data_PB5 # _chem_comp.id PB5 _chem_comp.name "N,N'-BIS(PYRIDIN-3-YLMETHYL)PYRIMIDINE-4,6-DICARBOXAMIDE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H16 N6 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "PYRIMIDINE-4,6-DICARBOXYLIC ACID BIS-[(PYRIDIN-3-YLMETHYL)-AMIDE]" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2004-10-28 _chem_comp.pdbx_modified_date 2021-03-13 _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 348.359 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PB5 _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 1XUR _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 PB5 C1 C1 C 0 1 Y N N -11.839 27.362 44.995 -1.198 -0.425 -0.001 C1 PB5 1 PB5 C2 C2 C 0 1 Y N N -11.264 27.944 46.105 0.000 -1.143 0.001 C2 PB5 2 PB5 C3 C3 C 0 1 Y N N -9.891 28.002 46.183 1.198 -0.425 0.009 C3 PB5 3 PB5 N6 N6 N 0 1 Y N N -11.040 26.845 43.976 -1.152 0.903 0.004 N6 PB5 4 PB5 C9 C9 C 0 1 N N N -9.268 28.598 47.359 2.502 -1.135 0.013 C9 PB5 5 PB5 C11 C11 C 0 1 N N N -7.204 28.814 48.693 4.939 -1.131 0.012 C11 PB5 6 PB5 C12 C12 C 0 1 Y N N -7.371 28.013 49.966 6.059 -0.123 0.015 C12 PB5 7 PB5 C15 C15 C 0 1 N N N -13.298 27.278 44.904 -2.502 -1.135 -0.010 C15 PB5 8 PB5 C21 C21 C 0 1 Y N N -16.566 23.948 44.013 -6.588 0.336 1.169 C21 PB5 9 PB5 C24 C24 C 0 1 Y N N -15.967 23.648 46.781 -7.605 1.278 -1.171 C24 PB5 10 PB5 C30 C30 C 0 1 Y N N -8.199 26.856 49.999 6.581 0.342 1.212 C30 PB5 11 PB5 C31 C31 C 0 1 Y N N -8.373 26.102 51.173 7.611 1.269 1.167 C31 PB5 12 PB5 C32 C32 C 0 1 Y N N -7.709 26.502 52.340 8.080 1.696 -0.062 C32 PB5 13 PB5 C34 C34 C 0 1 Y N N -6.709 28.405 51.140 6.582 0.345 -1.175 C34 PB5 14 PB5 N4 N4 N 0 1 Y N N -9.091 27.484 45.163 1.152 0.903 0.019 N4 PB5 15 PB5 C5 C5 C 0 1 Y N N -9.663 26.901 44.046 0.000 1.541 0.011 C5 PB5 16 PB5 N10 N10 N 0 1 N N N -7.945 28.292 47.522 3.652 -0.431 0.015 N10 PB5 17 PB5 N16 N16 N 0 1 N N N -13.802 26.321 44.037 -3.652 -0.431 -0.012 N16 PB5 18 PB5 C17 C17 C 0 1 N N N -15.252 26.109 43.864 -4.939 -1.131 -0.021 C17 PB5 19 PB5 C18 C18 C 0 1 Y N N -15.777 24.915 44.653 -6.059 -0.123 -0.022 C18 PB5 20 PB5 N22 N22 N 0 1 Y N N -17.047 22.844 44.757 -7.565 1.222 1.176 N22 PB5 21 PB5 C23 C23 C 0 1 Y N N -16.756 22.686 46.131 -8.080 1.695 0.058 C23 PB5 22 PB5 C25 C25 C 0 1 Y N N -15.486 24.751 46.039 -6.575 0.352 -1.218 C25 PB5 23 PB5 N33 N33 N 0 1 Y N N -6.886 27.644 52.310 7.559 1.231 -1.180 N33 PB5 24 PB5 O41 O41 O 0 1 N N N -14.112 27.957 45.540 -2.533 -2.349 -0.015 O41 PB5 25 PB5 O42 O42 O 0 1 N N N -9.800 29.303 48.214 2.533 -2.349 0.009 O42 PB5 26 PB5 H2 H2 H 0 1 N N N -11.890 28.355 46.915 0.000 -2.223 -0.003 H2 PB5 27 PB5 H111 1H11 H 0 0 N N N -6.122 28.923 48.446 5.013 -1.759 0.900 H111 PB5 28 PB5 H112 2H11 H 0 0 N N N -7.471 29.882 48.873 5.012 -1.753 -0.880 H112 PB5 29 PB5 H21 H21 H 0 1 N N N -16.804 24.054 42.941 -6.192 -0.029 2.105 H21 PB5 30 PB5 H24 H24 H 0 1 N N N -15.730 23.539 47.853 -8.031 1.670 -2.083 H24 PB5 31 PB5 H30 H30 H 0 1 N N N -8.723 26.533 49.084 6.195 -0.008 2.158 H30 PB5 32 PB5 H31 H31 H 0 1 N N N -9.021 25.210 51.178 8.041 1.654 2.080 H31 PB5 33 PB5 H32 H32 H 0 1 N N N -7.833 25.925 53.272 8.881 2.418 -0.106 H32 PB5 34 PB5 H34 H34 H 0 1 N N N -6.060 29.297 51.143 6.181 -0.013 -2.112 H34 PB5 35 PB5 H5 H5 H 0 1 N N N -9.039 26.492 43.234 0.000 2.621 0.015 H5 PB5 36 PB5 H10 H10 H 0 1 N N N -7.529 27.701 46.802 3.627 0.538 0.018 H10 PB5 37 PB5 H16 H16 H 0 1 N N N -13.108 25.774 43.528 -3.627 0.538 -0.008 H16 PB5 38 PB5 H171 1H17 H 0 0 N N N -15.515 26.020 42.784 -5.008 -1.753 -0.914 H171 PB5 39 PB5 H172 2H17 H 0 0 N N N -15.822 27.034 44.115 -5.016 -1.760 0.866 H172 PB5 40 PB5 H23 H23 H 0 1 N N N -17.142 21.818 46.692 -8.882 2.417 0.104 H23 PB5 41 PB5 H25 H25 H 0 1 N N N -14.867 25.504 46.555 -6.184 0.008 -2.165 H25 PB5 42 # # 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 PB5 C1 C2 DOUB Y N 1 PB5 C1 N6 SING Y N 2 PB5 C1 C15 SING N N 3 PB5 C2 C3 SING Y N 4 PB5 C2 H2 SING N N 5 PB5 C3 C9 SING N N 6 PB5 C3 N4 DOUB Y N 7 PB5 N6 C5 DOUB Y N 8 PB5 C9 N10 SING N N 9 PB5 C9 O42 DOUB N N 10 PB5 C11 C12 SING N N 11 PB5 C11 N10 SING N N 12 PB5 C11 H111 SING N N 13 PB5 C11 H112 SING N N 14 PB5 C12 C30 SING Y N 15 PB5 C12 C34 DOUB Y N 16 PB5 C15 N16 SING N N 17 PB5 C15 O41 DOUB N N 18 PB5 C21 C18 SING Y N 19 PB5 C21 N22 DOUB Y N 20 PB5 C21 H21 SING N N 21 PB5 C24 C23 DOUB Y N 22 PB5 C24 C25 SING Y N 23 PB5 C24 H24 SING N N 24 PB5 C30 C31 DOUB Y N 25 PB5 C30 H30 SING N N 26 PB5 C31 C32 SING Y N 27 PB5 C31 H31 SING N N 28 PB5 C32 N33 DOUB Y N 29 PB5 C32 H32 SING N N 30 PB5 C34 N33 SING Y N 31 PB5 C34 H34 SING N N 32 PB5 N4 C5 SING Y N 33 PB5 C5 H5 SING N N 34 PB5 N10 H10 SING N N 35 PB5 N16 C17 SING N N 36 PB5 N16 H16 SING N N 37 PB5 C17 C18 SING N N 38 PB5 C17 H171 SING N N 39 PB5 C17 H172 SING N N 40 PB5 C18 C25 DOUB Y N 41 PB5 N22 C23 SING Y N 42 PB5 C23 H23 SING N N 43 PB5 C25 H25 SING N N 44 # # 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 PB5 SMILES ACDLabs 10.04 "O=C(c2ncnc(C(=O)NCc1cccnc1)c2)NCc3cccnc3" PB5 SMILES_CANONICAL CACTVS 3.341 "O=C(NCc1cccnc1)c2cc(ncn2)C(=O)NCc3cccnc3" PB5 SMILES CACTVS 3.341 "O=C(NCc1cccnc1)c2cc(ncn2)C(=O)NCc3cccnc3" PB5 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(cnc1)CNC(=O)c2cc(ncn2)C(=O)NCc3cccnc3" PB5 SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(cnc1)CNC(=O)c2cc(ncn2)C(=O)NCc3cccnc3" PB5 InChI InChI 1.03 "InChI=1S/C18H16N6O2/c25-17(21-10-13-3-1-5-19-8-13)15-7-16(24-12-23-15)18(26)22-11-14-4-2-6-20-9-14/h1-9,12H,10-11H2,(H,21,25)(H,22,26)" PB5 InChIKey InChI 1.03 NHPBWKYFMTXWAA-UHFFFAOYSA-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 PB5 "SYSTEMATIC NAME" ACDLabs 10.04 "N,N'-bis(pyridin-3-ylmethyl)pyrimidine-4,6-dicarboxamide" PB5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "N,N'-bis(pyridin-3-ylmethyl)pyrimidine-4,6-dicarboxamide" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PB5 "Create component" 2004-10-28 RCSB PB5 "Modify descriptor" 2011-06-04 RCSB PB5 "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id PB5 _pdbx_chem_comp_synonyms.name "PYRIMIDINE-4,6-DICARBOXYLIC ACID BIS-[(PYRIDIN-3-YLMETHYL)-AMIDE]" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##