data_VRB # _chem_comp.id VRB _chem_comp.name "Phycoviolobilin, blue light-absorbing form" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C33 H42 N4 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ;3-[5-[(3-ethyl-4-methyl-5-oxidanylidene-1,2-dihydropyrrol-2-yl)methyl]-2-[[5-[(Z)-(4-ethyl-3-methyl-5-oxidanylidene-pyr rol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1H-pyrrol-2-yl]methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2012-08-28 _chem_comp.pdbx_modified_date 2020-06-17 _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 590.710 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VRB _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 4FOF _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 VRB C01 C01 C 0 1 N N N 17.630 63.468 44.239 6.579 -2.055 2.944 C01 VRB 1 VRB C02 C02 C 0 1 N N N 16.740 64.579 43.672 6.939 -2.687 1.598 C02 VRB 2 VRB C03 C03 C 0 1 N N N 15.277 64.338 43.973 6.597 -1.729 0.486 C03 VRB 3 VRB C04 C04 C 0 1 N N N 14.749 64.495 45.183 7.423 -0.867 -0.097 C04 VRB 4 VRB C05 C05 C 0 1 N N N 15.419 64.917 46.469 8.877 -0.687 0.255 C05 VRB 5 VRB C06 C06 C 0 1 N N N 13.338 64.140 45.020 6.707 -0.116 -1.134 C06 VRB 6 VRB O07 O07 O 0 1 N N N 12.564 64.187 45.961 7.201 0.744 -1.838 O07 VRB 7 VRB N08 N08 N 0 1 N N N 13.009 63.783 43.759 5.424 -0.520 -1.192 N08 VRB 8 VRB C09 C09 C 0 1 N N R 14.245 63.890 42.963 5.251 -1.572 -0.182 C09 VRB 9 VRB C10 C10 C 0 1 N N N 14.659 62.580 42.286 4.205 -1.145 0.851 C10 VRB 10 VRB C11 C11 C 0 1 Y N N 13.545 61.798 41.625 2.854 -1.054 0.189 C11 VRB 11 VRB C12 C12 C 0 1 Y N N 12.553 62.232 40.780 1.994 -2.076 0.006 C12 VRB 12 VRB C13 C13 C 0 1 N N N 12.308 63.644 40.308 2.210 -3.510 0.419 C13 VRB 13 VRB C14 C14 C 0 1 Y N N 11.766 61.132 40.422 0.855 -1.558 -0.642 C14 VRB 14 VRB C15 C15 C 0 1 Y N N 12.313 60.014 41.062 1.063 -0.239 -0.830 C15 VRB 15 VRB C16 C16 C 0 1 N N N 11.815 58.535 40.986 0.106 0.721 -1.487 C16 VRB 16 VRB C17 C17 C 0 1 Y N N 12.876 57.702 40.177 -0.885 1.221 -0.467 C17 VRB 17 VRB C18 C18 C 0 1 Y N N 12.650 56.886 39.037 -0.690 2.268 0.373 C18 VRB 18 VRB C19 C19 C 0 1 N N N 11.340 56.655 38.331 0.548 3.124 0.450 C19 VRB 19 VRB C20 C20 C 0 1 N N N 10.424 55.733 39.133 0.410 4.308 -0.509 C20 VRB 20 VRB C21 C21 C 0 1 N N N 9.177 55.453 38.335 1.648 5.164 -0.432 C21 VRB 21 VRB O22 O22 O 0 1 N N N 8.741 54.189 38.232 1.751 6.266 -1.192 O22 VRB 22 VRB O23 O23 O 0 1 N N N 8.569 56.350 37.794 2.548 4.858 0.314 O23 VRB 23 VRB C24 C24 C 0 1 Y N N 13.853 56.355 38.680 -1.839 2.414 1.153 C24 VRB 24 VRB C25 C25 C 0 1 Y N N 14.813 56.854 39.603 -2.727 1.425 0.757 C25 VRB 25 VRB N26 N26 N 0 1 Y N N 14.178 57.638 40.469 -2.118 0.700 -0.244 N26 VRB 26 VRB C27 C27 C 0 1 N N N 16.252 56.600 39.724 -4.017 