data_CN5 # _chem_comp.id CN5 _chem_comp.name "(5S,11R)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H52 O13 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms CARDIOLIPIN _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2008-04-28 _chem_comp.pdbx_modified_date 2021-03-01 _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 634.631 _chem_comp.one_letter_code ? _chem_comp.three_letter_code CN5 _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 3CX5 _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 CN5 P P P 0 1 N N S 23.877 7.767 43.324 2.491 -2.749 -0.111 P CN5 1 CN5 O11 O11 O 0 1 N N N 24.783 6.460 43.932 1.165 -1.859 0.095 O11 CN5 2 CN5 O12 O12 O 0 1 N N N 24.946 8.732 42.624 2.481 -3.975 0.932 O12 CN5 3 CN5 O13 O13 O 0 1 N N N 23.141 8.422 44.665 3.794 -1.838 0.143 O13 CN5 4 CN5 O14 O14 O 0 1 N N N 22.672 7.270 42.336 2.521 -3.278 -1.493 O14 CN5 5 CN5 C1 C1 C 0 1 N N N 24.027 5.700 44.942 -0.151 -2.352 -0.161 C1 CN5 6 CN5 C2 C2 C 0 1 N N N 24.187 4.390 44.283 -1.174 -1.254 0.135 C2 CN5 7 CN5 C3 C3 C 0 1 N N N 22.865 3.682 44.452 -2.584 -1.782 -0.139 C3 CN5 8 CN5 O31 O31 O 0 1 N N N 23.001 2.443 43.834 -3.554 -0.740 0.142 O31 CN5 9 CN5 O32 O32 O 0 1 N N N 21.429 1.135 44.936 -5.158 -2.145 -0.438 O32 CN5 10 CN5 C31 C31 C 0 1 N N N 21.843 1.710 43.934 -4.848 -1.044 -0.049 C31 CN5 11 CN5 C32 C32 C 0 1 N N N 21.046 1.656 42.594 -5.912 -0.012 0.222 C32 CN5 12 CN5 C33 C33 C 0 1 N N N 19.954 0.580 42.309 -7.289 -0.611 -0.073 C33 CN5 13 CN5 C34 C34 C 0 1 N N N 18.651 1.063 42.831 -8.370 0.437 0.202 C34 CN5 14 CN5 C35 C35 C 0 1 N N N 17.401 0.387 42.219 -9.747 -0.162 -0.093 C35 CN5 15 CN5 C36 C36 C 0 1 N N N 16.006 0.333 42.890 -10.828 0.886 0.182 C36 CN5 16 CN5 C37 C37 C 0 1 N N N 14.979 -0.278 41.872 -12.205 0.287 -0.113 C37 CN5 17 CN5 C38 C38 C 0 1 N N N 14.954 -1.834 42.041 -13.285 1.335 0.162 C38 CN5 18 CN5 C39 C39 C 0 1 N N N 14.384 -2.642 40.829 -14.662 0.736 -0.133 C39 CN5 19 CN5 C3A C3A C 0 1 N N N 13.109 -3.478 41.112 -15.743 1.784 0.142 C3A CN5 20 CN5 C3B C3B C 0 1 N N N 11.787 -2.703 40.876 -17.120 1.185 -0.153 C3B CN5 21 CN5 C3C C3C C 0 1 N N N 11.081 -3.000 39.605 -18.201 2.233 0.122 C3C CN5 22 CN5 C3D C3D C 0 1 N N N 11.008 -1.834 38.588 -19.578 1.634 -0.173 C3D CN5 23 CN5 C3E C3E C 0 1 N N N 11.899 -1.708 