data_JVL # _chem_comp.id JVL _chem_comp.name "1-[(8R,15S,18S)-15-(4-azanylbutyl)-18-(1H-indol-3-ylmethyl)-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C35 H48 N10 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-05-11 _chem_comp.pdbx_modified_date 2023-03-17 _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 688.820 _chem_comp.one_letter_code ? _chem_comp.three_letter_code JVL _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 7ZQ1 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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 JVL N1 N1 N 0 1 N N N 5.064 -10.745 2.518 7.902 4.364 -0.324 N1 JVL 1 JVL C7 C1 C 0 1 N N N -1.484 -14.574 3.561 -1.367 2.773 -1.087 C7 JVL 2 JVL C8 C2 C 0 1 N N S -2.291 -13.530 2.786 -2.632 2.010 -1.382 C8 JVL 3 JVL N2 N2 N 0 1 N N N 6.483 -10.395 4.481 6.691 2.661 -1.332 N2 JVL 4 JVL C9 C3 C 0 1 N N N -3.061 -14.168 1.620 -3.829 2.760 -0.794 C9 JVL 5 JVL O1 O1 O 0 1 N N N 5.769 -16.000 0.137 6.236 -1.599 -0.357 O1 JVL 6 JVL C1 C4 C 0 1 N N R 3.540 -12.631 4.040 4.508 3.178 0.336 C1 JVL 7 JVL C5 C5 C 0 1 N N N 0.724 -14.448 6.069 0.953 3.594 0.256 C5 JVL 8 JVL C6 C6 C 0 1 N N N -0.588 -15.176 5.766 -0.173 4.589 -0.032 C6 JVL 9 JVL N3 N3 N 0 1 N N N -1.442 -14.394 4.881 -1.428 3.843 -0.246 N3 JVL 10 JVL C4 C7 C 0 1 N N N 1.530 -14.037 4.836 2.284 4.164 -0.235 C4 JVL 11 JVL O4 O2 O 0 1 N N N -0.869 -15.476 2.970 -0.312 2.437 -1.584 O4 JVL 12 JVL C3 C8 C 0 1 N N N 2.771 -13.238 5.213 3.340 4.014 0.862 C3 JVL 13 JVL O3 O3 O 0 1 N N N -2.142 -10.846 3.601 -2.323 -0.192 -2.831 O3 JVL 14 JVL C2 C9 C 0 1 N N N 5.460 -10.964 3.853 6.800 3.672 -0.407 C2 JVL 15 JVL N4 N4 N 0 1 N N N -7.000 -11.003 1.122 -8.764 2.814 -0.453 N4 JVL 16 JVL N N5 N 0 1 N N N 4.678 -11.888 4.556 5.746 3.955 0.430 N JVL 17 JVL C C10 C 0 1 N N N 3.952 -13.753 3.080 4.639 1.922 1.161 C JVL 18 JVL O O4 O 0 1 N N N 3.205 -14.104 2.175 4.242 1.886 2.306 O JVL 19 JVL C10 C11 C 0 1 N N N -3.806 -13.132 0.778 -5.124 2.052 -1.199 C10 JVL 20 JVL C11 C12 C 0 1 N N N -5.034 -12.531 1.462 -6.321 2.802 -0.612 C11 JVL 21 JVL C12 C13 C 0 1 N N N -5.696 -11.482 0.588 -7.615 2.094 -1.017 C12 JVL 22 JVL C13 C14 C 0 1 N N N -1.347 -11.267 2.751 -2.404 -0.380 -1.635 C13 JVL 23 JVL C14 C15 C 0 1 N N S -0.234 -10.377 2.197 -2.349 -1.776 -1.071 C14 JVL 24 JVL C15 C16 C 