data_PMJ # _chem_comp.id PMJ _chem_comp.name "N~2~-(benzylsulfonyl)-D-arginyl-N-(4-carbamimidoylbenzyl)glycinamide" _chem_comp.type PEPTIDE-LIKE _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H32 N8 O4 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-11-22 _chem_comp.pdbx_modified_date 2011-11-18 _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 516.616 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PMJ _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 3PMJ _chem_comp.pdbx_subcomponent_list "PMS DAR GLY 00S" _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 PMJ C7 C7 C 0 1 N N N 16.883 20.076 36.292 4.688 1.314 0.352 C PMS 1 PMJ S8 S8 S 0 1 N N N 17.470 21.060 37.736 3.704 1.665 -1.132 S PMS 2 PMJ C4 C4 C 0 1 Y N N 17.784 18.846 36.064 5.540 2.512 0.684 C1 PMS 3 PMJ C5 C5 C 0 1 Y N N 19.036 18.999 35.458 6.810 2.627 0.151 C2 PMS 4 PMJ C6 C6 C 0 1 Y N N 19.861 17.887 35.273 7.589 3.728 0.452 C3 PMS 5 PMJ C1 C1 C 0 1 Y N N 19.439 16.617 35.708 7.103 4.709 1.296 C4 PMS 6 PMJ C2 C2 C 0 1 Y N N 18.186 16.472 36.323 5.833 4.595 1.829 C5 PMS 7 PMJ C3 C3 C 0 1 Y N N 17.367 17.589 36.494 5.051 3.496 1.523 C6 PMS 8 PMJ O10 O10 O 0 1 N N N 18.772 21.696 37.347 4.551 1.873 -2.254 O2S PMS 9 PMJ O9 O9 O 0 1 N N N 17.583 20.185 38.928 2.653 2.572 -0.829 O1S PMS 10 PMJ N11 N11 N 0 1 N N N 16.396 22.173 38.221 2.931 0.239 -1.461 N DAR 11 PMJ C12 C12 C 0 1 N N R 16.171 23.322 37.339 1.968 -0.311 -0.503 CA DAR 12 PMJ C30 C30 C 0 1 N N N 15.409 24.324 38.234 2.070 -1.837 -0.497 CB DAR 13 PMJ C31 C31 C 0 1 N N N 14.983 25.564 37.450 3.441 -2.254 0.037 CG DAR 14 PMJ C32 C32 C 0 1 N N N 14.195 26.544 38.341 3.586 -3.774 -0.060 CD DAR 15 PMJ N33 N33 N 0 1 N N N 15.147 26.979 39.391 4.900 -4.174 0.451 NE DAR 16 PMJ C34 C34 C 0 1 N N N 14.893 27.819 40.397 5.258 -5.501 0.464 CZ DAR 17 PMJ N35 N35 N 0 1 N N N 15.893 28.106 41.276 4.383 -6.454 -0.004 NH1 DAR 18 PMJ N37 N37 N 0 1 N N N 13.663 28.329 40.547 6.426 -5.857 0.919 NH2 DAR 19 PMJ C13 C13 C 0 1 N N N 15.342 22.914 36.098 0.573 0.098 -0.903 C DAR 20 PMJ O14 O14 O 0 1 N N N 14.440 22.071 36.173 0.401 0.781 -1.890 O DAR 21 PMJ N15 N15 N 0 1 N N N 15.740 23.498 34.969 -0.482 -0.296 -0.163 N GLY 22 PMJ C16 C16 C 0 1 N N N 15.143 23.337 33.625 -1.838 0.101 -0.551 CA GLY 23 PMJ C17 C17 C 0 1 N N N 15.256 21.851 33.226 -2.828 -0.464 0.435 C GLY 24 PMJ O18 O18 O 0 1 N N N 16.320 21.247 33.402 -2.440 -1.133 1.369 O GLY 25 PMJ N19 N19 N 0 1 N N N 14.151 21.276 32.756 -4.146 -0.226 0.277 N23 00S 26 PMJ C20 C20 C 0 1 N N N 14.175 19.828 32.343 -5.108 -0.776 1.235 C16 00S 27 PMJ C21 C21 C 0 1 Y N N 13.490 18.943 33.390 -6.503 -0.367 0.836 C17 00S 28 PMJ C26 C26 C 0 1 Y N N 13.927 18.925 34.723 -7.240 -1.172 -0.015 C22 00S 29 PMJ C25 C25 C 0 1 Y N N 13.295 18.123 35.688 -8.519 -0.806 -0.379 C21 00S 30 PMJ C24 C24 C 0 1 Y N N 12.222 17.303 35.297 -9.065 0.383 0.103 C24 00S 31 PMJ C27 C27 C 0 1 N N N 11.548 16.484 36.223 -10.436 0.784 -0.289 C27 00S 32 PMJ N28 N28 N 0 1 N N N 10.244 16.257 36.108 -10.943 1.895 0.163 N35 00S 33 PMJ N29 N29 N 0 1 N N N 12.159 15.995 37.292 -11.174 -0.018 -1.132 N34 00S 34 PMJ C23 C23 C 0 1 Y N N 11.800 17.317 33.962 -8.316 1.193 0.956 C19 00S 35 PMJ C22 C22 C 0 1 Y N N 12.430 18.125 33.012 -7.039 0.813 1.317 C18 00S 36 PMJ H7 H7 H 0 1 N N N 16.907 20.709 35.393 5.330 0.452 0.166 H2A PMS 37 PMJ H7A H7A H 0 1 N N N 15.855 19.736 36.484 4.022 1.099 1.187 H1 PMS 38 PMJ H5 H5 H 0 1 N N N 19.364 19.976 35.134 7.192 1.858 -0.504 H2 PMS 39 PMJ H6 H6 H 0 1 N N N 20.823 18.002 34.796 8.582 3.818 0.036 H3 PMS 40 PMJ H1 H1 H 0 1 N N N 20.077 15.757 35.569 7.714 5.567 1.535 H4 PMS 41 PMJ H2 H2 H 0 1 N N N 17.857 15.501 36.662 5.451 5.363 2.485 H5 PMS 42 PMJ H3 H3 H 0 1 N N N 16.401 17.477 36.964 4.059 3.406 1.940 H6 PMS 43 PMJ HN11 HN11 H 0 0 N N N 15.517 21.706 38.320 3.115 -0.233 -2.289 H DAR 44 PMJ H12 H12 H 0 1 N N N 17.102 23.746 36.936 2.188 0.072 0.493 HA DAR 45 PMJ H30 H30 H 0 1 N N N 14.510 23.831 38.633 1.290 -2.251 0.143 HB2 DAR 46 PMJ H30A H30A H 0 0 N N N 16.068 24.635 39.058 1.945 -2.214 -1.512 HB3 DAR 47 PMJ H31 H31 H 0 1 N N N 15.882 26.072 37.071 4.222 -1.776 -0.554 HG2 DAR 48 PMJ H31A H31A H 0 0 N N N 14.343 25.253 36.611 3.535 -1.947 1.079 HG3 DAR 49 PMJ H32 H32 H 0 1 N N N 13.839 27.405 37.756 2.805 -4.252 0.531 HD2 DAR 50 PMJ H32A H32A H 0 0 N N N 13.320 26.049 38.788 3.493 -4.082 -1.102 HD3 DAR 51 PMJ HN33 HN33 H 0 0 N N N 16.073 26.605 39.341 5.516 -3.502 0.781 HE DAR 52 PMJ HN35 HN35 H 0 0 N N N 15.717 28.709 42.054 3.514 -6.189 -0.342 HH11 DAR 53 PMJ HN3A HN3A H 0 0 N N N 16.803 27.714 41.143 4.636 -7.390 0.005 HH12 DAR 54 PMJ HN37 HN37 H 0 0 N N N 13.597 28.916 41.354 6.679 -6.793 0.927 HH21 DAR 55 PMJ HN15 HN15 H 0 0 N N N 16.527 24.111 35.037 -0.344 -0.842 0.627 H GLY 56 PMJ H16 H16 H 0 1 N N N 14.086 23.641 33.645 -1.911 1.189 -0.555 HA2 GLY 57 PMJ H16A H16A H 0 0 N N N 15.681 23.963 32.898 -2.057 -0.282 -1.547 HA3 GLY 58 PMJ HN19 HN19 H 0 0 N N N 13.306 21.805 32.677 -4.456 0.308 -0.470 HN23 00S 59 PMJ H20 H20 H 0 1 N N N 13.645 19.722 31.385 -5.036 -1.863 1.240 H16 00S 60 PMJ H20A H20A H 0 0 N N N 15.221 19.506 32.233 -4.889 -0.393 2.232 H16A 00S 61 PMJ H26 H26 H 0 1 N N N 14.766 19.540 35.013 -6.814 -2.090 -0.391 H22 00S 62 PMJ H25 H25 H 0 1 N N N 13.629 18.136 36.715 -9.095 -1.437 -1.040 H21 00S 63 PMJ HN28 HN28 H 0 0 N N N 9.887 15.726 36.876 -11.841 2.158 -0.094 HN35 00S 64 PMJ HN29 HN29 H 0 0 N N N 11.639 15.479 37.972 -10.796 -0.845 -1.469 HN34 00S 65 PMJ HN2A HN2A H 0 0 N N N 13.140 16.142 37.418 -12.072 0.245 -1.389 HN3A 00S 66 PMJ H23 H23 H 0 1 N N N 10.972 16.692 33.661 -8.733 2.115 1.332 H19 00S 67 PMJ H22 H22 H 0 1 N N N 12.095 18.115 31.985 -6.458 1.439 1.978 H18 00S 68 # 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 PMJ C6 C1 DOUB Y N 1 PMJ C1 C2 SING Y N 2 PMJ C1 H1 SING N N 3 PMJ C2 C3 DOUB Y N 4 PMJ C2 H2 SING N N 5 PMJ C4 C3 SING Y N 6 PMJ C3 H3 SING N N 7 PMJ C5 C4 DOUB Y N 8 PMJ C4 C7 SING N N 9 PMJ C6 C5 SING Y N 10 PMJ C5 H5 SING N N 11 PMJ C6 H6 SING N N 12 PMJ C7 S8 SING N N 13 PMJ C7 H7 SING N N 14 PMJ C7 H7A SING N N 15 PMJ O10 S8 DOUB N N 16 PMJ S8 N11 SING N N 17 PMJ S8 O9 DOUB N N 18 PMJ C12 N11 SING N N 19 PMJ N11 HN11 SING N N 20 PMJ C13 C12 SING N N 21 PMJ C12 C30 SING N N 22 PMJ C12 H12 SING N N 23 PMJ N15 C13 SING N N 24 PMJ C13 O14 DOUB N N 25 PMJ C16 N15 SING N N 26 PMJ N15 HN15 SING N N 27 PMJ C17 C16 SING N N 28 PMJ C16 H16 SING N N 29 PMJ C16 H16A SING N N 30 PMJ N19 C17 SING N N 31 PMJ C17 O18 DOUB N N 32 PMJ C20 N19 SING N N 33 PMJ N19 HN19 SING N N 34 PMJ C20 C21 SING N N 35 PMJ C20 H20 SING N N 36 PMJ C20 H20A SING N N 37 PMJ C22 C21 DOUB Y N 38 PMJ C21 C26 SING Y N 39 PMJ C22 C23 SING Y N 40 PMJ C22 H22 SING N N 41 PMJ C23 C24 DOUB Y N 42 PMJ C23 H23 SING N N 43 PMJ C24 C25 SING Y N 44 PMJ C24 C27 SING N N 45 PMJ C26 C25 DOUB Y N 46 PMJ C25 H25 SING N N 47 PMJ C26 H26 SING N N 48 PMJ N28 C27 DOUB N N 49 PMJ C27 N29 SING N N 50 PMJ N28 HN28 SING N N 51 PMJ N29 HN29 SING N N 52 PMJ N29 HN2A SING N N 53 PMJ C31 C30 SING N N 54 PMJ C30 H30 SING N N 55 PMJ C30 H30A SING N N 56 PMJ C31 C32 SING N N 57 PMJ C31 H31 SING N N 58 PMJ C31 H31A SING N N 59 PMJ C32 N33 SING N N 60 PMJ C32 H32 SING N N 61 PMJ C32 H32A SING N N 62 PMJ N33 C34 SING N N 63 PMJ N33 HN33 SING N N 64 PMJ C34 N37 DOUB N N 65 PMJ C34 N35 SING N N 66 PMJ N35 HN35 SING N N 67 PMJ N35 HN3A SING N N 68 PMJ N37 HN37 SING N N 69 # 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 PMJ SMILES ACDLabs 12.01 "O=S(=O)(NC(C(=O)NCC(=O)NCc1ccc(C(=[N@H])N)cc1)CCCNC(=[N@H])N)Cc2ccccc2" PMJ SMILES_CANONICAL CACTVS 3.370 "NC(=N)NCCC[C@@H](N[S](=O)(=O)Cc1ccccc1)C(=O)NCC(=O)NCc2ccc(cc2)C(N)=N" PMJ SMILES CACTVS 3.370 "NC(=N)NCCC[CH](N[S](=O)(=O)Cc1ccccc1)C(=O)NCC(=O)NCc2ccc(cc2)C(N)=N" PMJ SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "[H]/N=C(/c1ccc(cc1)CNC(=O)CNC(=O)[C@@H](CCCN/C(=N/[H])/N)NS(=O)(=O)Cc2ccccc2)\\N" PMJ SMILES "OpenEye OEToolkits" 1.7.0 "c1ccc(cc1)CS(=O)(=O)NC(CCCNC(=N)N)C(=O)NCC(=O)NCc2ccc(cc2)C(=N)N" PMJ InChI InChI 1.03 "InChI=1S/C23H32N8O4S/c24-21(25)18-10-8-16(9-11-18)13-29-20(32)14-30-22(33)19(7-4-12-28-23(26)27)31-36(34,35)15-17-5-2-1-3-6-17/h1-3,5-6,8-11,19,31H,4,7,12-15H2,(H3,24,25)(H,29,32)(H,30,33)(H4,26,27,28)/t19-/m1/s1" PMJ InChIKey InChI 1.03 MVMUALCRWZYTQR-LJQANCHMSA-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 PMJ "SYSTEMATIC NAME" ACDLabs 12.01 "N~2~-(benzylsulfonyl)-D-arginyl-N-(4-carbamimidoylbenzyl)glycinamide" PMJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "(2R)-5-carbamimidamido-N-[2-[(4-carbamimidoylphenyl)methylamino]-2-oxo-ethyl]-2-(phenylmethylsulfonylamino)pentanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PMJ "Create component" 2010-11-22 RCSB PMJ "Modify aromatic_flag" 2011-06-04 RCSB PMJ "Modify descriptor" 2011-06-04 RCSB PMJ "Modify subcomponent list" 2011-09-12 RCSB #