data_07D # _chem_comp.id 07D _chem_comp.name "Trans-Geranyl BACTERIOCHLOROPHYLL A" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C55 H64 Mg N4 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 2 _chem_comp.pdbx_initial_date 2021-06-07 _chem_comp.pdbx_modified_date 2021-08-13 _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 901.425 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 07D _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 Y _chem_comp.pdbx_model_coordinates_db_code 7EQD _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # # 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 07D C4 C1 C 0 1 N N N 185.112 129.828 120.867 ? ? ? C4 07D 1 07D C5 C2 C 0 1 N N N 186.242 127.523 120.926 ? ? ? C5 07D 2 07D C6 C3 C 0 1 N N N 184.976 127.058 120.245 ? ? ? C6 07D 3 07D C7 C4 C 0 1 N N N 184.996 125.560 119.997 ? ? ? C7 07D 4 07D C8 C5 C 0 1 N N N 183.974 124.960 119.456 ? ? ? C8 07D 5 07D C10 C6 C 0 1 N N N 184.015 123.454 119.226 ? ? ? C10 07D 6 07D C13 C7 C 0 1 N N N 182.042 120.538 120.407 ? ? ? C13 07D 7 07D C15 C8 C 0 1 N N N 182.307 119.051 120.580 ? ? ? C15 07D 8 07D C17 C9 C 0 1 N N N 181.817 116.884 121.680 ? ? ? C17 07D 9 07D C20 C10 C 0 1 N N N 179.772 116.409 122.955 ? ? ? C20 07D 10 07D C1 C11 C 0 1 N N N 186.980 130.683 123.000 ? ? ? C1 07D 11 07D C11 C12 C 0 1 N N N 182.771 122.831 119.795 ? ? ? C11 07D 12 07D C12 C13 C 0 1 N N N 182.975 121.335 119.981 ? ? ? C12 07D 13 07D C14 C14 C 0 1 N N N 180.638 120.967 120.765 ? ? ? C14 07D 14 07D C16 C15 C 0 1 N N N 181.350 118.326 121.485 ? ? ? C16 07D 15 07D C18 C16 C 0 1 N N N 181.120 116.017 122.340 ? ? ? C18 07D 16 07D C19 C17 C 0 1 N N N 181.536 114.553 122.573 ? ? ? C19 07D 17 07D C2 C18 C 0 1 N N N 187.001 129.298 122.412 ? ? ? C2 07D 18 07D C3 C19 C 0 1 N N N 186.185 128.936 121.482 ? ? ? C3 07D 19 07D C9 C20 C 0 1 N N N 182.675 125.654 119.015 ? ? ? C9 07D 20 07D NB N1 N 1 1 N N N 184.023 124.910 127.100 ? ? ? NB 07D 21 07D ND N2 N 1 1 N N N 185.145 126.755 130.505 ? ? ? ND 07D 22 07D C1A C21 C 0 1 N N N 185.382 128.888 128.236 ? ? ? C1A 07D 23 07D C1B C22 C 0 1 N N N 184.050 125.442 125.816 ? ? ? C1B 07D 24 07D C1C C23 C 0 1 Y N N 183.681 122.986 129.458 ? ? ? C1C 07D 25 07D C1D C24 C 0 1 N N N 185.058 126.356 131.834 ? ? ? C1D 07D 26 07D C2A C25 C 0 1 N N N 185.773 129.806 127.140 ? ? ? C2A 07D 27 07D C2B C26 C 0 1 N N N 183.663 124.474 124.877 ? ? ? C2B 07D 28 07D C2C C27 C 0 1 Y N N 183.410 121.965 130.497 ? ? ? C2C 07D 29 07D C2D C28 C 0 1 N N N 185.247 127.447 132.708 ? ? ? C2D 07D 30 07D C3A C29 C 0 1 N N N 185.022 129.203 125.947 ? ? ? C3A 07D 31 07D C3B C30 C 0 1 N N N 183.353 123.300 125.584 ? ? ? C3B 07D 32 07D C3C C31 C 0 1 Y N N 183.759 122.699 131.791 ? ? ? C3C 07D 33 07D C3D C32 C 0 1 N N N 185.473 128.544 