 N N N -95.189 76.213 -66.330 -3.325 0.965 -1.431 H6 2OM 36 2OM HOP2 HOP2 H 0 0 N N N -95.872 83.136 -70.183 3.404 -2.455 1.320 HOP2 2OM 37 2OM HOP3 HOP3 H 0 0 N Y N -93.439 84.161 -71.155 5.699 -2.650 -0.839 HOP3 2OM 38 2OM HO72 HO72 H 0 0 N N N -92.145 76.193 -64.494 -3.998 -2.284 -2.993 HO72 2OM 39 # 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 2OM P "O5'" SING N N 1 2OM "O5'" "C5'" SING N N 2 2OM "C5'" "C4'" SING N N 3 2OM "C5'" "H5'" SING N N 4 2OM "C5'" "H5'A" SING N N 5 2OM "C3'" "C4'" SING N N 6 2OM "C4'" "O4'" SING N N 7 2OM "C4'" "H4'" SING N N 8 2OM "O4'" "C1'" SING N N 9 2OM "O3'" "C3'" SING N N 10 2OM "C3'" "C2'" SING N N 11 2OM "C3'" "H3'" SING N N 12 2OM "O3'" "HO3'" SING N N 13 2OM "C2'" "O2'" SING N N 14 2OM "C2'" "C1'" SING N N 15 2OM "C2'" "H2'" SING N N 16 2OM "O2'" "HO2'" SING N N 17 2OM "C1'" N1 SING N N 18 2OM "C1'" "H1'" SING N N 19 2OM N1 C2 SING N N 20 2OM N1 C6 SING N N 21 2OM O2 C2 DOUB N N 22 2OM C2 N3 SING N N 23 2OM N3 C4 SING N N 24 2OM N3 HN3 SING N N 25 2OM C5 C4 SING N N 26 2OM C4 O4 DOUB N N 27 2OM C6 C5 SING N N 28 2OM C5 H5 SING N N 29 2OM C5 H5A SING N N 30 2OM C6 C7 SING N N 31 2OM C6 H6 SING N N 32 2OM OP1 P DOUB N N 33 2OM OP3 P SING N N 34 2OM P OP2 SING N N 35 2OM OP2 HOP2 SING N N 36 2OM OP3 HOP3 SING N N 37 2OM O71 C7 DOUB N N 38 2OM C7 O72 SING N N 39 2OM O72 HO72 SING N N 40 # 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 2OM SMILES ACDLabs 10.04 "O=C(O)C1N(C(=O)NC(=O)C1)C2OC(C(O)C2O)COP(=O)(O)O" 2OM SMILES_CANONICAL CACTVS 3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2[C@H](CC(=O)NC2=O)C(O)=O" 2OM SMILES CACTVS 3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2[CH](CC(=O)NC2=O)C(O)=O" 2OM SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H](N(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)C(=O)O" 2OM SMILES "OpenEye OEToolkits" 1.5.0 "C1C(N(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)O)C(=O)O" 2OM InChI InChI 1.03 "InChI=1S/C10H15N2O11P/c13-5-1-3(9(16)17)12(10(18)11-5)8-7(15)6(14)4(23-8)2-22-24(19,20)21/h3-4,6-8,14-15H,1-2H2,(H,16,17)(H,11,13,18)(H2,19,20,21)/t3-,4-,6-,7-,8-/m1/s1" 2OM InChIKey InChI 1.03 ZVESSEXVBFSYOC-NFTAXOAUSA-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 2OM "SYSTEMATIC NAME" ACDLabs 10.04 ;6-carboxyuridine 5'-(dihydrogen phosphate) ; 2OM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(4R)-3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,6-dioxo-1,3-diazinane-4-carboxylic 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 2OM "Create component" 2009-02-06 RCSB 2OM "Modify descriptor" 2011-06-04 RCSB #