0 1 N N N -0.627 -8.899 2.121 -1.860 -1.727 0.377 C15 JVL 25 JVL C16 C17 C 0 1 Y N N -1.354 -8.600 0.846 -2.833 -0.933 1.210 C16 JVL 26 JVL C17 C18 C 0 1 Y N N -2.695 -8.698 0.618 -2.551 0.144 1.959 C17 JVL 27 JVL C18 C19 C 0 1 Y N N -1.808 -8.046 -1.325 -4.757 -0.195 2.220 C18 JVL 28 JVL C19 C20 C 0 1 Y N N -0.763 -8.180 -0.389 -4.269 -1.187 1.350 C19 JVL 29 JVL C20 C21 C 0 1 Y N N 0.534 -7.855 -0.789 -5.141 -2.144 0.826 C20 JVL 30 JVL C21 C22 C 0 1 Y N N 0.760 -7.396 -2.081 -6.465 -2.111 1.162 C21 JVL 31 JVL C22 C23 C 0 1 Y N N -0.285 -7.280 -2.992 -6.951 -1.134 2.020 C22 JVL 32 JVL C23 C24 C 0 1 Y N N -1.583 -7.611 -2.627 -6.109 -0.181 2.548 C23 JVL 33 JVL C24 C25 C 0 1 N N N 1.564 -10.975 0.690 -0.774 -3.590 -1.224 C24 JVL 34 JVL C25 C26 C 0 1 N N N 1.960 -11.385 -0.716 0.199 -4.453 -1.989 C25 JVL 35 JVL C26 C27 C 0 1 Y N N 3.438 -11.275 -0.996 1.305 -4.885 -1.060 C26 JVL 36 JVL C27 C28 C 0 1 Y N N 4.296 -12.312 -0.644 2.495 -4.186 -1.025 C27 JVL 37 JVL C28 C29 C 0 1 Y N N 5.649 -12.277 -0.962 3.503 -4.578 -0.162 C28 JVL 38 JVL C29 C30 C 0 1 N N N 6.546 -13.429 -0.580 4.802 -3.816 -0.120 C29 JVL 39 JVL C30 C31 C 0 1 N N N 5.869 -15.140 1.017 5.443 -1.589 0.560 C30 JVL 40 JVL C31 C32 C 0 1 N N N 5.553 -15.460 2.468 5.317 -0.376 1.448 C31 JVL 41 JVL C32 C33 C 0 1 Y N N 6.143 -11.173 -1.640 3.319 -5.675 0.660 C32 JVL 42 JVL C33 C34 C 0 1 Y N N 5.305 -10.131 -1.993 2.131 -6.381 0.616 C33 JVL 43 JVL C34 C35 C 0 1 Y N N 3.962 -10.176 -1.663 1.123 -5.984 -0.243 C34 JVL 44 JVL N5 N6 N 0 1 N N N -1.358 -12.526 2.297 -2.545 0.668 -0.775 N5 JVL 45 JVL N6 N7 N 0 1 Y N N -2.979 -8.371 -0.680 -3.687 0.597 2.572 N6 JVL 46 JVL N7 N8 N 0 1 N N N 0.256 -10.868 0.913 -1.414 -2.582 -1.888 N7 JVL 47 JVL N8 N9 N 0 1 N N N 6.280 -13.899 0.774 4.655 -2.672 0.802 N8 JVL 48 JVL N9 N10 N 0 1 N N N 5.141 -14.326 3.279 5.216 0.824 0.585 N9 JVL 49 JVL O2 O5 O 0 1 N N N 2.397 -10.731 1.565 -0.983 -3.786 -0.045 O2 JVL 50 JVL H1 H1 H 0 1 N N N 4.267 -11.295 2.269 7.979 5.077 0.329 H1 JVL 51 JVL H2 H2 H 0 1 N N N -3.014 -13.063 3.471 -2.757 1.914 -2.460 H2 JVL 52 JVL H3 H3 H 0 1 N N N 6.679 -10.630 5.433 7.435 2.462 -1.922 H3 JVL 53 JVL H4 H4 H 0 1 N N N 7.057 -9.732 4.002 5.871 2.146 -1.394 H4 JVL 54 JVL H5 H5 H 0 1 N N N -3.791 -14.883 2.028 -3.749 2.776 0.293 H5 JVL 55 JVL H6 H6 H 0 1 N N N -2.347 -14.701 0.975 -3.840 3.782 -1.173 H6 JVL 56 JVL H7 H7 H 0 1 N N N 2.869 -11.945 3.503 4.324 2.911 -0.705 H7 JVL 57 JVL H8 H8 H 0 1 N N N 1.351 -15.113 6.681 1.010 3.412 1.329 H8 JVL 58 JVL H9 H9 H 0 1 N N N 0.487 -13.539 6.641 0.749 2.656 -0.261 H9 JVL 59 JVL H10 H10 H 0 1 N N N -1.122 -15.357 6.710 -0.289 5.264 0.816 H10 JVL 60 JVL H11 H11 H 0 1 N N N -0.360 -16.138 5.284 0.068 5.163 -0.927 H11 JVL 61 JVL H12 H12 H 0 1 N N N -2.025 -13.688 5.284 -2.255 4.101 0.190 H12 JVL 62 JVL H13 H13 H 0 1 N N N 0.894 -13.420 4.184 2.606 3.622 -1.125 H13 JVL 63 JVL H14 H14 H 0 1 N N N 1.840 -14.943 4.295 2.160 5.220 -0.478 H14 JVL 64 JVL H15 H15 H 0 1 N N N 3.454 -13.908 5.757 2.898 3.518 1.726 H15 JVL 65 JVL H16 H16 H 0 1 N N N 2.458 -12.417 5.875 3.702 5.000 1.155 H16 JVL 66 JVL H17 H17 H 0 1 N N N -7.382 -10.317 0.503 -8.760 3.782 -0.738 H17 JVL 67 JVL H18 H18 H 0 1 N N N -7.633 -11.774 1.197 -9.632 2.366 -0.707 H18 JVL 68 JVL H20 H20 H 0 1 N N N 4.928 -12.054 5.510 5.823 4.668 1.082 H20 JVL 69 JVL H21 H21 H 0 1 N N N -4.133 -13.616 -0.154 -5.203 2.035 -2.286 H21 JVL 70 JVL H22 H22 H 0 1 N N N -3.109 -12.315 0.541 -5.113 1.030 -0.820 H22 JVL 71 JVL H23 H23 H 0 1 N N N -4.724 -12.064 2.409 -6.241 2.819 0.475 H23 JVL 72 JVL H24 H24 H 0 1 N N N -5.757 -13.333 1.668 -6.331 3.824 -0.991 H24 JVL 73 JVL H25 H25 H 0 1 N N N -5.866 -11.915 -0.409 -7.605 1.072 -0.638 H25 JVL 74 JVL H26 H26 H 0 1 N N N -5.017 -10.621 0.502 -7.695 2.078 -2.104 H26 JVL 75 JVL H27 H27 H 0 1 N N N 0.600 -10.441 2.911 -3.343 -2.224 -1.106 H27 JVL 76 JVL H28 H28 H 0 1 N N N 0.283 -8.282 2.169 -1.786 -2.740 0.771 H28 JVL 77 JVL H29 H29 H 0 1 N N N -1.280 -8.656 2.972 -0.879 -1.251 0.413 H29 JVL 78 JVL H30 H30 H 0 1 N N N -3.427 -8.991 1.356 -1.571 0.587 2.064 H30 JVL 79 JVL H31 H31 H 0 1 N N N 1.358 -7.960 -0.098 -4.770 -2.907 0.157 H31 JVL 80 JVL H32 H32 H 0 1 N N N 1.761 -7.125 -2.382 -7.139 -2.852 0.756 H32 JVL 81 JVL H33 H33 H 0 1 N N N -0.084 -6.929 -3.993 -8.000 -1.121 2.275 H33 JVL 82 JVL H34 H34 H 0 1 N N N -2.395 -7.533 -3.334 -6.496 0.575 3.215 H34 JVL 83 JVL H35 H35 H 0 1 N N N 1.425 -10.740 -1.428 -0.319 -5.331 -2.375 H35 JVL 84 JVL H36 H36 H 0 1 N N N 1.656 -12.431 -0.869 0.618 -3.883 -2.818 H36 JVL 85 JVL H37 H37 H 0 1 N N N 3.902 -13.165 -0.111 2.640 -3.332 -1.671 H37 JVL 86 JVL H38 H38 H 0 1 N N N 6.379 -14.258 -1.283 5.598 -4.471 0.234 H38 JVL 87 JVL H39 H39 H 0 1 N N N 7.594 -13.100 -0.643 5.044 -3.452 -1.118 H39 JVL 88 JVL H40 H40 H 0 1 N N N 4.741 -16.202 2.483 4.422 -0.462 2.063 H40 JVL 89 JVL H41 H41 H 0 1 N N N 6.455 -15.894 2.924 6.196 -0.295 2.087 H41 JVL 90 JVL H42 H42 H 0 1 N N N 7.192 -11.126 -1.895 4.103 -5.980 1.336 H42 JVL 91 JVL H43 H43 H 0 1 N N N 5.700 -9.280 -2.528 1.991 -7.242 1.253 H43 JVL 92 JVL H44 H44 H 0 1 N N N 3.317 -9.351 -1.926 0.194 -6.533 -0.274 H44 JVL 93 JVL H45 H45 H 0 1 N N N -0.698 -12.787 1.593 -2.586 0.538 0.185 H45 JVL 94 JVL H46 H46 H 0 1 N N N -3.890 -8.369 -1.093 -3.733 1.363 3.166 H46 JVL 95 JVL H47 H47 H 0 1 N N N -0.394 -11.125 0.198 -1.265 -2.405 -2.830 H47 JVL 96 JVL H48 H48 H 0 1 N N N 6.410 -13.271 1.541 4.028 -2.692 1.542 H48 JVL 97 JVL H49 H49 H 0 1 N N N 5.751 -13.974 3.989 5.539 0.831 -0.330 H49 JVL 98 # 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 JVL C22 C23 DOUB Y N 1 JVL C22 C21 SING Y N 2 JVL C23 C18 SING Y N 3 JVL C21 C20 DOUB Y N 4 JVL C33 C34 DOUB Y N 5 JVL C33 C32 SING Y N 6 JVL C34 C26 SING Y N 7 JVL C32 C28 DOUB Y N 8 JVL C18 N6 SING Y N 9 JVL C18 C19 DOUB Y N 10 JVL C26 C25 SING N N 11 JVL C26 C27 DOUB Y N 12 JVL C28 C27 SING Y N 13 JVL C28 C29 SING N N 14 JVL C20 C19 SING Y N 15 JVL C25 C24 SING N N 16 JVL N6 C17 SING Y N 17 JVL C29 N8 SING N N 18 JVL C19 C16 SING Y N 19 JVL O1 C30 DOUB N N 20 JVL C12 N4 SING N N 21 JVL C12 C11 SING N N 22 JVL C17 C16 DOUB Y N 23 JVL C24 N7 SING N N 24 JVL C24 O2 DOUB N N 25 JVL N8 C30 SING N N 26 JVL C10 C11 SING N N 27 JVL C10 C9 SING N N 28 JVL C16 C15 SING N N 29 JVL N7 C14 SING N N 30 JVL C30 C31 SING N N 31 JVL C9 C8 SING N N 32 JVL C15 C14 SING N N 33 JVL O C DOUB N N 34 JVL C14 C13 SING N N 35 JVL N5 C13 SING N N 36 JVL N5 C8 SING N N 37 JVL C31 N9 SING N N 38 JVL N1 C2 DOUB N N 39 JVL C13 O3 DOUB N N 40 JVL C8 C7 SING N N 41 JVL O4 C7 DOUB N N 42 JVL C N9 SING N N 43 JVL C C1 SING N N 44 JVL C7 N3 SING N N 45 JVL C2 N2 SING N N 46 JVL C2 N SING N N 47 JVL C1 N SING N N 48 JVL C1 C3 SING N N 49 JVL C4 C3 SING N N 50 JVL C4 C5 SING N N 51 JVL N3 C6 SING N N 52 JVL C6 C5 SING N N 53 JVL N1 H1 SING N N 54 JVL C8 H2 SING N N 55 JVL N2 H3 SING N N 56 JVL N2 H4 SING N N 57 JVL C9 H5 SING N N 58 JVL C9 H6 SING N N 59 JVL C1 H7 SING N N 60 JVL C5 H8 SING N N 61 JVL C5 H9 SING N N 62 JVL C6 H10 SING N N 63 JVL C6 H11 SING N N 64 JVL N3 H12 SING N N 65 JVL C4 H13 SING N N 66 JVL C4 H14 SING N N 67 JVL C3 H15 SING N N 68 JVL C3 H16 SING N N 69 JVL N4 H17 SING N N 70 JVL N4 H18 SING N N 71 JVL N H20 SING N N 72 JVL C10 H21 SING N N 73 JVL C10 H22 SING N N 74 JVL C11 H23 SING N N 75 JVL C11 H24 SING N N 76 JVL C12 H25 SING N N 77 JVL C12 H26 SING N N 78 JVL C14 H27 SING N N 79 JVL C15 H28 SING N N 80 JVL C15 H29 SING N N 81 JVL C17 H30 SING N N 82 JVL C20 H31 SING N N 83 JVL C21 H32 SING N N 84 JVL C22 H33 SING N N 85 JVL C23 H34 SING N N 86 JVL C25 H35 SING N N 87 JVL C25 H36 SING N N 88 JVL C27 H37 SING N N 89 JVL C29 H38 SING N N 90 JVL C29 H39 SING N N 91 JVL C31 H40 SING N N 92 JVL C31 H41 SING N N 93 JVL C32 H42 SING N N 94 JVL C33 H43 SING N N 95 JVL C34 H44 SING N N 96 JVL N5 H45 SING N N 97 JVL N6 H46 SING N N 98 JVL N7 H47 SING N N 99 JVL N8 H48 SING N N 100 JVL N9 H49 SING N N 101 # 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 JVL InChI InChI 1.06 "InChI=1S/C35H48N10O5/c36-14-5-3-12-27-32(48)39-15-6-4-13-28(45-35(37)38)33(49)42-21-31(47)41-19-23-9-7-8-22(16-23)17-30(46)43-29(34(50)44-27)18-24-20-40-26-11-2-1-10-25(24)26/h1-2,7-11,16,20,27-29,40H,3-6,12-15,17-19,21,36H2,(H,39,48)(H,41,47)(H,42,49)(H,43,46)(H,44,50)(H4,37,38,45)/t27-,28+,29-/m0/s1" JVL InChIKey InChI 1.06 NAEFAWNAIOVILE-NHKHRBQYSA-N JVL SMILES_CANONICAL CACTVS 3.385 "NCCCC[C@@H]1NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)Cc4cccc(CNC(=O)CNC(=O)[C@@H](CCCCNC1=O)NC(N)=N)c4" JVL SMILES CACTVS 3.385 "NCCCC[CH]1NC(=O)[CH](Cc2c[nH]c3ccccc23)NC(=O)Cc4cccc(CNC(=O)CNC(=O)[CH](CCCCNC1=O)NC(N)=N)c4" JVL SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/N)\N[C@@H]1CCCCNC(=O)[C@@H](NC(=O)[C@@H](NC(=O)Cc2cccc(c2)CNC(=O)CNC1=O)Cc3c[nH]c4c3cccc4)CCCCN" JVL SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)c(c[nH]2)CC3C(=O)NC(C(=O)NCCCCC(C(=O)NCC(=O)NCc4cccc(c4)CC(=O)N3)NC(=N)N)CCCCN" # _pdbx_chem_comp_identifier.comp_id JVL _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 "1-[(8~{R},15~{S},18~{S})-15-(4-azanylbutyl)-18-(1~{H}-indol-3-ylmethyl)-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site JVL "Create component" 2022-05-11 PDBE JVL "Modify descriptor" 2022-08-22 RCSB JVL "Initial release" 2023-03-22 RCSB #