1.202 1.283 C27 VRB 27 VRB C28 C28 C 0 1 N N N 17.146 56.102 38.798 -4.926 0.436 0.582 C28 VRB 28 VRB N29 N29 N 0 1 N N N 17.107 56.156 37.403 -4.760 -0.062 -0.708 N29 VRB 29 VRB C30 C30 C 0 1 N N N 18.214 55.549 36.926 -5.862 -0.763 -1.036 C30 VRB 30 VRB O31 O31 O 0 1 N N N 18.503 55.409 35.749 -6.052 -1.336 -2.096 O31 VRB 31 VRB C32 C32 C 0 1 N N N 18.981 55.096 38.017 -6.757 -0.725 0.048 C32 VRB 32 VRB C33 C33 C 0 1 N N N 18.339 55.441 39.158 -6.187 0.010 1.043 C33 VRB 33 VRB C34 C34 C 0 1 N N N 18.815 55.155 40.552 -6.791 0.307 2.391 C34 VRB 34 VRB C35 C35 C 0 1 N N N 20.300 54.382 37.936 -8.112 -1.383 0.100 C35 VRB 35 VRB C36 C36 C 0 1 N N N 21.355 55.473 37.874 -9.153 -0.459 -0.536 C36 VRB 36 VRB C37 C37 C 0 1 N N N 14.087 55.427 37.518 -2.070 3.450 2.223 C37 VRB 37 VRB N38 N38 N 0 1 Y N N 13.402 60.442 41.785 2.288 0.076 -0.322 N38 VRB 38 VRB C39 C39 C 0 1 N N N 10.559 61.137 39.508 -0.370 -2.335 -1.050 C39 VRB 39 VRB C40 C40 C 0 1 N N N 9.342 61.776 40.180 -1.388 -2.321 0.092 C40 VRB 40 VRB C41 C41 C 0 1 N N N 8.655 60.744 41.029 -2.613 -3.098 -0.316 C41 VRB 41 VRB O42 O42 O 0 1 N N N 8.713 60.812 42.234 -3.644 -3.220 0.534 O42 VRB 42 VRB O43 O43 O 0 1 N N N 7.984 59.747 40.439 -2.666 -3.610 -1.409 O43 VRB 43 VRB H1 H1 H 0 1 N N N 18.682 63.682 43.999 5.511 -1.837 2.969 H1 VRB 44 VRB H2 H2 H 0 1 N N N 17.506 63.420 45.331 6.826 -2.748 3.749 H2 VRB 45 VRB H3 H3 H 0 1 N N N 17.341 62.504 43.795 7.142 -1.131 3.075 H3 VRB 46 VRB H4 H4 H 0 1 N N N 16.876 64.622 42.581 8.007 -2.905 1.574 H4 VRB 47 VRB H5 H5 H 0 1 N N N 17.041 65.538 44.118 6.376 -3.611 1.468 H5 VRB 48 VRB H6 H6 H 0 1 N N N 14.676 64.941 47.279 9.484 -1.358 -0.354 H6 VRB 49 VRB H7 H7 H 0 1 N N N 16.213 64.199 46.721 9.173 0.345 0.063 H7 VRB 50 VRB H8 H8 H 0 1 N N N 15.857 65.918 46.343 9.028 -0.918 1.310 H8 VRB 51 VRB H9 H9 H 0 1 N N N 12.107 63.502 43.431 4.742 -0.182 -1.792 H9 VRB 52 VRB H10 H10 H 0 1 N N N 14.127 64.669 42.195 4.950 -2.505 -0.658 H10 VRB 53 VRB H11 H11 H 0 1 N N N 15.406 62.820 41.515 4.167 -1.879 1.655 H11 VRB 54 VRB H12 H12 H 0 1 N N N 15.116 61.935 43.051 4.475 -0.171 1.260 H12 VRB 55 VRB H13 H13 H 0 1 N N N 12.864 63.821 39.375 1.833 -3.657 1.431 H13 VRB 56 VRB H14 H14 H 0 1 N N N 11.233 63.789 40.127 1.678 -4.169 -0.267 H14 VRB 57 VRB H15 H15 H 0 1 N N N 12.649 64.352 41.078 3.275 -3.739 0.391 H15 VRB 58 VRB H16 H16 H 0 1 N N N 11.713 58.123 42.001 0.661 1.564 -1.898 H16 VRB 59 VRB H17 H17 H 0 1 N N N 10.842 58.495 40.475 -0.426 0.211 -2.290 H17 VRB 60 VRB H18 H18 H 0 1 N N N 10.836 57.622 38.188 0.671 3.494 1.468 H18 VRB 61 VRB H19 H19 H 0 1 N N N 11.539 56.197 37.351 1.418 2.530 0.171 H19 VRB 62 VRB H20 H20 H 0 1 N N N 10.946 54.788 39.342 0.287 3.938 -1.527 H20 VRB 63 VRB H21 H21 H 0 1 N N N 