data_B39 # _chem_comp.id B39 _chem_comp.name "[(1S,2S,4R)-4-{4-[(1S)-2,3-dihydro-1H-inden-1-ylamino]-7H-pyrrolo[2,3-d]pyrimidin-7-yl}-2-hydroxycyclopentyl]methyl sulfamate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H25 N5 O4 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-04-17 _chem_comp.pdbx_modified_date 2024-09-27 _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 443.519 _chem_comp.one_letter_code ? _chem_comp.three_letter_code B39 _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 3GZN _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 B39 C4 C4 C 0 1 N N R N N N 8.687 89.106 41.149 -1.628 0.227 -0.254 C4 B39 1 B39 C5 C5 C 0 1 N N N N N N 10.203 89.450 41.232 -2.619 -0.934 -0.032 C5 B39 2 B39 C6 C6 C 0 1 N N S N N N 10.284 90.933 41.640 -3.901 -0.571 -0.801 C6 B39 3 B39 C8 C8 C 0 1 N N N N N N 11.463 91.620 40.938 -5.082 -0.474 0.166 C8 B39 4 B39 C10 C10 C 0 1 Y N N N N N 8.033 87.114 44.063 1.459 -1.421 -1.217 C10 B39 5 B39 C13 C13 C 0 1 Y N N N N N 7.429 87.092 41.970 0.785 0.040 0.420 C13 B39 6 B39 C15 C15 C 0 1 Y N N N N N 5.996 85.529 40.996 2.091 0.942 2.086 C15 B39 7 B39 C17 C17 C 0 1 Y N N N N N 6.466 85.304 43.259 3.134 -0.499 0.616 C17 B39 8 B39 C20 C20 C 0 1 N N N N N N 5.757 85.937 46.442 6.450 -2.208 0.688 C20 B39 9 B39 C21 C21 C 0 1 Y N N N N N 6.714 83.765 46.683 6.303 0.188 0.324 C21 B39 10 B39 C22 C22 C 0 1 Y N N N N N 6.367 84.215 47.969 7.309 -0.275 -0.503 C22 B39 11 B39 C24 C24 C 0 1 Y N N N N N 6.574 81.966 48.802 7.973 1.984 -0.959 C24 B39 12 B39 C26 C26 C 0 1 Y N N N N N 6.992 82.416 46.463 6.133 1.550 0.508 C26 B39 13 B39 C19 C19 C 0 1 N N N N N N 6.118 85.726 47.909 7.287 -1.788 -0.538 C19 B39 14 B39 C23 C23 C 0 1 Y N N N N N 6.296 83.314 49.028 8.143 0.626 -1.144 C23 B39 15 B39 C25 C25 C 0 1 Y N N N N N 6.920 81.517 47.525 6.965 2.447 -0.133 C25 B39 16 B39 C1 C1 C 0 1 N N S N N N 6.720 84.976 45.742 5.536 -0.983 0.901 C1 B39 17 B39 N18 N18 N 0 1 N N N N N N 6.255 84.597 44.386 4.269 -1.162 0.187 N18 B39 18 B39 N16 N16 N 0 1 Y N N N N N 5.845 84.881 42.141 3.173 0.306 1.674 N16 B39 19 B39 N14 N14 N 0 1 Y N N N N N 6.770 86.614 40.900 0.925 0.823 1.488 N14 B39 20 B39 C12 C12 C 0 1 Y N N N N N 7.287 86.443 43.187 1.912 -0.658 -0.055 C12 B39 21 B39 C11 C11 C 0 1 Y N N N N N 8.626 88.137 43.451 0.152 -1.156 -1.370 C11 B39 22 B39 N7 N7 N 0 1 Y N N N N N 8.258 88.116 42.173 -0.263 -0.283 -0.397 N7 B39 23 B39 C3 C3 C 0 1 N N N N N N 7.931 90.425 41.393 -2.103 0.885 -1.573 C3 B39 24 B39 C2 C2 C 0 1 N N S N N N 8.957 91.534 41.172 -3.645 0.799 -1.462 C2 B39 25 B39 O9 O9 O 0 1 N N N N N N 9.022 91.821 39.778 -4.148 1.853 -0.639 O9 B39 26 B39 O27 O27 O 0 1 N N N N N N 12.329 92.252 41.872 -6.286 -0.251 -0.572 O27 B39 27 B39 S28 S28 S 0 1 N N N N N N 12.832 93.578 41.718 -7.531 -0.137 0.295 S28 B39 28 B39 O29 O29 O 0 1 N N N N N N 13.300 93.830 40.324 -8.639 -0.122 -0.594 O29 B39 29 B39 O30 O30 O 0 1 N N N N N N 11.758 94.566 42.017 -7.384 -1.092 1.337 O30 B39 30 B39 N31 N31 N 0 1 N N N N N N 14.062 93.804 42.767 -7.492 1.352 1.018 N31 B39 31 B39 H4 H4 H 0 1 N N N N N N 8.475 88.657 40.168 -1.684 0.938 0.571 H4 B39 32 B39 H5 H5 H 0 1 N N N N N N 10.703 88.815 41.978 -2.200 -1.862 -0.423 H5 B39 33 B39 H5A H5A H 0 1 N N N N N N 10.707 89.272 40.271 -2.838 -1.041 1.030 H5A B39 34 B39 H6 H6 H 0 1 N N N N N N 10.443 91.062 42.721 -4.105 -1.322 -1.564 H6 B39 35 B39 H8 H8 H 0 1 N N N N N N 12.034 90.863 40.381 -5.168 -1.403 0.730 H8 B39 36 B39 H8A H8A H 0 1 N N N N N N 11.063 92.389 40.262 -4.920 0.355 0.855 H8A B39 37 B39 H10 H10 H 0 1 N N N N N N 8.140 86.866 45.109 2.062 -2.070 -1.835 H10 B39 38 B39 H15 H15 H 0 1 N N N N N N 5.480 85.171 40.117 2.167 1.586 2.949 H15 B39 39 B39 H20 H20 H 0 1 N N N N N N 4.705 85.693 46.235 5.859 -3.098 0.467 H20 B39 40 B39 H20A H20A H 0 0 N N N N N N 5.853 86.981 46.108 7.088 -2.372 1.556 H20A B39 41 B39 H24 H24 H 0 1 N N N N N N 6.521 81.264 49.621 8.625 2.684 -1.460 H24 B39 42 B39 H26 H26 H 0 1 N N N N N N 7.261 82.071 45.476 5.347 1.912 1.154 H26 B39 43 B39 H19 H19 H 0 1 N N N N N N 7.009 86.301 48.200 8.300 -2.182 -0.458 H19 B39 44 B39 H19A H19A H 0 0 N N N N N N 5.339 86.069 48.606 6.816 -2.138 -1.457 H19A B39 45 B39 H23 H23 H 0 1 N N N N N N 6.028 83.656 50.017 8.929 0.266 -1.790 H23 B39 46 B39 H25 H25 H 0 1 N N N N N N 7.132 80.471 47.361 6.831 3.509 0.013 H25 B39 47 B39 H1 H1 H 0 1 N N N N N N 7.715 85.414 45.577 5.353 -0.828 1.964 H1 B39 48 B39 HN18 HN18 H 0 0 N N N N N N 5.259 84.551 44.468 4.227 -1.747 -0.586 HN18 B39 49 B39 H11 H11 H 0 1 N N N N N N 9.288 88.856 43.911 -0.479 -1.568 -2.144 H11 B39 50 B39 H3 H3 H 0 1 N N N N N N 7.089 90.527 40.693 -1.777 1.924 -1.626 H3 B39 51 B39 H3A H3A H 0 1 N N N N N N 7.503 90.465 42.405 -1.745 0.323 -2.435 H3A B39 52 B39 H2 H2 H 0 1 N N N N N N 8.713 92.464 41.707 -4.101 0.836 -2.452 H2 B39 53 B39 HO9 HO9 H 0 1 N N N N N N 9.036 92.762 39.648 -4.013 2.738 -1.007 HO9 B39 54 B39 HN31 HN31 H 0 0 N N N N N N 14.925 93.850 42.264 -6.754 1.957 0.842 HN31 B39 55 B39 HN3A HN3A H 0 0 N N N N N N 13.921 94.659 43.266 -8.206 1.620 1.617 HN3A B39 56 # 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 B39 C4 C5 SING N N 1 B39 C4 N7 SING N N 2 B39 C4 C3 SING N N 3 B39 C5 C6 SING N N 4 B39 C6 C8 SING N N 5 B39 C6 C2 SING N N 6 B39 C8 O27 SING N N 7 B39 C10 C12 SING Y N 8 B39 C10 C11 DOUB Y N 9 B39 C13 N14 DOUB Y N 10 B39 C13 C12 SING Y N 11 B39 C13 N7 SING Y N 12 B39 C15 N16 DOUB Y N 13 B39 C15 N14 SING Y N 14 B39 C17 N18 SING N N 15 B39 C17 N16 SING Y N 16 B39 C17 C12 DOUB Y N 17 B39 C20 C19 SING N N 18 B39 C20 C1 SING N N 19 