data_5R4 # _chem_comp.id 5R4 _chem_comp.name "3-[3-(acetyl{[(1R,2R,3S,4R)-4-(4-chloro-7H-pyrrolo[2,3-d]pyrimidin-7-yl)-2,3-dihydroxycyclopentyl]methyl}amino)prop-1-yn-1-yl]benzamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H24 Cl N5 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-07-23 _chem_comp.pdbx_modified_date 2022-07-15 _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 481.931 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 5R4 _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 7RKK _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 5R4 N15 N1 N 0 1 N N N 20.408 3.365 5.524 -1.568 -1.494 0.187 N15 5R4 1 5R4 C23 C1 C 0 1 Y N N 17.689 8.364 6.290 -5.991 0.986 1.618 C23 5R4 2 5R4 C24 C2 C 0 1 Y N N 16.597 9.194 6.461 -7.129 1.648 2.035 C24 5R4 3 5R4 C30 C3 C 0 1 Y N N 16.457 6.963 4.855 -6.950 0.709 -0.579 C30 5R4 4 5R4 C31 C4 C 0 1 N N R 21.822 0.955 3.685 1.315 -2.189 -0.072 C31 5R4 5 5R4 C33 C5 C 0 1 N N S 21.839 -0.269 2.687 2.779 -1.848 0.278 C33 5R4 6 5R4 C27 C6 C 0 1 N N N 14.027 7.514 4.327 -9.225 1.582 -1.086 C27 5R4 7 5R4 C26 C7 C 0 1 Y N N 15.332 7.790 5.014 -8.099 1.369 -0.150 C26 5R4 8 5R4 C25 C8 C 0 1 Y N N 15.387 8.937 5.831 -8.181 1.842 1.162 C25 5R4 9 5R4 C14 C9 C 0 1 N N N 19.709 2.447 4.551 -0.503 -0.496 0.312 C14 5R4 10 5R4 C17 C10 C 0 1 N N N 20.211 1.635 7.491 -2.821 -3.457 1.021 C17 5R4 11 5R4 C22 C11 C 0 1 Y N N 17.669 7.206 5.473 -5.895 0.512 0.309 C22 5R4 12 5R4 C21 C12 C 0 1 N N N 18.853 6.393 5.344 -4.709 -0.165 -0.124 C21 5R4 13 5R4 C19 C13 C 0 1 N N N 20.860 4.697 5.070 -2.519 -1.416 -0.924 C19 5R4 14 5R4 C12 C14 C 0 1 N N N 19.508 0.202 3.301 1.766 0.197 -0.529 C12 5R4 15 5R4 C02 C15 C 0 1 Y N N 18.880 -4.983 0.701 7.407 1.658 -0.108 C02 5R4 16 5R4 C04 C16 C 0 1 Y N N 19.357 -5.250 2.938 7.078 0.628 -2.142 C04 5R4 17 5R4 C06 C17 C 0 1 Y N N 19.671 -3.164 2.025 5.369 0.469 -0.616 C06 5R4 18 5R4 C07 C18 C 0 1 Y N N 19.241 -3.638 0.755 6.141 1.226 0.289 C07 5R4 19 5R4 C08 C19 C 0 1 Y N N 19.308 -2.525 -0.138 5.331 1.361 1.500 C08 5R4 20 5R4 C09 C20 C 0 1 Y N N 19.759 -1.416 0.541 4.178 0.713 1.270 C09 5R4 21 5R4 C11 C21 C 0 1 N N R 20.473 -0.942 2.979 3.094 -0.599 -0.582 C11 5R4 22 5R4 C13 C22 C 0 1 N N R 20.369 1.065 4.254 0.672 -0.889 -0.586 C13 5R4 23 5R4 C16 C23 C 0 1 N N N 20.647 2.969 6.928 -1.669 -2.488 1.092 C16 5R4 24 5R4 C20 C24 C 0 1 N N N 19.790 5.674 5.211 -3.738 -0.720 -0.479 C20 5R4 25 5R4 N03 N2 N 0 1 Y N N 18.922 -5.811 1.742 7.830 1.339 -1.321 N03 5R4 26 5R4 N05 N3 N 0 1 Y N N 19.733 -3.978 3.137 5.879 0.198 -1.813 N05 5R4 27 5R4 N10 N4 N 0 1 Y N N 19.983 -1.818 1.893 4.188 0.176 0.009 N10 5R4 28 5R4 N28 N5 N 0 1 N N N 13.420 8.495 3.626 -10.336 2.220 -0.669 N28 5R4 29 5R4 O18 O1 O 0 1 N N N 21.205 3.717 7.691 -0.834 -2.602 1.964 O18 5R4 30 5R4 O29 O2 O 0 1 N N N 13.514 6.373 4.405 -9.147 1.181 -2.230 O29 5R4 31 5R4 O32 O3 O 0 1 N N N 22.718 0.658 4.710 1.277 -3.190 -1.091 O32 5R4 32 5R4 O34 O4 O 0 1 N N N 22.886 -1.098 3.101 3.643 -2.930 -0.074 O34 5R4 33 5R4 CL1 CL1 CL 0 0 N N N 18.320 -5.716 -0.815 8.400 2.599 0.961 CL1 5R4 34 5R4 H1 H1 H 0 1 N N N 18.605 8.611 6.806 -5.172 0.838 2.307 H1 5R4 35 5R4 H2 H2 H 0 1 N N N 16.687 10.061 7.098 -7.197 2.016 3.048 H2 5R4 36 5R4 H3 H3 H 0 1 N N N 16.370 6.095 4.219 -6.882 0.341 -1.592 H3 5R4 37 5R4 H4 H4 H 0 1 N N N 22.086 1.878 3.147 0.790 -2.540 0.816 H4 5R4 38 5R4 H5 H5 H 0 1 N N N 21.914 0.067 1.642 2.872 -1.614 1.339 H5 5R4 39 5R4 H6 H6 H 0 1 N N N 14.531 9.583 5.960 -9.068 2.361 1.493 H6 5R4 40 5R4 H7 H7 H 0 1 N N N 19.627 2.984 3.594 -0.882 0.480 0.008 H7 5R4 41 5R4 H8 H8 H 0 1 N N N 18.703 2.251 4.949 -0.169 -0.449 1.348 H8 5R4 42 5R4 H9 H9 H 0 1 N N N 20.493 1.575 8.553 -3.453 -3.209 0.168 H9 5R4 43 5R4 H10 H10 H 0 1 N N N 19.120 1.536 7.395 -2.437 -4.470 0.906 H10 5R4 44 5R4 H11 H11 H 0 1 N N N 20.703 0.824 6.935 -3.407 -3.393 1.938 H11 5R4 45 5R4 H12 H12 H 0 1 N N N 21.158 4.637 4.013 -2.068 -0.866 -1.750 H12 5R4 46 5R4 H13 H13 H 0 1 N N N 21.721 5.013 5.677 -2.776 -2.422 -1.254 H13 5R4 47 5R4 H14 H14 H 0 1 N N N 19.228 0.760 2.395 1.696 0.761 0.401 H14 5R4 48 5R4 H15 H15 H 0 1 N N N 18.600 -0.166 3.801 1.686 0.865 -1.386 H15 5R4 49 5R4 H16 H16 H 0 1 N N N 19.396 -5.906 3.795 7.463 0.391 -3.123 H16 5R4 50 5R4 H17 H17 H 0 1 N N N 19.045 -2.550 -1.185 5.608 1.881 2.405 H17 5R4 51 5R4 H18 H18 H 0 1 N N N 19.914 -0.429 0.130 3.364 0.627 1.974 H18 5R4 52 5R4 H19 H19 H 0 1 N N N 20.590 -1.549 3.889 3.332 -0.886 -1.606 H19 5R4 53 5R4 H20 H20 H 0 1 N N N 20.384 0.529 5.214 0.330 -1.022 -1.612 H20 5R4 54 5R4 H21 H21 H 0 1 N N N 12.552 8.315 3.162 -11.074 2.360 -1.282 H21 5R4 55 5R4 H22 H22 H 0 1 N N N 13.838 9.402 3.570 -10.398 2.540 0.245 H22 5R4 56 5R4 H23 H23 H 0 1 N N N 22.736 1.375 5.333 1.668 -4.034 -0.828 H23 5R4 57 5R4 H24 H24 H 0 1 N N N 23.717 -0.675 2.917 3.489 -3.738 0.434 H24 5R4 58 # 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 5R4 CL1 C02 SING N N 1 5R4 C08 C09 DOUB Y N 2 5R4 C08 C07 SING Y N 3 5R4 C09 N10 SING Y N 4 5R4 C02 C07 DOUB Y N 5 5R4 C02 N03 SING Y N 6 5R4 C07 C06 SING Y N 7 5R4 N03 C04 DOUB Y N 8 5R4 N10 C06 SING Y N 9 5R4 N10 C11 SING N N 10 5R4 C06 N05 DOUB Y N 11 5R4 C33 C11 SING N N 12 5R4 C33 O34 SING N N 13 5R4 C33 C31 SING N N 14 5R4 C04 N05 SING Y N 15 5R4 C11 C12 SING N N 16 5R4 C12 C13 SING N N 17 5R4 N28 C27 SING N N 18 5R4 C31 C13 SING N N 19 5R4 C31 O32 SING N N 20 5R4 C13 C14 SING N N 21 5R4 C27 O29 DOUB N N 22 5R4 C27 C26 SING N N 23 5R4 C14 N15 SING N N 24 5R4 C30 C26 DOUB Y N 25 5R4 C30 C22 SING Y N 26 5R4 C26 C25 SING Y N 27 5R4 C19 C20 SING N N 28 5R4 C19 N15 SING N N 29 5R4 C20 C21 TRIP N N 30 5R4 C21 C22 SING N N 31 5R4 C22 C23 DOUB Y N 32 5R4 N15 C16 SING N N 33 5R4 C25 C24 DOUB Y N 34 5R4 C23 C24 SING Y N 35 5R4 C16 C17 SING N N 36 5R4 C16 O18 DOUB N N 37 5R4 C23 H1 SING N N 38 5R4 C24 H2 SING N N 39 5R4 C30 H3 SING N N 40 5R4 C31 H4 SING N N 41 5R4 C33 H5 SING N N 42 5R4 C25 H6 SING N N 43 5R4 C14 H7 SING N N 44 5R4 C14 H8 SING N N 45 5R4 C17 H9 SING N N 46 5R4 C17 H10 SING N N 47 5R4 C17 H11 SING N N 48 5R4 C19 H12 SING N N 49 5R4 C19 H13 SING N N 50 5R4 C12 H14 SING N N 51 5R4 C12 H15 SING N N 52 5R4 C04 H16 SING N N 53 5R4 C08 H17 SING N N 54 5R4 C09 H18 SING N N 55 5R4 C11 H19 SING N N 56 5R4 C13 H20 SING N N 57 5R4 N28 H21 SING N N 58 5R4 N28 H22 SING N N 59 5R4 O32 H23 SING N N 60 5R4 O34 H24 SING N N 61 # 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 5R4 SMILES ACDLabs 12.01 "NC(=O)c1cccc(c1)C#CCN(CC1CC(C(O)C1O)n1ccc2c1ncnc2Cl)C(C)=O" 5R4 InChI InChI 1.03 "InChI=1S/C24H24ClN5O4/c1-14(31)29(8-3-5-15-4-2-6-16(10-15)23(26)34)12-17-11-19(21(33)20(17)32)30-9-7-18-22(25)27-13-28-24(18)30/h2,4,6-7,9-10,13,17,19-21,32-33H,8,11-12H2,1H3,(H2,26,34)/t17-,19-,20-,21+/m1/s1" 5R4 InChIKey InChI 1.03 AHVJTPYPUIHNLS-WLRLJWMZSA-N 5R4 SMILES_CANONICAL CACTVS 3.385 "CC(=O)N(CC#Cc1cccc(c1)C(N)=O)C[C@H]2C[C@H]([C@H](O)[C@@H]2O)n3ccc4c(Cl)ncnc34" 5R4 SMILES CACTVS 3.385 "CC(=O)N(CC#Cc1cccc(c1)C(N)=O)C[CH]2C[CH]([CH](O)[CH]2O)n3ccc4c(Cl)ncnc34" 5R4 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N(CC#Cc1cccc(c1)C(=O)N)C[C@H]2C[C@H]([C@@H]([C@@H]2O)O)n3ccc4c3ncnc4Cl" 5R4 SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)N(CC#Cc1cccc(c1)C(=O)N)CC2CC(C(C2O)O)n3ccc4c3ncnc4Cl" # 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 5R4 "SYSTEMATIC NAME" ACDLabs 12.01 "3-[3-(acetyl{[(1R,2R,3S,4R)-4-(4-chloro-7H-pyrrolo[2,3-d]pyrimidin-7-yl)-2,3-dihydroxycyclopentyl]methyl}amino)prop-1-yn-1-yl]benzamide" 5R4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "3-[3-[[(1~{R},2~{R},3~{S},4~{R})-4-(4-chloranylpyrrolo[2,3-d]pyrimidin-7-yl)-2,3-bis(oxidanyl)cyclopentyl]methyl-ethanoyl-amino]prop-1-ynyl]benzamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 5R4 "Create component" 2021-07-23 RCSB 5R4 "Initial release" 2022-07-20 RCSB #