10.152 56.220 40.081 -0.460 4.902 -0.231 H21 VRB 64 VRB H22 H22 H 0 1 N N N 7.950 54.168 37.706 2.563 6.783 -1.108 H22 VRB 65 VRB H23 H23 H 0 1 N N N 14.614 58.114 41.233 -2.508 -0.054 -0.714 H23 VRB 66 VRB H26 H26 H 0 1 N N N 19.779 54.627 40.510 -6.097 0.914 2.974 H26 VRB 67 VRB H27 H27 H 0 1 N N N 18.939 56.102 41.098 -7.726 0.850 2.258 H27 VRB 68 VRB H28 H28 H 0 1 N N N 18.075 54.527 41.070 -6.985 -0.628 2.916 H28 VRB 69 VRB H29 H29 H 0 1 N N N 20.451 53.753 38.826 -8.080 -2.325 -0.448 H29 VRB 70 VRB H30 H30 H 0 1 N N N 20.342 53.756 37.033 -8.383 -1.575 1.138 H30 VRB 71 VRB H31 H31 H 0 1 N N N 22.353 55.015 37.813 -9.185 0.483 0.011 H31 VRB 72 VRB H32 H32 H 0 1 N N N 21.184 56.099 36.986 -8.882 -0.267 -1.574 H32 VRB 73 VRB H33 H33 H 0 1 N N N 21.292 56.096 38.779 -10.132 -0.935 -0.499 H33 VRB 74 VRB H34 H34 H 0 1 N N N 14.318 56.016 36.618 -2.521 4.337 1.778 H34 VRB 75 VRB H35 H35 H 0 1 N N N 14.932 54.760 37.746 -2.737 3.044 2.983 H35 VRB 76 VRB H36 H36 H 0 1 N N N 13.183 54.826 37.341 -1.117 3.718 2.681 H36 VRB 77 VRB H37 H37 H 0 1 N N N 13.995 59.858 42.339 2.689 0.959 -0.320 H37 VRB 78 VRB H38 H38 H 0 1 N N N 10.313 60.100 39.237 -0.812 -1.878 -1.936 H38 VRB 79 VRB H39 H39 H 0 1 N N N 10.803 61.705 38.598 -0.090 -3.364 -1.274 H39 VRB 80 VRB H40 H40 H 0 1 N N N 9.668 62.616 40.811 -0.946 -2.778 0.978 H40 VRB 81 VRB H41 H41 H 0 1 N N N 8.647 62.144 39.411 -1.668 -1.291 0.316 H41 VRB 82 VRB H42 H42 H 0 1 N N N 8.233 60.086 42.616 -4.408 -3.728 0.228 H42 VRB 83 VRB H24 H24 H 0 1 N N N 16.678 56.840 40.687 -4.293 1.631 2.235 H24 VRB 84 VRB H421 H421 H 0 0 N N N 16.384 56.573 36.852 -3.984 0.074 -1.274 ? ? 85 # # 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 VRB C01 H1 SING N N 1 VRB C01 H2 SING N N 2 VRB C01 H3 SING N N 3 VRB C02 C03 SING N N 4 VRB C02 C01 SING N N 5 VRB C02 H4 SING N N 6 VRB C02 H5 SING N N 7 VRB C03 C04 DOUB N N 8 VRB C04 C05 SING N N 9 VRB C05 H6 SING N N 10 VRB C05 H7 SING N N 11 VRB C05 H8 SING N N 12 VRB C06 C04 SING N N 13 VRB C06 O07 DOUB N N 14 VRB N08 C06 SING N N 15 VRB N08 H9 SING N N 16 VRB C09 N08 SING N N 17 VRB C09 C03 SING N N 18 VRB C09 H10 SING N N 19 VRB C10 C09 SING N N 20 VRB C10 H11 SING N N 21 VRB C10 H12 SING N N 22 VRB C11 N38 SING Y N 23 VRB C11 C10 SING N N 24 VRB C12 C11 DOUB Y N 25 VRB C13 C12 SING N N 26 VRB C13 H13 SING N N 27 VRB C13 H14 SING N N 28 VRB C13 H15 SING N N 29 VRB C14 C12 SING Y N 30 VRB C14 C15 DOUB Y N 31 VRB C15 N38 SING Y N 32 VRB C16 C15 SING N N 33 VRB C16 H16 SING N N 34 VRB C16 H17 SING N N 35 VRB C17 N26 SING Y N 36 VRB C17 C16 SING N N 37 VRB C18 C17 DOUB Y N 38 VRB C19 C18 SING N N 39 VRB C19 C20 SING N N 40 VRB C19 H18 SING N N 41 VRB C19 H19 SING N N 42 VRB C20 H20 SING N N 43 VRB C20 H21 SING N N 44 VRB