data_T6A # _chem_comp.id T6A _chem_comp.name "N-[N-(9-B-D-RIBOFURANOSYLPURIN-6-YL)CARBAMOYL]THREONINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C15 H21 N6 O11 P" _chem_comp.mon_nstd_parent_comp_id A _chem_comp.pdbx_synonyms "N-(NEBULARIN-6-YLCARBAMOYL)-L-THREONINE-5'-MONOPHOSPHATE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2021-03-01 _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 492.335 _chem_comp.one_letter_code A _chem_comp.three_letter_code T6A _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 1FL8 _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 T6A P P P 0 1 N N N -2.670 -2.509 20.510 1.990 0.017 -7.150 P T6A 1 T6A OP1 O1P O 0 1 N N N -1.688 -1.444 20.812 2.598 1.266 -6.640 OP1 T6A 2 T6A OP2 O2P O 0 1 N N N -2.369 -3.505 19.457 3.151 -1.040 -7.502 OP2 T6A 3 T6A OP3 O3P O 0 1 N Y N -2.976 -3.305 21.881 1.136 0.338 -8.477 OP3 T6A 4 T6A "O5'" O5* O 0 1 N N N -4.071 -1.804 20.141 1.020 -0.605 -6.026 "O5'" T6A 5 T6A "C5'" C5* C 0 1 N N N -5.089 -2.513 19.469 0.015 0.375 -5.758 "C5'" T6A 6 T6A "C4'" C4* C 0 1 N N R -6.326 -1.628 19.383 -0.944 -0.156 -4.692 "C4'" T6A 7 T6A "O4'" O4* O 0 1 N N N -6.569 -1.011 20.645 -0.235 -0.412 -3.459 "O4'" T6A 8 T6A "C3'" C3* C 0 1 N N S -6.185 -0.486 18.387 -1.994 0.916 -4.327 "C3'" T6A 9 T6A "O3'" O3* O 0 1 N N N -6.563 -0.911 17.072 -3.215 0.680 -5.031 "O3'" T6A 10 T6A "C2'" C2* C 0 1 N N R -7.127 0.566 18.968 -2.202 0.737 -2.805 "C2'" T6A 11 T6A "O2'" O2* O 0 1 N N N -8.416 0.432 18.414 -3.559 0.388 -2.523 "O2'" T6A 12 T6A "C1'" C1* C 0 1 N N R -7.185 0.262 20.460 -1.250 -0.419 -2.431 "C1'" T6A 13 T6A N9 N9 N 0 1 Y N N -6.492 1.294 21.204 -0.647 -0.180 -1.118 N9 T6A 14 T6A C8 C8 C 0 1 Y N N -5.140 1.384 21.372 0.503 0.508 -0.872 C8 T6A 15 T6A N7 N7 N 0 1 Y N N -4.811 2.484 21.997 0.745 0.527 0.405 N7 T6A 16 T6A C5 C5 C 0 1 Y N N -6.030 3.135 22.224 -0.233 -0.140 1.061 C5 T6A 17 T6A C6 C6 C 0 1 Y N N -6.366 4.359 22.815 -0.491 -0.445 2.407 C6 T6A 18 T6A N6 N6 N 0 1 N N N -5.316 5.218 23.349 0.367 -0.015 3.409 N6 T6A 19 T6A N1 N1 N 0 1 Y N N -7.668 4.684 22.847 -1.579 -1.149 2.699 N1 T6A 20 T6A C2 C2 C 0 1 Y N N -8.646 3.909 22.345 -2.402 -1.562 1.753 C2 T6A 21 T6A N3 N3 N 0 1 Y N N -8.391 2.729 21.756 -2.198 -1.305 0.478 N3 T6A 22 T6A C4 C4 C 0 1 Y N N -7.078 2.410 21.731 -1.136 -0.607 0.089 C4 T6A 23 T6A C10 C10 C 0 1 N N N -5.529 6.461 23.931 0.102 -0.312 4.697 C10 T6A 24 T6A O10 O10 O 0 1 N N N -4.558 7.099 24.336 -0.889 -0.955 4.981 O10 T6A 25 T6A N11 N11 N 0 1 N N N -6.793 7.005 24.065 0.935 0.105 5.670 N11 T6A 26 T6A C12 C12 C 0 1 N N S -6.915 8.315 24.674 0.647 -0.217 