131.885 ? ? ? C3D 07D 34 07D C4A C33 C 0 1 N N N 184.831 127.789 126.370 ? ? ? C4A 07D 35 07D C4B C34 C 0 1 N N N 183.615 123.617 126.976 ? ? ? C4B 07D 36 07D C4C C35 C 0 1 Y N N 184.292 124.018 131.315 ? ? ? C4C 07D 37 07D C4D C36 C 0 1 N N N 185.400 128.089 130.577 ? ? ? C4D 07D 38 07D CAA C37 C 0 1 N N N 187.300 129.820 126.964 ? ? ? CAA 07D 39 07D CAB C38 C 0 1 N N N 182.860 121.998 125.163 ? ? ? CAB 07D 40 07D CAC C39 C 0 1 N N N 184.768 121.942 132.677 ? ? ? CAC 07D 41 07D CAD C40 C 0 1 N N N 185.949 129.875 131.821 ? ? ? CAD 07D 42 07D CBA C41 C 0 1 N N N 187.884 131.152 126.497 ? ? ? CBA 07D 43 07D CBB C42 C 0 1 N N N 182.009 121.821 123.934 ? ? ? CBB 07D 44 07D CBC C43 C 0 1 N N N 184.198 120.678 133.259 ? ? ? CBC 07D 45 07D CBD C44 C 0 1 N N R 186.103 130.265 130.330 ? ? ? CBD 07D 46 07D CED C45 C 0 1 N N N 185.466 133.726 129.276 ? ? ? CED 07D 47 07D CGA C46 C 0 1 N N N 187.466 131.530 125.129 ? ? ? CGA 07D 48 07D CGD C47 C 0 1 N N N 185.373 131.502 130.041 ? ? ? CGD 07D 49 07D CHA C48 C 0 1 N N N 185.597 129.036 129.577 ? ? ? CHA 07D 50 07D CHB C49 C 0 1 N N N 184.440 126.757 125.542 ? ? ? CHB 07D 51 07D CHC C50 C 0 1 N N N 183.471 122.776 128.088 ? ? ? CHC 07D 52 07D CHD C51 C 0 1 N N N 184.792 124.996 132.145 ? ? ? CHD 07D 53 07D CMA C52 C 0 1 N N N 183.680 129.886 125.719 ? ? ? CMA 07D 54 07D CMB C53 C 0 1 N N N 183.626 124.753 123.386 ? ? ? CMB 07D 55 07D CMC C54 C 0 1 N N N 181.986 121.447 130.458 ? ? ? CMC 07D 56 07D CMD C55 C 0 1 N N N 185.199 127.379 134.211 ? ? ? CMD 07D 57 07D NA N3 N 0 1 N N R 184.984 127.663 127.740 ? ? ? NA 07D 58 07D NC N4 N 0 1 Y N N 184.246 124.128 129.948 ? ? ? NC 07D 59 07D O1A O1 O 0 1 N N N 187.223 132.612 124.755 ? ? ? O1A 07D 60 07D O1D O2 O 0 1 N N N 184.186 131.661 130.192 ? ? ? O1D 07D 61 07D O2A O3 O 0 1 N N N 187.393 130.492 124.378 ? ? ? O2A 07D 62 07D O2D O4 O 0 1 N N N 186.133 132.476 129.583 ? ? ? O2D 07D 63 07D OBB O5 O 0 1 N N N 183.107 120.960 125.791 ? ? ? OBB 07D 64 07D OBD O6 O 0 1 N N N 186.227 130.677 132.725 ? ? ? OBD 07D 65 07D MG MG1 MG 0 0 N N N 184.942 125.750 128.747 ? ? ? MG 07D 66 07D H1 H1 H 0 1 N N N 185.151 130.824 121.333 ? ? ? H1 07D 67 07D H2 H2 H 0 1 N N N 185.289 129.922 119.785 ? ? ? H2 07D 68 07D H3 H3 H 0 1 N N N 184.121 129.382 121.039 ? ? ? H3 07D 69 07D H4 H4 H 0 1 N N N 186.455 126.836 121.758 ? ? ? H4 07D 70 07D H5 H5 H 0 1 N N N 187.061 127.476 120.194 ? ? ? H5 07D 71 07D H6 H6 H 0 1 N N N 184.115 127.303 120.885 ? ? ? H6 07D 72 07D H7 H7 H 0 1 N N N 184.877 127.579 119.281 ? ? ? H7 07D 73 07D H8 H8 H 0 1 N N N 185.868 124.985 120.272 ? ? ? H8 07D 74 07D H9 H9 H 0 1 N N N 184.068 123.248 118.147 ? ? ? H9 07D 75 07D H10 H10 H 0 1 N N N 184.899 123.030 119.724 ? ? ? H10 07D 76 07D H11 H11 H 0 1 N N N 182.258 118.580 119.587 ? ? ? H11 07D 77 07D H12 H12 H 0 1 N N N 183.320 118.933 120.993 ? ? ? H12 07D 78 07D H13 H13 H 0 1 N N N 182.761 116.579 121.252 ? ? ? H13 07D 79 07D H14 H14 H 0 1 N N N 179.337 115.540 123.471 ? ? ? H14 07D 80 07D H15 H15 H 0 1 N N N 179.922 117.227 123.676 ? ? ? H15 07D 81 07D H16 H16 H 0 1 N N N 179.089 116.742 122.159 ? ? ? H16 07D 82 07D H17 H17 H 0 1 N N N 187.683 131.342 122.470 ? ? ? H17 07D 83 07D H18 H18 H 0 1 N N N 185.968 131.112 122.952 ? ? ? H18 07D 84 07D H19 H19 H 0 1 N N N 182.546 123.291 120.768 ? ? ? H19 07D 85 07D H20 H20 H 0 1 N N N 181.931 123.001 119.106 ? ? ? H20 07D 86 07D H21 H21 H 0 1 N N N 183.942 120.915 119.748 ? ? ? H21 07D 87 07D H22 H22 H 0 1 N N N 180.535 122.051 120.611 ? ? ? H22 07D 88 07D H23 H23 H 0 1 N N N 179.918 120.436 120.125 ? ? ? H23 07D 89 07D H24 H24 H 0 1 N N N 180.439 120.726 121.820 ? ? ? H24 07D 90 07D H25 H25 H 0 1 N N N 181.313 118.833 122.460 ? ? ? H25 07D 91 07D H26 H26 H 0 1 N N N 180.347 118.328 121.033 ? ? ? H26 07D 92 07D H27 H27 H 0 1 N N N 180.762 114.041 123.163 ? ? ? H27 07D 93 07D H28 H28 H 0 1 N N N 181.653 114.046 121.604 ? ? ? H28 07D 94 07D H29 H29 H 0 1 N N N 182.491 114.526 123.118 ? ? ? H29 07D 95 07D H30 H30 H 0 1 N N N 187.723 128.584 122.781 ? ? ? H30 07D 96 07D H31 H31 H 0 1 N N N 181.986 124.908 118.592 ? ? ? H31 07D 97 07D H32 H32 H 0 1 N N N 182.204 126.137 119.884 ? ? ? H32 07D 98 07D H33 H33 H 0 1 N N N 182.906 126.413 118.253 ? ? ? H33 07D 99 07D H34 H34 H 0 1 N N N 187.757 129.568 127.932 ? ? ? H34 07D 100 07D H35 H35 H 0 1 N N N 187.565 129.052 126.222 ? ? ? H35 07D 101 07D H36 H36 H 0 1 N N N 185.646 121.683 132.067 ? ? ? H36 07D 102 07D H37 H37 H 0 1 N N N 185.075 122.601 133.502 ? ? ? H37 07D 103 07D H38 H38 H 0 1 N N N 187.556 131.939 127.192 ? ? ? H38 07D 104 07D H39 H39 H 0 1 N N N 188.981 131.078 126.518 ? ? ? H39 07D 105 07D H40 H40 H 0 1 N N N 181.752 120.758 123.815 ? ? ? H40 07D 106 07D H41 H41 H 0 1 N N N 181.087 122.411 124.039 ? ? ? H41 07D 107 07D H42 H42 H 0 1 N N N 182.566 122.165 123.050 ? ? ? H42 07D 108 07D H43 H43 H 0 1 N N N 184.960 120.183 133.879 ? ? ? H43 07D 109 07D H44 H44 H 0 1 N N N 183.323 120.922 133.879 ? ? ? H44 07D 110 07D H45 H45 H 0 1 N N N 183.894 120.004 132.445 ? ? ? H45 07D 111 07D H46 H46 H 0 1 N N N 187.172 130.403 130.111 ? ? ? H46 07D 112 07D H47 H47 H 0 1 N N N 186.203 134.454 128.905 ? ? ? H47 07D 113 07D H48 H48 H 0 1 N N N 184.701 133.553 128.505 ? ? ? H48 07D 114 07D H49 H49 H 0 1 N N N 184.988 134.119 130.185 ? ? ? H49 07D 115 07D H50 H50 H 0 1 N N N 184.434 127.010 124.492 ? ? ? H50 07D 116 07D H51 H51 H 0 1 N N N 183.135 121.779 127.843 ? ? ? H51 07D 117 07D H52 H52 H 0 1 N N N 185.009 124.691 133.158 ? ? ? H52 07D 118 07D H53 H53 H 0 1 N N N 183.175 129.425 124.857 ? ? ? H53 