37.326 -20.659 2.681 0.102 C3E CN5 24 CN5 C3F C3F C 0 1 N N N 11.275 -0.817 36.205 -22.036 2.083 -0.192 C3F CN5 25 CN5 "P'" "P'" P 0 1 N N R 24.714 8.400 50.241 10.037 -0.713 -0.129 "P'" CN5 26 CN5 "O1'" "O1'" O 0 1 N N N 23.498 7.334 49.806 10.735 0.723 0.072 "O1'" CN5 27 CN5 "O2'" "O2'" O 0 1 N N N 23.918 9.648 50.878 10.271 -1.187 -1.512 "O2'" CN5 28 CN5 "O3'" "O3'" O 0 1 N N N 25.524 8.755 48.880 8.453 -0.581 0.132 "O3'" CN5 29 CN5 "O4'" "O4'" O 0 1 N N N 25.828 7.775 51.275 10.666 -1.767 0.913 "O4'" CN5 30 CN5 "C1'" "C1'" C 0 1 N N N 24.273 6.243 49.251 12.120 0.959 -0.191 "C1'" CN5 31 CN5 "C2'" "C2'" C 0 1 N N N 23.838 4.966 48.681 12.453 2.423 0.102 "C2'" CN5 32 CN5 "C3'" "C3'" C 0 1 N N N 24.822 4.143 49.287 13.936 2.675 -0.178 "C3'" CN5 33 CN5 O41 O41 O 0 1 N N N 24.567 2.800 48.866 14.252 4.065 0.099 O41 CN5 34 CN5 O42 O42 O 0 1 N N N 25.646 3.252 46.785 16.342 3.656 -0.489 O42 CN5 35 CN5 C41 C41 C 0 1 N N N 25.322 2.476 47.729 15.522 4.452 -0.098 C41 CN5 36 CN5 C42 C42 C 0 1 N N N 25.759 0.976 47.710 15.924 5.880 0.170 C42 CN5 37 CN5 CA CA C 0 1 N N N 25.131 9.435 47.830 7.539 -1.661 -0.069 CA CN5 38 CN5 CB CB C 0 1 N N R 24.772 8.555 46.602 6.121 -1.197 0.270 CB CN5 39 CN5 OA OA O 0 1 N N N 25.933 8.376 45.648 6.041 -0.889 1.663 OA CN5 40 CN5 CC CC C 0 1 N N N 23.531 9.195 45.823 5.127 -2.311 -0.063 CC CN5 41 CN5 HO12 HO12 H 0 0 N N N 24.667 8.923 41.736 2.462 -3.702 1.860 HO12 CN5 42 CN5 H1 H1 H 0 1 N N N 24.446 5.752 45.958 -0.231 -2.651 -1.207 H1 CN5 43 CN5 H1A H1A H 0 1 N N N 23.000 6.032 45.156 -0.347 -3.213 0.478 H1A CN5 44 CN5 H2 H2 H 0 1 N N N 24.427 4.517 43.217 -1.095 -0.956 1.180 H2 CN5 45 CN5 H2A H2A H 0 1 N N N 25.013 3.814 44.725 -0.978 -0.393 -0.504 H2A CN5 46 CN5 H3 H3 H 0 1 N N N 22.629 3.557 45.519 -2.663 -2.080 -1.184 H3 CN5 47 CN5 H3A H3A H 0 1 N N N 22.044 4.261 44.004 -2.780 -2.643 0.501 H3A CN5 48 CN5 H32 H32 H 0 1 N N N 20.526 2.623 42.526 -5.865 0.293 1.268 H32 CN5 49 CN5 H32A H32A H 0 0 N N N 21.829 1.392 41.868 -5.749 0.855 -0.417 H32A CN5 50 CN5 H33 H33 H 0 1 N N N 19.877 0.410 41.225 -7.336 -0.916 -1.118 H33 CN5 51 CN5 H33A H33A H 0 0 N N N 20.225 -0.364 42.804 -7.453 -1.478 0.567 H33A CN5 52 CN5 H34 H34 H 0 1 N N N 18.636 0.871 43.914 -8.323 0.742 1.248 H34 CN5 53 CN5 H34A H34A H 0 0 N N N 18.588 2.128 