B39 C21 C22 DOUB Y N 20 B39 C21 C26 SING Y N 21 B39 C21 C1 SING N N 22 B39 C22 C19 SING N N 23 B39 C22 C23 SING Y N 24 B39 C24 C23 DOUB Y N 25 B39 C24 C25 SING Y N 26 B39 C26 C25 DOUB Y N 27 B39 C1 N18 SING N N 28 B39 C11 N7 SING Y N 29 B39 C3 C2 SING N N 30 B39 C2 O9 SING N N 31 B39 O27 S28 SING N N 32 B39 S28 O29 DOUB N N 33 B39 S28 O30 DOUB N N 34 B39 S28 N31 SING N N 35 B39 C4 H4 SING N N 36 B39 C5 H5 SING N N 37 B39 C5 H5A SING N N 38 B39 C6 H6 SING N N 39 B39 C8 H8 SING N N 40 B39 C8 H8A SING N N 41 B39 C10 H10 SING N N 42 B39 C15 H15 SING N N 43 B39 C20 H20 SING N N 44 B39 C20 H20A SING N N 45 B39 C24 H24 SING N N 46 B39 C26 H26 SING N N 47 B39 C19 H19 SING N N 48 B39 C19 H19A SING N N 49 B39 C23 H23 SING N N 50 B39 C25 H25 SING N N 51 B39 C1 H1 SING N N 52 B39 N18 HN18 SING N N 53 B39 C11 H11 SING N N 54 B39 C3 H3 SING N N 55 B39 C3 H3A SING N N 56 B39 C2 H2 SING N N 57 B39 O9 HO9 SING N N 58 B39 N31 HN31 SING N N 59 B39 N31 HN3A SING N N 60 # 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 B39 SMILES ACDLabs 10.04 "O=S(=O)(OCC5CC(n2c1ncnc(c1cc2)NC4c3ccccc3CC4)CC5O)N" B39 SMILES_CANONICAL CACTVS 3.341 "N[S](=O)(=O)OC[C@@H]1C[C@H](C[C@@H]1O)n2ccc3c(N[C@H]4CCc5ccccc45)ncnc23" B39 SMILES CACTVS 3.341 "N[S](=O)(=O)OC[CH]1C[CH](C[CH]1O)n2ccc3c(N[CH]4CCc5ccccc45)ncnc23" B39 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1ccc2c(c1)CC[C@@H]2Nc3c4ccn(c4ncn3)[C@@H]5C[C@H]([C@H](C5)O)COS(=O)(=O)N" B39 SMILES "OpenEye OEToolkits" 1.5.0 "c1ccc2c(c1)CCC2Nc3c4ccn(c4ncn3)C5CC(C(C5)O)COS(=O)(=O)N" B39 InChI InChI 1.03 "InChI=1S/C21H25N5O4S/c22-31(28,29)30-11-14-9-15(10-19(14)27)26-8-7-17-20(23-12-24-21(17)26)25-18-6-5-13-3-1-2-4-16(13)18/h1-4,7-8,12,14-15,18-19,27H,5-6,9-11H2,(H2,22,28,29)(H,23,24,25)/t14-,15+,18-,19-/m0/s1" B39 InChIKey InChI 1.03 MPUQHZXIXSTTDU-QXGSTGNESA-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 B39 "SYSTEMATIC NAME" ACDLabs 10.04 "[(1S,2S,4R)-4-{4-[(1S)-2,3-dihydro-1H-inden-1-ylamino]-7H-pyrrolo[2,3-d]pyrimidin-7-yl}-2-hydroxycyclopentyl]methyl sulfamate" B39 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(1S,2S,4R)-4-[4-[[(1S)-2,3-dihydro-1H-inden-1-yl]amino]pyrrolo[2,3-d]pyrimidin-7-yl]-2-hydroxy-cyclopentyl]methyl sulfamate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site B39 "Create component" 2009-04-17 RCSB B39 "Modify aromatic_flag" 2011-06-04 RCSB B39 "Modify descriptor" 2011-06-04 RCSB B39 "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id B39 _pdbx_chem_comp_pcm.modified_residue_id GLY _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid backbone" _pdbx_chem_comp_pcm.polypeptide_position C-terminal _pdbx_chem_comp_pcm.comp_id_linking_atom N31 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom C _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #