data_A1EMP # _chem_comp.id A1EMP _chem_comp.name "(2~{S})-2-azanyl-6-[(1~{S})-7-[6-(3,5-dimethyl-1,2-oxazol-4-yl)-1-[(1~{S})-1-pyridin-2-ylethyl]pyrrolo[3,2-b]pyridin-3-yl]-3-methylidene-1-oxidanyl-1~{H}-isoindol-2-yl]hexanoic acid" _chem_comp.type "L-peptide linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C34 H36 N6 O4" _chem_comp.mon_nstd_parent_comp_id LYS _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-03-05 _chem_comp.pdbx_modified_date 2025-11-28 _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 592.687 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1EMP _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 9KT2 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC _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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1EMP N N1 N 0 1 N N N Y Y N 1.539 -6.063 25.942 -8.747 0.539 -1.137 N A1EMP 1 A1EMP CA C1 C 0 1 N N S N Y N 0.343 -5.314 26.306 -7.861 -0.623 -0.989 CA A1EMP 2 A1EMP C C2 C 0 1 N N N N Y Y -0.869 -6.237 26.517 -8.588 -1.718 -0.252 C A1EMP 3 A1EMP O O1 O 0 1 N N N N Y Y -1.635 -6.073 27.471 -9.557 -1.454 0.420 O A1EMP 4 A1EMP CB C3 C 0 1 N N N N N N 0.037 -4.297 25.204 -6.615 -0.217 -0.200 CB A1EMP 5 A1EMP CG C4 C 0 1 N N N N N N -1.148 -3.395 25.481 -5.811 0.804 -1.006 CG A1EMP 6 A1EMP CD C5 C 0 1 N N N N N N -1.511 -2.644 24.222 -4.565 1.210 -0.217 CD A1EMP 7 A1EMP CE C6 C 0 1 N N N N N N -2.761 -1.810 24.409 -3.760 2.232 -1.023 CE A1EMP 8 A1EMP NZ N2 N 0 1 N N N N N N -3.548 -1.775 23.152 -2.567 2.620 -0.267 NZ A1EMP 9 A1EMP CAX C7 C 0 1 Y N N N N N -10.235 -8.169 21.693 5.961 2.129 -1.355 CAX A1EMP 10 A1EMP CAW C8 C 0 1 Y N N N N N -11.424 -8.351 21.020 7.094 2.712 -0.807 CAW A1EMP 11 A1EMP CAV C9 C 0 1 Y N N N N N -11.887 -7.401 20.147 7.933 1.924 -0.033 CAV A1EMP 12 A1EMP CAU C10 C 0 1 Y N N N N N -11.146 -6.235 19.944 7.614 0.595 0.166 CAU A1EMP 13 A1EMP NAT N3 N 0 1 Y N N N N N -9.953 -6.056 20.611 6.527 0.074 -0.370 NAT A1EMP 14 A1EMP CAS C11 C 0 1 Y N N N N N -9.490 -7.009 21.484 5.704 0.794 -1.108 CAS A1EMP 15 A1EMP CAR C12 C 0 1 N N S N N N -8.181 -6.820 22.237 4.476 0.150 -1.698 CAR A1EMP 16 A1EMP CAY C13 C 0 1 N N N N N N -8.432 -6.162 23.577 4.191 0.760 -3.072 CAY A1EMP 17 A1EMP NAD N4 N 0 1 Y N N N N N -7.279 -6.024 21.455 3.331 0.381 -0.813 NAD A1EMP 18 A1EMP CAC C14 C 0 1 Y N N N N N -6.985 -4.701 21.571 2.847 1.608 -0.465 CAC A1EMP 19 A1EMP CAE C15 C 0 1 Y N N N N N -6.505 -6.641 20.350 2.582 -0.609 -0.217 CAE A1EMP 20 A1EMP CAG C16 C 0 1 Y N N N N N -6.431 -7.882 19.837 2.644 -1.998 -0.238 CAG A1EMP 21 A1EMP CAH C17 C 0 1 Y N N N N N -5.551 -8.080 18.762 1.702 -2.711 0.501 CAH A1EMP 22 A1EMP CAK C18 C 0 1 Y N N N N N -5.446 -9.446 18.164 1.725 -4.195 0.512 CAK A1EMP 23 A1EMP CAO C19 C 0 1 Y N N N N N -5.301 -9.754 16.704 1.511 -5.050 -0.531 CAO A1EMP 24 A1EMP CAQ C20 C 0 1 N N N N N N -5.635 -8.796 15.576 1.196 -4.677 -1.957 CAQ A1EMP 25 A1EMP OAN O2 O 0 1 Y N N N N N -5.332 -11.297 16.540 1.637 -6.288 -0.034 OAN A1EMP 26 A1EMP NAM N5 N 0 1 Y N N N N N -5.299 -11.910 17.964 1.894 -6.274 1.147 NAM A1EMP 27 A1EMP CAL C21 C 0 1 Y N N N N N -5.511 -10.797 18.970 1.983 -5.063 1.611 CAL A1EMP 28 A1EMP CAP C22 C 0 1 N N N N N N -5.022 -10.923 20.416 2.294 -4.658 3.029 CAP A1EMP 29 A1EMP CAI C23 C 0 1 Y N N N N N -4.782 -6.964 18.236 0.735 -2.016 1.232 CAI A1EMP 30 A1EMP NAJ N6 N 0 1 Y N N N N N -4.911 -5.705 18.791 0.700 -0.703 1.234 NAJ A1EMP 31 A1EMP CAF C24 C 0 1 Y N N N N N -5.729 -5.531 19.817 1.578 0.018 0.544 CAF A1EMP 32 A1EMP CAB C25 C 0 1 Y N N N N N -6.116 -4.483 20.640 1.784 1.464 0.364 CAB A1EMP 33 A1EMP CAA C26 C 0 1 Y N N N N N -5.516 -3.068 20.389 0.981 2.553 0.970 CAA A1EMP 34 A1EMP CBD C27 C 0 1 Y N N N N N -5.929 -2.395 19.244 1.563 3.419 1.898 CBD A1EMP 35 A1EMP CBC C28 C 0 1 Y N N N N N -5.425 -1.130 18.986 0.814 4.433 2.461 CBC A1EMP 36 A1EMP CBB C29 C 0 1 Y N N N N N -4.518 -0.555 19.879 -0.511 4.599 2.112 CBB A1EMP 37 A1EMP CBA C30 C 0 1 Y N N N N N -4.115 -1.250 21.039 -1.106 3.740 1.186 CBA A1EMP 38 A1EMP CAZ C31 C 0 1 Y N N N N N -4.606 -2.491 21.304 -0.352 2.716 0.617 CAZ A1EMP 39 A1EMP CBE C32 C 0 1 N N S N N N -3.986 -2.987 22.606 -1.255 1.967 -0.331 CBE A1EMP 40 A1EMP OBI O3 O 0 1 N N N N N N -4.831 -3.726 23.378 -0.736 2.041 -1.661 OBI A1EMP 41 A1EMP CBG C33 C 0 1 N N N N N N -3.214 -0.892 22.113 -2.477 3.679 0.635 CBG A1EMP 42 A1EMP CBH C34 C 0 1 N N N N N N -1.906 -0.176 21.798 -3.473 4.507 0.953 CBH A1EMP 43 A1EMP H H1 H 0 1 N N N Y Y N 1.746 -6.730 26.658 -9.035 0.891 -0.237 H A1EMP 44 A1EMP H2 H2 H 0 1 N N N Y Y N 1.383 -6.540 25.077 -8.306 1.263 -1.684 H2 A1EMP 45 A1EMP HA H4 H 0 1 N N N N Y N 0.527 -4.766 27.242 -7.566 -0.983 -1.975 HA A1EMP 46 A1EMP OXT O4 O 0 1 N Y N N Y Y -1.045 -7.005 25.851 -8.159 -2.987 -0.342 OXT A1EMP 47 A1EMP HB2 H6 H 0 1 N N N N N N -0.164 -4.850 24.275 -6.915 0.225 0.751 HB2 A1EMP 48 A1EMP HB3 H7 H 0 1 N N N N N N 0.925 -3.663 25.068 -6.000 -1.098 -0.013 HB3 A1EMP 49 A1EMP HG2 H8 H 0 1 N N N N N N -0.887 -2.678 26.273 -5.511 0.362 -1.956 HG2 A1EMP 50 A1EMP HG3 H9 H 0 1 N N N N N N -2.005 -4.004 25.805 -6.425 1.685 -1.193 HG3 A1EMP 51 A1EMP HD2 H10 H 0 1 N N N N N N -1.683 -3.368 23.412 -4.864 1.652 0.734 HD2 A1EMP 52 A1EMP HD3 H11 H 0 1 N N N N N N -0.677 -1.980 23.950 -3.950 0.329 -0.030 HD3 A1EMP 53 A1EMP HE2 H12 H 0 1 N N N N N N -2.475 -0.785 24.687 -3.461 1.790 -1.973 HE2 A1EMP 54 A1EMP HE3 H13 H 0 1 N N N N N N -3.374 -2.250 25.209 -4.375 3.112 -1.210 HE3 A1EMP 55 A1EMP H15 H15 H 0 1 N N N N N N -9.881 -8.923 22.381 5.286 2.713 -1.962 H15 A1EMP 56 A1EMP H16 H16 H 0 1 N N N N N N -11.997 -9.252 21.182 7.319 3.754 -0.980 H16 A1EMP 57 A1EMP H17 H17 H 0 1 N N N N N N -12.818 -7.553 19.620 8.824 2.345 0.409 H17 A1EMP 58 A1EMP H18 H18 H 0 1 N N N N N N -11.507 -5.475 19.266 8.261 -0.026 0.768 H18 A1EMP 59 A1EMP H19 H19 H 0 1 N N N N N N -7.737 -7.811 22.414 4.643 -0.922 -1.804 H19 A1EMP 60 A1EMP H20 H20 H 0 1 N N N N N N -9.124 -6.781 24.166 4.024 1.832 -2.965 H20 A1EMP 61 A1EMP H21 H21 H 0 1 N N N N N N -7.480 -6.059 24.119 5.043 0.589 -3.729 H21 A1EMP 62 A1EMP H22 H22 H 0 1 N N N N N N -8.874 -5.167 23.420 3.302 0.295 -3.498 H22 A1EMP 63 A1EMP H23 H23 H 0 1 N N N N N N -7.387 -3.993 22.281 3.251 2.553 -0.799 H23 A1EMP 64 A1EMP H24 H24 H 0 1 N N N N N N -7.024 -8.692 20.236 3.402 -2.510 -0.812 H24 A1EMP 65 A1EMP H25 H25 H 0 1 N N N N N N -5.889 -9.368 14.671 2.124 -4.572 -2.519 H25 A1EMP 66 A1EMP H26 H26 H 0 1 N N N N N N -6.492 -8.171 15.867 0.583 -5.456 -2.410 H26 A1EMP 67 A1EMP H27 H27 H 0 1 N N N N N N -4.766 -8.153 15.371 0.653 -3.732 -1.973 H27 A1EMP 68 A1EMP H28 H28 H 0 1 N N N N N N -4.532 -11.898 20.554 1.366 -4.575 3.595 H28 A1EMP 69 A1EMP H29 H29 H 0 1 N N N N N N -4.304 -10.118 20.631 2.934 -5.410 3.489 H29 A1EMP 70 A1EMP H30 H30 H 0 1 N N N N N N -5.879 -10.843 21.101 2.806 -3.696 3.028 H30 A1EMP 71 A1EMP H31 H31 H 0 1 N N N N N N -4.107 -7.120 