C21 C20 SING N N 45 VRB O22 C21 SING N N 46 VRB O22 H22 SING N N 47 VRB O23 C21 DOUB N N 48 VRB C24 C18 SING Y N 49 VRB C24 C25 DOUB Y N 50 VRB C25 C27 SING N N 51 VRB C25 N26 SING Y N 52 VRB N26 H23 SING N N 53 VRB C28 C33 SING N N 54 VRB C28 C27 DOUB N Z 55 VRB N29 C28 SING N N 56 VRB C30 N29 SING N N 57 VRB C30 C32 SING N N 58 VRB O31 C30 DOUB N N 59 VRB C32 C33 DOUB N N 60 VRB C33 C34 SING N N 61 VRB C34 H26 SING N N 62 VRB C34 H27 SING N N 63 VRB C34 H28 SING N N 64 VRB C35 C32 SING N N 65 VRB C35 H29 SING N N 66 VRB C35 H30 SING N N 67 VRB C36 C35 SING N N 68 VRB C36 H31 SING N N 69 VRB C36 H32 SING N N 70 VRB C36 H33 SING N N 71 VRB C37 C24 SING N N 72 VRB C37 H34 SING N N 73 VRB C37 H35 SING N N 74 VRB C37 H36 SING N N 75 VRB N38 H37 SING N N 76 VRB C39 C40 SING N N 77 VRB C39 C14 SING N N 78 VRB C39 H38 SING N N 79 VRB C39 H39 SING N N 80 VRB C40 C41 SING N N 81 VRB C40 H40 SING N N 82 VRB C40 H41 SING N N 83 VRB C41 O42 SING N N 84 VRB O42 H42 SING N N 85 VRB O43 C41 DOUB N N 86 VRB C27 H24 SING N N 87 VRB N29 H421 SING N N 88 # # 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 VRB InChI InChI 1.03 "InChI=1S/C33H42N4O6/c1-7-20-19(6)32(42)37-27(20)14-25-18(5)23(10-12-31(40)41)29(35-25)15-28-22(9-11-30(38)39)17(4)24(34-28)13-26-16(3)21(8-2)33(43)36-26/h13,27,34-35H,7-12,14-15H2,1-6H3,(H,36,43)(H,37,42)(H,38,39)(H,40,41)/b26-13-/t27-/m1/s1" VRB InChIKey InChI 1.03 KTSIPBCNIBDFRK-JTNIOKRPSA-N VRB SMILES_CANONICAL CACTVS 3.370 "CCC1=C(C)C(=O)N[C@@H]1Cc2[nH]c(Cc3[nH]c(\C=C4/NC(=O)C(=C4C)CC)c(C)c3CCC(O)=O)c(CCC(O)=O)c2C" VRB SMILES CACTVS 3.370 "CCC1=C(C)C(=O)N[CH]1Cc2[nH]c(Cc3[nH]c(C=C4NC(=O)C(=C4C)CC)c(C)c3CCC(O)=O)c(CCC(O)=O)c2C" VRB SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCC1=C(C(=O)NC1Cc2c(c(c([nH]2)Cc3c(c(c([nH]3)/C=C\4/C(=C(C(=O)N4)CC)C)C)CCC(=O)O)CCC(=O)O)C)C" VRB SMILES "OpenEye OEToolkits" 1.7.6 "CCC1=C(C(=O)NC1Cc2c(c(c([nH]2)Cc3c(c(c([nH]3)C=C4C(=C(C(=O)N4)CC)C)C)CCC(=O)O)CCC(=O)O)C)C" # _pdbx_chem_comp_identifier.comp_id VRB _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 1.7.6 _pdbx_chem_comp_identifier.identifier "3-[5-[(3-ethyl-4-methyl-5-oxidanylidene-1,2-dihydropyrrol-2-yl)methyl]-2-[[5-[(Z)-(4-ethyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1H-pyrrol-2-yl]methyl]-4-methyl-1H-pyrrol-3-yl]propanoic 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 VRB "Create component" 2012-08-28 RCSB VRB "Other modification" 2013-05-08 RCSB VRB "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id VRB _pdbx_chem_comp_synonyms.name "3-[5-[(3-ethyl-4-methyl-5-oxidanylidene-1,2-dihydropyrrol-2-yl)methyl]-2-[[5-[(Z)-(4-ethyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-1H-pyrrol-2-yl]methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##