42.561 -8.206 1.304 -0.437 H34A CN5 54 CN5 H35 H35 H 0 1 N N N 17.233 0.920 41.271 -9.794 -0.467 -1.138 H35 CN5 55 CN5 H35A H35A H 0 0 N N N 17.694 -0.672 42.258 -9.911 -1.029 0.547 H35A CN5 56 CN5 H36 H36 H 0 1 N N N 16.052 -0.295 43.792 -10.781 1.191 1.228 H36 CN5 57 CN5 H36A H36A H 0 0 N N N 15.690 1.347 43.177 -10.664 1.753 -0.457 H36A CN5 58 CN5 H37 H37 H 0 1 N N N 13.977 0.131 42.069 -12.252 -0.018 -1.158 H37 CN5 59 CN5 H37A H37A H 0 0 N N N 15.278 -0.022 40.845 -12.368 -0.580 0.527 H37A CN5 60 CN5 H38 H38 H 0 1 N N N 15.991 -2.165 42.198 -13.238 1.640 1.208 H38 CN5 61 CN5 H38A H38A H 0 0 N N N 14.277 -2.036 42.884 -13.122 2.202 -0.477 H38A CN5 62 CN5 H39 H39 H 0 1 N N N 14.134 -1.918 40.040 -14.710 0.431 -1.178 H39 CN5 63 CN5 H39A H39A H 0 0 N N N 15.165 -3.367 40.556 -14.826 -0.131 0.507 H39A CN5 64 CN5 H3AA H3AA H 0 0 N N N 13.117 -4.350 40.441 -15.696 2.089 1.188 H3AA CN5 65 CN5 H3AB H3AB H 0 0 N N N 13.135 -3.756 42.176 -15.580 2.651 -0.497 H3AB CN5 66 CN5 H3B H3B H 0 1 N N N 11.104 -2.959 41.699 -17.167 0.880 -1.198 H3B CN5 67 CN5 H3BA H3BA H 0 0 N N N 12.065 -1.640 40.826 -17.284 0.318 0.487 H3BA CN5 68 CN5 H3C H3C H 0 1 N N N 11.614 -3.829 39.118 -18.154 2.538 1.168 H3C CN5 69 CN5 H3CA H3CA H 0 0 N N N 10.041 -3.226 39.882 -18.037 3.100 -0.517 H3CA CN5 70 CN5 H3D H3D H 0 1 N N N 9.979 -1.866 38.201 -19.625 1.329 -1.218 H3D CN5 71 CN5 H3DA H3DA H 0 0 N N N 11.383 -0.998 39.197 -19.742 0.767 0.467 H3DA CN5 72 CN5 H3E H3E H 0 1 N N N 12.856 -1.258 37.627 -20.611 2.987 1.148 H3E CN5 73 CN5 H3EA H3EA H 0 0 N N N 12.016 -2.719 36.909 -20.495 3.549 -0.537 H3EA CN5 74 CN5 H3F H3F H 0 1 N N N 11.128 0.204 36.587 -22.806 2.829 0.003 H3F CN5 75 CN5 H3FA H3FA H 0 0 N N N 11.952 -0.791 35.338 -22.083 1.778 -1.238 H3FA CN5 76 CN5 H3FB H3FB H 0 0 N N N 10.305 -1.237 35.900 -22.199 1.216 0.447 H3FB CN5 77 CN5 "HO4'" "HO4'" H 0 0 N N N 26.652 7.654 50.818 10.550 -1.520 1.840 "HO4'" CN5 78 CN5 "H1'" "H1'" H 0 1 N N N 24.808 6.718 48.415 12.725 0.314 0.447 "H1'" CN5 79 CN5 "H1'A" "H1'A" H 0 0 N N N 24.697 5.859 50.190 12.334 0.739 -1.237 "H1'A" CN5 80 CN5 "H2'" "H2'" H 0 1 N N N 22.807 4.692 48.950 11.848 3.068 -0.535 "H2'" CN5 81 CN5 "H2'A" "H2'A" H 0 0 N N N 23.782 4.922 47.583 12.239 2.642 1.148 "H2'A" CN5 82 CN5 "H3'" "H3'" H 0 1 N N N 25.828 