07D 119 07D H54 H54 H 0 1 N N N 183.053 129.771 126.616 ? ? ? H54 07D 120 07D H55 H55 H 0 1 N N N 183.842 130.956 125.520 ? ? ? H55 07D 121 07D H56 H56 H 0 1 N N N 183.294 123.851 122.852 ? ? ? H56 07D 122 07D H57 H57 H 0 1 N N N 182.926 125.577 123.185 ? ? ? H57 07D 123 07D H58 H58 H 0 1 N N N 184.632 125.034 123.041 ? ? ? H58 07D 124 07D H59 H59 H 0 1 N N N 181.995 120.359 130.299 ? ? ? H59 07D 125 07D H60 H60 H 0 1 N N N 181.487 121.674 131.412 ? ? ? H60 07D 126 07D H61 H61 H 0 1 N N N 181.442 121.933 129.635 ? ? ? H61 07D 127 07D H62 H62 H 0 1 N N N 185.381 128.380 134.630 ? ? ? H62 07D 128 07D H63 H63 H 0 1 N N N 184.208 127.023 134.530 ? ? ? H63 07D 129 07D H64 H64 H 0 1 N N N 185.972 126.684 134.571 ? ? ? H64 07D 130 # # 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 07D C4 C3 SING N N 1 07D C5 C6 SING N N 2 07D C5 C3 SING N N 3 07D C6 C7 SING N N 4 07D C7 C8 DOUB N E 5 07D C8 C10 SING N N 6 07D C8 C9 SING N N 7 07D C10 C11 SING N N 8 07D C13 C15 SING N N 9 07D C13 C12 DOUB N E 10 07D C13 C14 SING N N 11 07D C15 C16 SING N N 12 07D C17 C16 SING N N 13 07D C17 C18 DOUB N N 14 07D C20 C18 SING N N 15 07D C1 C2 SING N N 16 07D C1 O2A SING N N 17 07D C11 C12 SING N N 18 07D C18 C19 SING N N 19 07D C2 C3 DOUB N E 20 07D NB C1B DOUB N N 21 07D NB C4B SING N N 22 07D NB MG SING N N 23 07D ND C1D SING N N 24 07D ND C4D DOUB N N 25 07D ND MG SING N N 26 07D C1A C2A SING N N 27 07D C1A CHA DOUB N N 28 07D C1A NA SING N N 29 07D C1B C2B SING N N 30 07D C1B CHB SING N N 31 07D C1C C2C DOUB Y N 32 07D C1C CHC SING N N 33 07D C1C NC SING Y N 34 07D C1D C2D SING N N 35 07D C1D CHD DOUB N N 36 07D C2A C3A DOUB N N 37 07D C2A CAA SING N N 38 07D C2B C3B DOUB N N 39 07D C2B CMB SING N N 40 07D C2C C3C SING Y N 41 07D C2C CMC SING N N 42 07D C2D C3D DOUB N N 43 07D C2D CMD SING N N 44 07D C3A C4A SING N N 45 07D C3A CMA SING N N 46 07D C3B C4B SING N N 47 07D C3B CAB SING N N 48 07D C3C C4C DOUB Y N 49 07D C3C CAC SING N N 50 07D C3D C4D SING N N 51 07D C3D CAD SING N N 52 07D C4A CHB DOUB N N 53 07D C4A NA SING N N 54 07D C4B CHC DOUB N N 55 07D C4C CHD SING N N 56 07D C4C NC SING Y N 57 07D C4D CHA SING N N 58 07D CAA CBA SING N N 59 07D CAB CBB SING N N 60 07D CAB OBB DOUB N N 61 07D CAC CBC SING N N 62 07D CAD CBD SING N N 63 07D CAD OBD DOUB N N 64 07D CBA CGA SING N N 65 07D CBD CGD SING N N 66 07D CBD CHA SING N N 67 07D CED O2D SING N N 68 07D CGA O1A DOUB N N 69 07D CGA O2A SING N N 70 07D CGD O1D DOUB N N 71 07D CGD O2D SING N N 72 07D NA MG SING N N 73 07D NC MG SING N N 74 07D C4 H1 SING N N 75 07D C4 H2 SING N N 76 07D C4 H3 SING N N 77 07D C5 H4 SING N N 78 07D C5 H5 SING N N 79 07D C6 H6 SING N N 80 07D C6 H7 SING N N 81 07D C7 H8 SING N N 82 07D C10 H9 SING N N 83 07D C10 H10 SING N N 84 07D C15 H11 SING N N 85 07D C15 H12 SING N N 86 07D C17 H13 SING N N 87 07D C20 H14 SING N N 88 07D C20 H15 SING N N 89 07D C20 H16 SING N N 90 07D C1 H17 SING N N 91 07D C1 H18 SING N N 92 07D C11 H19 SING N N 93 07D C11 H20 SING N N 94 07D C12 H21 SING N N 95 07D C14 H22 SING N N 96 07D C14 H23 SING N N 97 07D C14 H24 SING N N 98 07D C16 H25 SING N N 99 07D C16 H26 SING N N 100 07D C19 H27 SING N N 101 07D C19 H28 SING N N 102 07D C19 H29 SING N N 103 07D C2 H30 SING N N 104 07D C9 H31 SING N N 105 07D C9 H32 SING N N 106 07D C9 H33 SING N N 107 07D CAA H34 SING N N 108 07D CAA H35 SING N N 109 07D CAC H36 SING N N 110 07D CAC H37 SING N N 111 07D CBA H38 SING N N 112 07D CBA H39 SING N N 113 07D CBB H40 SING N N 114 07D CBB H41 SING N N 115 07D CBB H42 SING N N 116 07D CBC H43 SING N N 117 07D CBC H44 SING N N 118 07D CBC H45 SING N N 119 07D CBD H46 SING N N 120 07D CED H47 SING N N 121 07D CED H48 SING N N 122 07D CED H49 SING N N 123 07D CHB H50 SING N N 124 07D CHC H51 SING N N 125 07D CHD H52 SING N N 126 07D CMA H53 SING N N 127 07D CMA H54 SING N N 128 07D CMA H55 SING N N 129 07D CMB H56 SING N N 130 07D CMB H57 SING N N 131 07D CMB H58 SING N N 132 07D CMC H59 SING N N 133 07D CMC H60 SING N N 134 07D CMC H61 SING N N 135 07D CMD H62 SING N N 136 07D CMD H63 SING N N 137 07D CMD H64 SING N N 138 # # 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 07D InChI InChI 1.03 "InChI=1S/C55H65N4O6.Mg/c1-13-39-34(7)41-29-46-48(38(11)60)36(9)43(57-46)27-42-35(8)40(52(58-42)50-51(55(63)64-12)54(62)49-37(10)44(59-53(49)50)28-45(39)56-41)23-24-47(61)65-26-25-33(6)22-16-21-32(5)20-15-19-31(4)18-14-17-30(2)3;/h17,19,21,25,27-29,51H,13-16,18,20,22-24,26H2,1-12H3,(H-,56,57,58,59,60,62);/q-1;+2/p-1/b31-19+,32-21+,33-25+,41-29-,42-27-,43-27-,44-28-,45-28-,46-29-,52-50-;/t51-;/m1./s1" 07D InChIKey InChI 1.03 ZBSZXIUSELHDGQ-POZHEDQMSA-M 07D SMILES_CANONICAL CACTVS 3.385 "CCc1c(C)c2C=C3N=C(C=C4[N@]5[Mg]n2c1C=C6N=C7C(=C5C(=C4C)CCC(=O)OC\C=C(/C)CC\C=C(C)\CC/C=C(C)/CCC=C(C)C)[C@@H](C(=O)OC)C(=O)C7=C6C)C(=C3C(C)=O)C" 07D SMILES CACTVS 3.385 "CCc1c(C)c2C=C3N=C(C=C4[N]5[Mg]n2c1C=C6N=C7C(=C5C(=C4C)CCC(=O)OCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)C)[CH](C(=O)OC)C(=O)C7=C6C)C(=C3C(C)=O)C" 07D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCc1c(c2n3c1C=C4C(=C5C(=O)[C@@H](C6=C7C(=C(C8=CC9=[N]([Mg]3(N87)[N]4=C65)C(=C2)C(=C9C)C(=O)C)C)CCC(=O)OC/C=C(\C)/CC/C=C(\C)/CC/C=C(\C)/CCC=C(C)C)C(=O)OC)C)C" 07D SMILES "OpenEye OEToolkits" 2.0.7 "CCc1c(c2n3c1C=C4C(=C5C(=O)C(C6=C7C(=C(C8=CC9=[N]([Mg]3(N87)[N]4=C65)C(=C2)C(=C9C)C(=O)C)C)CCC(=O)OCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)C)C(=O)OC)C)C" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 07D "Create component" 2021-06-07 PDBJ 07D "Initial release" 2021-08-18 RCSB ##