data_2B8 # _chem_comp.id 2B8 _chem_comp.name "(5R)-5-(3-aminopropyl)-1-propyl-4,5,6,7-tetrahydro-1H-benzimidazole-5-carboxylic acid" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C14 H23 N3 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2014-03-19 _chem_comp.pdbx_modified_date 2014-09-05 _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 265.351 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 2B8 _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 4P10 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 2B8 C1 C1 C 0 1 N N N 21.188 -3.226 16.442 5.230 1.078 -1.666 C1 2B8 1 2B8 C2 C2 C 0 1 N N N 20.760 -2.284 17.567 3.947 1.041 -0.833 C2 2B8 2 2B8 C3 C3 C 0 1 N N N 21.968 -1.902 18.369 3.843 -0.308 -0.117 C3 2B8 3 2B8 N6 N1 N 0 1 Y N N 20.642 -0.168 21.249 1.250 -0.189 2.352 N6 2B8 4 2B8 C7 C4 C 0 1 Y N N 21.950 -0.122 21.530 0.535 -0.582 1.294 C7 2B8 5 2B8 C8 C5 C 0 1 N N N 22.505 0.481 22.753 -0.943 -0.873 1.227 C8 2B8 6 2B8 C9 C6 C 0 1 N N R 24.024 0.632 22.529 -1.371 -0.877 -0.245 C9 2B8 7 2B8 C10 C7 C 0 1 N N N 24.717 0.891 23.910 -1.314 0.550 -0.796 C10 2B8 8 2B8 C11 C8 C 0 1 N N N 26.140 1.415 23.814 -2.260 1.445 0.007 C11 2B8 9 2B8 C12 C9 C 0 1 N N N 26.850 1.499 25.218 -2.203 2.871 -0.544 C12 2B8 10 2B8 C14 C10 C 0 1 N N N 24.710 -0.586 21.827 -0.425 -1.773 -1.050 C14 2B8 11 2B8 C15 C11 C 0 1 N N N 24.087 -0.927 20.446 0.953 -1.106 -1.145 C15 2B8 12 2B8 C16 C12 C 0 1 Y N N 22.648 -0.751 20.534 1.373 -0.685 0.240 C16 2B8 13 2B8 N4 N2 N 0 1 Y N N 21.699 -1.178 19.623 2.615 -0.343 0.680 N4 2B8 14 2B8 C5 C13 C 0 1 Y N N 20.465 -0.821 20.105 2.499 -0.043 1.995 C5 2B8 15 2B8 N13 N3 N 0 1 N N N 26.152 2.558 26.077 -3.111 3.730 0.227 N13 2B8 16 2B8 C17 C14 C 0 1 N N N 24.178 1.914 21.706 -2.778 -1.403 -0.359 C17 2B8 17 2B8 O18 O1 O 0 1 N N N 24.847 2.088 20.703 -3.003 -2.392 -1.014 O18 2B8 18 2B8 O19 O2 O 0 1 N N N 23.471 2.963 22.168 -3.783 -0.772 0.269 O19 2B8 19 2B8 H1 H1 H 0 1 N N N 20.308 -3.512 15.848 6.092 0.946 -1.012 H1 2B8 20 2B8 H2 H2 H 0 1 N N N 21.917 -2.717 15.795 5.208 0.275 -2.404 H2 2B8 21 2B8 H3 H3 H 0 1 N N N 21.647 -4.127 16.874 5.305 2.038 -2.176 H3 2B8 22 2B8 H4 H4 H 0 1 N N N 20.302 -1.381 17.138 3.970 1.843 -0.096 H4 2B8 23 2B8 H5 H5 H 0 1 N N N 20.032 -2.792 18.216 3.086 1.172 -1.487 H5 2B8 24 2B8 H6 H6 H 0 1 N N N 22.512 -2.824 18.621 3.821 -1.110 -0.855 H6 2B8 25 2B8 H7 H7 H 0 1 N N N 22.604 -1.262 17.739 4.705 -0.439 0.537 H7 2B8 26 2B8 H8 H8 H 0 1 N N N 22.049 1.466 22.929 -1.146 -1.848 1.671 H8 2B8 27 2B8 H9 H9 H 0 1 N N N 22.313 -0.172 23.617 -1.494 -0.102 1.768 H9 2B8 28 2B8 H10 H10 H 0 1 N N N 24.116 1.628 24.463 -0.296 0.930 -0.714 H10 2B8 29 2B8 H11 H11 H 0 1 N N N 24.737 -0.057 24.467 -1.617 0.547 -1.843 H11 2B8 30 2B8 H12 H12 H 0 1 N N N 26.720 0.742 23.165 -3.277 1.064 -0.075 H12 2B8 31 2B8 H13 H13 H 0 1 N N N 26.116 2.421 23.371 -1.956 1.447 1.054 H13 2B8 32 2B8 H14 H14 H 0 1 N N N 26.790 0.522 25.719 -1.185 3.252 -0.462 H14 2B8 33 2B8 H15 H15 H 0 1 N N N 27.906 1.776 25.080 -2.506 2.869 -1.591 H15 2B8 34 2B8 H16 H16 H 0 1 N N N 24.614 -1.466 22.481 -0.329 -2.738 -0.554 H16 2B8 35 2B8 H17 H17 H 0 1 N N N 25.775 -0.351 21.682 -0.828 -1.918 -2.053 H17 2B8 36 2B8 H18 H18 H 0 1 N N N 24.318 -1.970 20.182 1.677 -1.814 -1.548 H18 2B8 37 2B8 H19 H19 H 0 1 N N N 24.497 -0.255 19.678 0.895 -0.231 -1.792 H19 2B8 38 2B8 H20 H20 H 0 1 N N N 19.515 -1.034 19.636 3.306 0.268 2.642 H20 2B8 39 2B8 H21 H21 H 0 1 N N N 26.601 2.613 26.969 -2.890 3.699 1.211 H21 2B8 40 2B8 H22 H22 H 0 1 N N N 26.207 3.446 25.621 -3.091 4.679 -0.117 H22 2B8 41 2B8 H24 H24 H 0 1 N N N 23.615 3.715 21.606 -4.669 -1.146 0.167 H24 2B8 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 2B8 C1 C2 SING N N 1 2B8 C2 C3 SING N N 2 2B8 C3 N4 SING N N 3 2B8 N4 C5 SING Y N 4 2B8 N4 C16 SING Y N 5 2B8 C5 N6 DOUB Y N 6 2B8 C15 C16 SING N N 7 2B8 C15 C14 SING N N 8 2B8 C16 C7 DOUB Y N 9 2B8 O18 C17 DOUB N N 10 2B8 N6 C7 SING Y N 11 2B8 C7 C8 SING N N 12 2B8 C17 O19 SING N N 13 2B8 C17 C9 SING N N 14 2B8 C14 C9 SING N N 15 2B8 C9 C8 SING N N 16 2B8 C9 C10 SING N N 17 2B8 C11 C10 SING N N 18 2B8 C11 C12 SING N N 19 2B8 C12 N13 SING N N 20 2B8 C1 H1 SING N N 21 2B8 C1 H2 SING N N 22 2B8 C1 H3 SING N N 23 2B8 C2 H4 SING N N 24 2B8 C2 H5 SING N N 25 2B8 C3 H6 SING N N 26 2B8 C3 H7 SING N N 27 2B8 C8 H8 SING N N 28 2B8 C8 H9 SING N N 29 2B8 C10 H10 SING N N 30 2B8 C10 H11 SING N N 31 2B8 C11 H12 SING N N 32 2B8 C11 H13 SING N N 33 2B8 C12 H14 SING N N 34 2B8 C12 H15 SING N N 35 2B8 C14 H16 SING N N 36 2B8 C14 H17 SING N N 37 2B8 C15 H18 SING N N 38 2B8 C15 H19 SING N N 39 2B8 C5 H20 SING N N 40 2B8 N13 H21 SING N N 41 2B8 N13 H22 SING N N 42 2B8 O19 H24 SING N N 43 # 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 2B8 SMILES ACDLabs 12.01 "O=C(O)C2(CCc1c(ncn1CCC)C2)CCCN" 2B8 InChI InChI 1.03 "InChI=1S/C14H23N3O2/c1-2-8-17-10-16-11-9-14(13(18)19,5-3-7-15)6-4-12(11)17/h10H,2-9,15H2,1H3,(H,18,19)/t14-/m1/s1" 2B8 InChIKey InChI 1.03 DPDWQELEXVLQSO-CQSZACIVSA-N 2B8 SMILES_CANONICAL CACTVS 3.385 "CCCn1cnc2C[C@@](CCCN)(CCc12)C(O)=O" 2B8 SMILES CACTVS 3.385 "CCCn1cnc2C[C](CCCN)(CCc12)C(O)=O" 2B8 SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "CCCn1cnc2c1CC[C@@](C2)(CCCN)C(=O)O" 2B8 SMILES "OpenEye OEToolkits" 1.9.2 "CCCn1cnc2c1CCC(C2)(CCCN)C(=O)O" # 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 2B8 "SYSTEMATIC NAME" ACDLabs 12.01 "(5R)-5-(3-aminopropyl)-1-propyl-4,5,6,7-tetrahydro-1H-benzimidazole-5-carboxylic acid" 2B8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(5R)-5-(3-azanylpropyl)-1-propyl-6,7-dihydro-4H-benzimidazole-5-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 2B8 "Create component" 2014-03-19 EBI 2B8 "Initial release" 2014-08-13 RCSB 2B8 "Modify descriptor" 2014-09-05 RCSB #