4.457 48.971 14.541 2.030 0.459 "H3'" CN5 83 CN5 "H3'A" "H3'A" H 0 0 N N N 24.776 4.223 50.383 14.150 2.456 -1.225 "H3'A" CN5 84 CN5 H42 H42 H 0 1 N N N 25.862 0.637 46.669 16.985 6.004 -0.045 H42 CN5 85 CN5 H42A H42A H 0 0 N N N 26.724 0.869 48.227 15.343 6.546 -0.468 H42A CN5 86 CN5 H42B H42B H 0 0 N N N 24.999 0.366 48.221 15.734 6.121 1.216 H42B CN5 87 CN5 HA HA H 0 1 N N N 24.234 10.006 48.112 7.577 -1.980 -1.111 HA CN5 88 CN5 HAA HAA H 0 1 N N N 25.974 10.074 47.529 7.813 -2.494 0.577 HAA CN5 89 CN5 HB HB H 0 1 N N N 24.511 7.558 46.986 5.879 -0.308 -0.313 HB CN5 90 CN5 HOA HOA H 0 1 N N N 25.608 8.338 44.756 6.244 -1.635 2.243 HOA CN5 91 CN5 HC HC H 0 1 N N N 23.814 10.204 45.488 5.312 -3.169 0.583 HC CN5 92 CN5 HCA HCA H 0 1 N N N 22.676 9.215 46.515 5.249 -2.608 -1.105 HCA CN5 93 # # 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 CN5 O14 P DOUB N N 1 CN5 O12 P SING N N 2 CN5 P O11 SING N N 3 CN5 P O13 SING N N 4 CN5 O11 C1 SING N N 5 CN5 O12 HO12 SING N N 6 CN5 O13 CC SING N N 7 CN5 C2 C1 SING N N 8 CN5 C1 H1 SING N N 9 CN5 C1 H1A SING N N 10 CN5 C2 C3 SING N N 11 CN5 C2 H2 SING N N 12 CN5 C2 H2A SING N N 13 CN5 O31 C3 SING N N 14 CN5 C3 H3 SING N N 15 CN5 C3 H3A SING N N 16 CN5 O31 C31 SING N N 17 CN5 C31 O32 DOUB N N 18 CN5 C32 C31 SING N N 19 CN5 C33 C32 SING N N 20 CN5 C32 H32 SING N N 21 CN5 C32 H32A SING N N 22 CN5 C33 C34 SING N N 23 CN5 C33 H33 SING N N 24 CN5 C33 H33A SING N N 25 CN5 C35 C34 SING N N 26 CN5 C34 H34 SING N N 27 CN5 C34 H34A SING N N 28 CN5 C35 C36 SING N N 29 CN5 C35 H35 SING N N 30 CN5 C35 H35A SING N N 31 CN5 C37 C36 SING N N 32 CN5 C36 H36 SING N N 33 CN5 C36 H36A SING N N 34 CN5 C37 C38 SING N N 35 CN5 C37 H37 SING N N 36 CN5 C37 H37A SING N N 37 CN5 C39 C38 SING N N 38 CN5 C38 H38 SING N N 39 CN5 C38 H38A SING N N 40 CN5 C39 C3A SING N N 41 CN5 C39 H39 SING N N 42 CN5 C39 H39A SING N N 43 CN5 C3B C3A SING N N 44 CN5 C3A H3AA SING N N 45 CN5 C3A H3AB SING N N 46 CN5 C3C C3B SING N N 47 CN5 C3B H3B SING N N 48 CN5 C3B H3BA SING N N 49 CN5 C3D C3C SING N N 50 CN5 C3C H3C SING N N 51 CN5 C3C H3CA SING N N 52 CN5 C3E C3D SING N N 53 CN5 C3D H3D SING N N 54 CN5 C3D H3DA SING N N 55 CN5 C3F C3E SING N N 56 CN5 C3E H3E SING N N 57 CN5 C3E H3EA SING N N 58 CN5 C3F H3F SING N N 59 CN5 C3F H3FA SING N N 60 CN5 C3F H3FB SING N N 61 CN5 "O3'" "P'" SING N N 62 CN5 "O1'" "P'" SING N N 63 CN5 "P'" "O2'" DOUB N N 64 CN5 "P'" "O4'" SING N N 65 CN5 "C1'" "O1'" SING N N 66 CN5 CA "O3'" SING N N 67 CN5 "O4'" "HO4'" SING N N 68 CN5 "C2'" "C1'" SING N N 69 CN5 "C1'" "H1'" SING N N 70 CN5 "C1'" "H1'A" SING N N 71 CN5 "C2'" "C3'" SING N N 72 CN5 "C2'" "H2'" SING N N 73 CN5 "C2'" "H2'A" SING N N 74 CN5 O41 "C3'" SING N N 75 CN5 "C3'" "H3'" SING N N 76 CN5 "C3'" "H3'A" SING N N 77 CN5 C41 O41 SING N N 78 CN5 O42 C41 DOUB N N 79 CN5 C42 C41 SING N N 80 CN5 C42 H42 SING N N 81 CN5 C42 H42A SING N N 82 CN5 C42 H42B SING N N 83 CN5 CB CA SING N N 84 CN5 CA HA SING N N 85 CN5 CA HAA SING N N 86 CN5 OA CB SING N N 87 CN5 CC CB SING N N 88 CN5 CB HB SING N N 89 CN5 OA HOA SING N N 90 CN5 CC HC SING N N 91 CN5 CC HCA SING N N 92 # # 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 CN5 SMILES ACDLabs 10.04 "O=C(OCCCOP(=O)(OCC(O)COP(=O)(O)OCCCOC(=O)C)O)CCCCCCCCCCCCCC" CN5 SMILES_CANONICAL CACTVS 3.341 "CCCCCCCCCCCCCCC(=O)OCCCO[P@@](O)(=O)OC[C@@H](O)CO[P@@](O)(=O)OCCCOC(C)=O" CN5 SMILES CACTVS 3.341 "CCCCCCCCCCCCCCC(=O)OCCCO[P](O)(=O)OC[CH](O)CO[P](O)(=O)OCCCOC(C)=O" CN5 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CCCCCCCCCCCCCCC(=O)OCCCO[P@](=O)(O)OC[C@H](CO[P@](=O)(O)OCCCOC(=O)C)O" CN5 SMILES "OpenEye OEToolkits" 1.5.0 "CCCCCCCCCCCCCCC(=O)OCCCOP(=O)(O)OCC(COP(=O)(O)OCCCOC(=O)C)O" CN5 InChI InChI 1.03 "InChI=1S/C26H52O13P2/c1-3-4-5-6-7-8-9-10-11-12-13-14-17-26(29)35-19-16-21-37-41(32,33)39-23-25(28)22-38-40(30,31)36-20-15-18-34-24(2)27/h25,28H,3-23H2,1-2H3,(H,30,31)(H,32,33)/t25-/m0/s1" CN5 InChIKey InChI 1.03 UKWPDXFRXMWSMQ-VWLOTQADSA-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 CN5 "SYSTEMATIC NAME" ACDLabs 10.04 "(5S,11R)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate" CN5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "3-[[(2S)-3-(3-acetyloxypropoxy-hydroxy-phosphoryl)oxy-2-hydroxy-propoxy]-hydroxy-phosphoryl]oxypropyl pentadecanoate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site CN5 "Create component" 2008-04-28 RCSB CN5 "Modify descriptor" 2011-06-04 RCSB CN5 "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id CN5 _pdbx_chem_comp_synonyms.name CARDIOLIPIN _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##