data_TLB # _chem_comp.id TLB _chem_comp.name "2'-O,3'-C-METHYLENE-ARABINOFURANOSYL-THYMINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C11 H15 N2 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-02-07 _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 350.219 _chem_comp.one_letter_code N _chem_comp.three_letter_code TLB _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 1OCI _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 TLB O2P O2P O 0 1 N N N 4.968 10.203 -3.343 1.159 4.891 1.708 O2P TLB 1 TLB P P P 0 1 N N N 5.197 8.811 -2.896 0.058 3.882 1.859 P TLB 2 TLB O1P O1P O 0 1 N N N 6.467 8.458 -2.222 -1.074 4.253 2.952 O1P TLB 3 TLB O3P O3P O 0 1 N Y N ? ? ? -0.798 3.600 0.516 O3P TLB 4 TLB "O5'" O5* O 0 1 N N N 3.980 8.382 -1.926 0.542 2.401 2.294 "O5'" TLB 5 TLB "C5'" C5* C 0 1 N N N 2.652 8.799 -2.176 -0.440 1.390 2.458 "C5'" TLB 6 TLB "C4'" C4* C 0 1 N N R 1.631 8.060 -1.303 0.244 0.100 2.863 "C4'" TLB 7 TLB "O4'" O4* O 0 1 N N N 1.686 6.662 -1.520 -0.725 -0.943 3.024 "O4'" TLB 8 TLB "C3'" C3* C 0 1 N N R 1.688 8.290 0.221 1.247 -0.402 1.833 "C3'" TLB 9 TLB "O3'" O3* O 0 1 N N N 0.959 9.461 0.603 2.560 0.122 2.091 "O3'" TLB 10 TLB "C2'" C2* C 0 1 N N S 1.172 6.946 0.739 1.085 -1.922 1.889 "C2'" TLB 11 TLB "O2'" O2* O 0 1 N N N 2.371 6.722 1.458 0.565 -1.959 0.535 "O2'" TLB 12 TLB "C1'" C1* C 0 1 N N R 0.920 6.071 -0.489 0.023 -2.155 2.942 "C1'" TLB 13 TLB N1 N1 N 0 1 N N N 1.286 4.651 -0.263 -0.822 -3.239 2.541 N1 TLB 14 TLB C2 C2 C 0 1 N N N 0.270 3.709 -0.081 -0.561 -4.568 2.951 C2 TLB 15 TLB O2 O2 O 0 1 N N N -0.925 3.994 -0.057 0.389 -4.887 3.668 O2 TLB 16 TLB N3 N3 N 0 1 N N N 0.681 2.392 0.073 -1.468 -5.526 2.484 N3 TLB 17 TLB C4 C4 C 0 1 N N N 1.993 1.938 0.079 -2.573 -5.305 1.676 C4 TLB 18 TLB O4 O4 O 0 1 N N N 2.218 0.736 0.203 -3.331 -6.196 1.302 O4 TLB 19 TLB C5 C5 C 0 1 N N N 2.992 2.989 -0.075 -2.785 -3.886 1.284 C5 TLB 20 TLB C5M C5M C 0 1 N N N 4.469 2.645 -0.059 -3.957 -3.566 0.412 C5M TLB 21 TLB C6 C6 C 0 1 N N N 2.609 4.283 -0.233 -1.920 -2.967 1.729 C6 TLB 22 TLB "C9'" C9* C 0 1 N N N 2.965 7.918 0.996 0.869 -0.559 0.353 "C9'" TLB 23 TLB H1P H1P H 0 1 N N N 6.554 7.473 -2.176 -1.476 5.148 2.934 H1P TLB 24 TLB H3P H3P H 0 1 N N N 0.147 -0.894 0.287 -1.132 4.363 -0.003 H3P TLB 25 TLB "H5'1" 1H5* H 0 0 N N N 2.411 8.602 -3.222 -1.148 1.706 3.229 "H5'1" TLB 26 TLB "H5'2" 2H5* H 0 0 N N N 2.570 9.871 -1.995 -0.973 1.259 1.512 "H5'2" TLB 27 TLB H3 H3 H 0 1 N N N 0.675 8.520 -1.645 0.733 0.243 3.836 H3 TLB 28 TLB "H3'" H3* H 0 1 N N N -0.012 9.280 0.544 3.110 -0.164 1.350 "H3'" TLB 29 TLB "H2'" H2* H 0 1 N N N 0.307 6.998 1.378 1.999 -2.516 1.981 "H2'" TLB 30 TLB "H1'" H1* H 0 1 N N N -0.137 6.146 -0.757 0.456 -2.385 3.922 "H1'" TLB 31 TLB HB HB H 0 1 N N N -0.053 1.707 0.183 -1.297 -6.487 2.768 HB TLB 32 TLB H6 H6 H 0 1 N N N 4.617 1.679 -0.564 -3.936 -4.194 -0.478 H6 TLB 33 TLB H5M1 1H5M H 0 0 N N N 5.041 3.411 -0.584 -3.919 -2.518 0.115 H5M1 TLB 34 TLB H5M2 2H5M H 0 0 N N N 4.814 2.581 0.973 -4.882 -3.745 0.958 H5M2 TLB 35 TLB HA HA H 0 1 N N N 3.335 5.074 -0.334 -2.038 -1.920 1.466 HA TLB 36 TLB "H9'1" 1H9* H 0 0 N N N 3.211 8.590 1.811 -0.001 0.000 0.002 "H9'1" TLB 37 TLB "H9'2" 2H9* H 0 0 N N N 3.820 7.720 0.363 1.692 -0.424 -0.357 "H9'2" TLB 38 # 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 TLB O2P P DOUB N N 1 TLB P O1P SING N N 2 TLB P O3P SING N N 3 TLB P "O5'" SING N N 4 TLB O1P H1P SING N N 5 TLB O3P H3P SING N N 6 TLB "O5'" "C5'" SING N N 7 TLB "C5'" "C4'" SING N N 8 TLB "C5'" "H5'1" SING N N 9 TLB "C5'" "H5'2" SING N N 10 TLB "C4'" "O4'" SING N N 11 TLB "C4'" "C3'" SING N N 12 TLB "C4'" H3 SING N N 13 TLB "O4'" "C1'" SING N N 14 TLB "C3'" "O3'" SING N N 15 TLB "C3'" "C2'" SING N N 16 TLB "C3'" "C9'" SING N N 17 TLB "O3'" "H3'" SING N N 18 TLB "C2'" "O2'" SING N N 19 TLB "C2'" "C1'" SING N N 20 TLB "C2'" "H2'" SING N N 21 TLB "O2'" "C9'" SING N N 22 TLB "C1'" N1 SING N N 23 TLB "C1'" "H1'" SING N N 24 TLB N1 C2 SING N N 25 TLB N1 C6 SING N N 26 TLB C2 O2 DOUB N N 27 TLB C2 N3 SING N N 28 TLB N3 C4 SING N N 29 TLB N3 HB SING N N 30 TLB C4 O4 DOUB N N 31 TLB C4 C5 SING N N 32 TLB C5 C5M SING N N 33 TLB C5 C6 DOUB N N 34 TLB C5M H6 SING N N 35 TLB C5M H5M1 SING N N 36 TLB C5M H5M2 SING N N 37 TLB C6 HA SING N N 38 TLB "C9'" "H9'1" SING N N 39 TLB "C9'" "H9'2" 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 TLB SMILES ACDLabs 10.04 "O=C1C(=CN(C(=O)N1)C3OC(C2(O)COC23)COP(=O)(O)O)C" TLB SMILES_CANONICAL CACTVS 3.341 "CC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@]3(O)CO[C@H]23)C(=O)NC1=O" TLB SMILES CACTVS 3.341 "CC1=CN([CH]2O[CH](CO[P](O)(O)=O)[C]3(O)CO[CH]23)C(=O)NC1=O" TLB SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]3[C@@](CO3)([C@H](O2)COP(=O)(O)O)O" TLB SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2C3C(CO3)(C(O2)COP(=O)(O)O)O" TLB InChI InChI 1.03 "InChI=1S/C11H15N2O9P/c1-5-2-13(10(15)12-8(5)14)9-7-11(16,4-20-7)6(22-9)3-21-23(17,18)19/h2,6-7,9,16H,3-4H2,1H3,(H,12,14,15)(H2,17,18,19)/t6-,7-,9-,11-/m1/s1" TLB InChIKey InChI 1.03 PZOSKPASRDLNLU-LUQPRHOASA-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 TLB "SYSTEMATIC NAME" ACDLabs 10.04 "[(1R,2R,4R,5S)-1-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,6-dioxabicyclo[3.2.0]hept-2-yl]methyl dihydrogen phosphate" TLB "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(1R,2R,4R,5S)-1-hydroxy-4-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-3,6-dioxabicyclo[3.2.0]heptan-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 TLB "Create component" 2003-02-07 RCSB TLB "Modify descriptor" 2011-06-04 RCSB #