17.408 0.004 -2.568 1.805 H31 A1EMP 72 A1EMP H32 H32 H 0 1 N N N N N N -6.633 -2.852 18.565 2.600 3.296 2.175 H32 A1EMP 73 A1EMP H33 H33 H 0 1 N N N N N N -5.731 -0.593 18.101 1.268 5.100 3.179 H33 A1EMP 74 A1EMP H34 H34 H 0 1 N N N N N N -4.122 0.430 19.680 -1.090 5.394 2.558 H34 A1EMP 75 A1EMP H35 H35 H 0 1 N N N N N N -3.109 -3.595 22.339 -1.341 0.926 -0.021 H35 A1EMP 76 A1EMP H36 H36 H 0 1 N N N N N N -4.381 -4.000 24.168 0.110 1.588 -1.778 H36 A1EMP 77 A1EMP H38 H38 H 0 1 N N N N N N -1.045 -0.320 22.434 -3.309 5.299 1.668 H38 A1EMP 78 A1EMP H39 H39 H 0 1 N N N N N N -1.840 0.476 20.939 -4.444 4.384 0.496 H39 A1EMP 79 A1EMP HXT H3 H 0 1 N Y N N Y Y -1.824 -7.481 26.115 -8.658 -3.655 0.149 HXT A1EMP 80 # 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 A1EMP CAQ CAO SING N N 1 A1EMP OAN CAO SING Y N 2 A1EMP OAN NAM SING Y N 3 A1EMP CAO CAK DOUB Y N 4 A1EMP NAM CAL DOUB Y N 5 A1EMP CAK CAH SING N N 6 A1EMP CAK CAL SING Y N 7 A1EMP CAI CAH DOUB Y N 8 A1EMP CAI NAJ SING Y N 9 A1EMP CAH CAG SING Y N 10 A1EMP NAJ CAF DOUB Y N 11 A1EMP CAL CAP SING N N 12 A1EMP CBC CBD DOUB Y N 13 A1EMP CBC CBB SING Y N 14 A1EMP CBD CAA SING Y N 15 A1EMP CAF CAE SING Y N 16 A1EMP CAF CAB SING Y N 17 A1EMP CAG CAE DOUB Y N 18 A1EMP CBB CBA DOUB Y N 19 A1EMP CAU CAV DOUB Y N 20 A1EMP CAU NAT SING Y N 21 A1EMP CAV CAW SING Y N 22 A1EMP CAE NAD SING Y N 23 A1EMP CAA CAB SING N N 24 A1EMP CAA CAZ DOUB Y N 25 A1EMP NAT CAS DOUB Y N 26 A1EMP CAB CAC DOUB Y N 27 A1EMP CAW CAX DOUB Y N 28 A1EMP CBA CAZ SING Y N 29 A1EMP CBA CBG SING N N 30 A1EMP CAZ CBE SING N N 31 A1EMP NAD CAC SING Y N 32 A1EMP NAD CAR SING N N 33 A1EMP CAS CAX SING Y N 34 A1EMP CAS CAR SING N N 35 A1EMP CBH CBG DOUB N N 36 A1EMP CBG NZ SING N N 37 A1EMP CAR CAY SING N N 38 A1EMP CBE NZ SING N N 39 A1EMP CBE OBI SING N N 40 A1EMP NZ CE SING N N 41 A1EMP CD CE SING N N 42 A1EMP CD CG SING N N 43 A1EMP CB CG SING N N 44 A1EMP CB CA SING N N 45 A1EMP N CA SING N N 46 A1EMP CA C SING N N 47 A1EMP C O DOUB N N 48 A1EMP N H SING N N 49 A1EMP N H2 SING N N 50 A1EMP CA HA SING N N 51 A1EMP C OXT SING N N 52 A1EMP CB HB2 SING N N 53 A1EMP CB HB3 SING N N 54 A1EMP CG HG2 SING N N 55 A1EMP CG HG3 SING N N 56 A1EMP CD HD2 SING N N 57 A1EMP CD HD3 SING N N 58 A1EMP CE HE2 SING N N 59 A1EMP CE HE3 SING N N 60 A1EMP