7.070 C12 T6A 27 T6A C13 C13 C 0 1 N N N -6.442 8.254 26.120 -0.197 0.875 7.673 C13 T6A 28 T6A ODA O13A O 0 1 N N N -6.149 9.338 26.667 -0.979 0.616 8.557 ODA T6A 29 T6A ODB O13B O 0 1 N N N -6.384 7.123 26.650 -0.081 2.136 7.228 ODB T6A 30 T6A C14 C14 C 0 1 N N R -8.374 8.767 24.602 1.959 -0.334 7.847 C14 T6A 31 T6A O14 O14 O 0 1 N N N -9.199 7.668 24.914 2.666 0.905 7.780 O14 T6A 32 T6A C15 C15 C 0 1 N N N -8.744 9.288 23.214 2.817 -1.444 7.235 C15 T6A 33 T6A HOP2 2HOP H 0 0 N N N -2.999 -4.188 19.263 3.708 -0.629 -8.177 HOP2 T6A 34 T6A HOP3 3HOP H 0 0 N N N -3.606 -3.988 21.687 0.758 -0.499 -8.776 HOP3 T6A 35 T6A "H5'" 1H5* H 0 1 N N N -4.765 -2.777 18.463 -0.538 0.587 -6.672 "H5'" T6A 36 T6A "H5''" 2H5* H 0 0 N N N -5.339 -3.418 20.020 0.487 1.289 -5.398 "H5''" T6A 37 T6A "H4'" H4* H 0 1 N N N -7.209 -2.227 19.120 -1.435 -1.064 -5.043 "H4'" T6A 38 T6A "H3'" H3* H 0 1 N N N -5.145 -0.133 18.415 -1.614 1.913 -4.548 "H3'" T6A 39 T6A "HO3'" H3T H 0 0 N Y N -6.475 -0.198 16.450 -3.830 1.378 -4.766 "HO3'" T6A 40 T6A "H2'" H2* H 0 1 N N N -6.727 1.577 18.820 -1.924 1.646 -2.272 "H2'" T6A 41 T6A "HO2'" 2HO* H 0 0 N N N -8.743 -0.469 18.576 -4.107 1.122 -2.833 "HO2'" T6A 42 T6A "H1'" H1* H 0 1 N N N -8.233 0.194 20.784 -1.786 -1.368 -2.435 "H1'" T6A 43 T6A H8 H8 H 0 1 N N N -4.431 0.645 21.031 1.122 0.969 -1.627 H8 T6A 44 T6A HN6 HN6 H 0 1 N N N -4.363 4.891 23.280 1.158 0.497 3.183 HN6 T6A 45 T6A H2 H2 H 0 1 N N N -9.669 4.248 22.414 -3.275 -2.132 2.035 H2 T6A 46 T6A HN1 HN1 H 0 1 N N N -7.574 6.460 23.728 1.727 0.618 5.444 HN1 T6A 47 T6A H12 H12 H 0 1 N N N -6.286 9.004 24.110 0.108 -1.163 7.121 H12 T6A 48 T6A H13 H13 H 0 1 N N N -6.088 7.084 27.552 -0.623 2.837 7.615 H13 T6A 49 T6A H14 H14 H 0 1 N N N -8.548 9.539 25.352 1.745 -0.574 8.889 H14 T6A 50 T6A HO4 HO4 H 0 1 N N N -10.114 7.957 24.890 2.836 1.079 6.844 HO4 T6A 51 T6A H151 1H15 H 0 0 N N N -8.527 8.525 22.467 3.752 -1.528 7.789 H151 T6A 52 T6A H152 2H15 H 0 0 N N N -9.810 9.516 23.192 2.278 -2.390 7.286 H152 T6A 53 T6A H153 3H15 H 0 0 N N N -8.184 10.196 22.985 3.032 -1.204 6.194 H153 T6A 54 # # 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 T6A P OP1 DOUB N N 1 T6A P OP2 SING N N 2 T6A P OP3 SING N N 3 T6A P "O5'" SING N N 4 T6A OP2 HOP2 SING N N 5 T6A OP3 HOP3 SING N N 6 T6A "O5'" "C5'" SING N N 7 T6A "C5'" "C4'" SING N N 8 T6A "C5'" "H5'" SING N N 9 T6A "C5'" "H5''" SING N N 10 T6A "C4'" "O4'" SING N N 11 T6A "C4'" "C3'" SING N N 12 T6A "C4'" "H4'" SING N N 13 T6A "O4'" "C1'" SING N N 14 T6A "C3'" "O3'" SING N N 15 T6A "C3'" "C2'" SING N N 16 T6A "C3'" "H3'" SING N N 17 T6A "O3'" "HO3'" SING N N 18 T6A "C2'" "O2'" SING N N 19 T6A "C2'" "C1'" SING N N 20 T6A "C2'" "H2'" SING N N 21 T6A "O2'" "HO2'" SING N N 22 T6A "C1'" N9 SING N N 23 T6A "C1'" "H1'" SING N N 24 T6A N9 C8 SING Y N 25 T6A N9 C4 SING Y N 26 T6A C8 N7 DOUB Y N 27 T6A C8 H8 SING N N 28 T6A N7 C5 SING Y N 29 T6A C5 C6 SING Y N 30 T6A C5 C4 DOUB Y N 31 T6A C6 N6 SING N N 32 T6A C6 N1 DOUB Y N 33 T6A N6 C10 SING N N 34 T6A N6 HN6 SING N N 35 T6A N1 C2 SING Y N 36 T6A C2 N3 DOUB Y N 37 T6A C2 H2 SING N N 38 T6A N3 C4 SING Y N 39 T6A C10 O10 DOUB N N 40 T6A C10 N11 SING N N 41 T6A N11 C12 SING N N 42 T6A N11 HN1 SING N N 43 T6A C12 C13 SING N N 44 T6A C12 C14 SING N N 45 T6A C12 H12 SING N N 46 T6A C13 ODA DOUB N N 47 T6A C13 ODB SING N N 48 T6A ODB H13 SING N N 49 T6A C14 O14 SING N N 50 T6A C14 C15 SING N N 51 T6A C14 H14 SING N N 52 T6A O14 HO4 SING N N 53 T6A C15 H151 SING N N 54 T6A C15 H152 SING N N 55 T6A C15 H153 SING N N 56 # # 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 T6A SMILES ACDLabs 10.04 "O=C(O)C(NC(=O)Nc3ncnc1c3ncn1C2OC(C(O)C2O)COP(=O)(O)O)C(O)C" T6A SMILES_CANONICAL CACTVS 3.341 "C[C@@H](O)[C@H](NC(=O)Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O)C(O)=O" T6A SMILES CACTVS 3.341 "C[CH](O)[CH](NC(=O)Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O)C(O)=O" T6A SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C[C@H]([C@@H](C(=O)O)NC(=O)Nc1c2c(ncn1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)O" T6A SMILES "OpenEye OEToolkits" 1.5.0 "CC(C(C(=O)O)NC(=O)Nc1c2c(ncn1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)O)O" T6A InChI InChI 1.03 "InChI=1S/C15H21N6O11P/c1-5(22)7(14(25)26)19-15(27)20-11-8-12(17-3-16-11)21(4-18-8)13-10(24)9(23)6(32-13)2-31-33(28,29)30/h3-7,9-10,13,22-24H,2H2,1H3,(H,25,26)(H2,28,29,30)(H2,16,17,19,20,27)/t5-,6-,7+,9-,10-,13-/m1/s1" T6A InChIKey InChI 1.03 BHFCEFYJTLMMEQ-DWVDDHQFSA-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 T6A "SYSTEMATIC NAME" ACDLabs 10.04 "(2S,3R)-2-{[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)carbamoyl]amino}-3-hydroxybutanoic acid (non-preferred name)" T6A "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S,3R)-2-[[9-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]carbamoylamino]-3-hydroxy-butanoic 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 T6A "Create component" 1999-07-08 RCSB T6A "Modify descriptor" 2011-06-04 RCSB T6A "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id T6A _pdbx_chem_comp_synonyms.name "N-(NEBULARIN-6-YLCARBAMOYL)-L-THREONINE-5'-MONOPHOSPHATE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##