CAX H15 SING N N 61 A1EMP CAW H16 SING N N 62 A1EMP CAV H17 SING N N 63 A1EMP CAU H18 SING N N 64 A1EMP CAR H19 SING N N 65 A1EMP CAY H20 SING N N 66 A1EMP CAY H21 SING N N 67 A1EMP CAY H22 SING N N 68 A1EMP CAC H23 SING N N 69 A1EMP CAG H24 SING N N 70 A1EMP CAQ H25 SING N N 71 A1EMP CAQ H26 SING N N 72 A1EMP CAQ H27 SING N N 73 A1EMP CAP H28 SING N N 74 A1EMP CAP H29 SING N N 75 A1EMP CAP H30 SING N N 76 A1EMP CAI H31 SING N N 77 A1EMP CBD H32 SING N N 78 A1EMP CBC H33 SING N N 79 A1EMP CBB H34 SING N N 80 A1EMP CBE H35 SING N N 81 A1EMP OBI H36 SING N N 82 A1EMP CBH H38 SING N N 83 A1EMP CBH H39 SING N N 84 A1EMP OXT HXT SING N N 85 # 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 A1EMP InChI InChI 1.06 "InChI=1S/C34H36N6O4/c1-19-30(22(4)44-38-19)23-16-29-32(37-17-23)26(18-40(29)21(3)28-13-5-7-14-36-28)25-11-9-10-24-20(2)39(33(41)31(24)25)15-8-6-12-27(35)34(42)43/h5,7,9-11,13-14,16-18,21,27,33,41H,2,6,8,12,15,35H2,1,3-4H3,(H,42,43)/t21-,27-,33-/m0/s1" A1EMP InChIKey InChI 1.06 MJITZWMKYRGSCH-NNZMHCESSA-N A1EMP SMILES_CANONICAL CACTVS 3.385 "C[C@H](n1cc(c2cccc3C(=C)N(CCCC[C@H](N)C(O)=O)[C@@H](O)c23)c4ncc(cc14)c5c(C)onc5C)c6ccccn6" A1EMP SMILES CACTVS 3.385 "C[CH](n1cc(c2cccc3C(=C)N(CCCC[CH](N)C(O)=O)[CH](O)c23)c4ncc(cc14)c5c(C)onc5C)c6ccccn6" A1EMP SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(c(on1)C)c2cc3c(c(cn3[C@@H](C)c4ccccn4)c5cccc6c5[C@@H](N(C6=C)CCCC[C@@H](C(=O)O)N)O)nc2" A1EMP SMILES "OpenEye OEToolkits" 2.0.7 "Cc1c(c(on1)C)c2cc3c(c(cn3C(C)c4ccccn4)c5cccc6c5C(N(C6=C)CCCCC(C(=O)O)N)O)nc2" # _pdbx_chem_comp_identifier.comp_id A1EMP _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(2~{S})-2-azanyl-6-[(1~{S})-7-[6-(3,5-dimethyl-1,2-oxazol-4-yl)-1-[(1~{S})-1-pyridin-2-ylethyl]pyrrolo[3,2-b]pyridin-3-yl]-3-methylidene-1-oxidanyl-1~{H}-isoindol-2-yl]hexanoic 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 A1EMP "Create component" 2025-03-05 PDBC A1EMP "Initial release" 2025-12-03 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1EMP _pdbx_chem_comp_pcm.modified_residue_id LYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Non-standard residue" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom ? _pdbx_chem_comp_pcm.modified_residue_id_linking_atom ? _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #