data_PVG # _chem_comp.id PVG _chem_comp.name "Phycoviolobilin, green light-absorbing form" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C33 H40 N4 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2012-11-12 _chem_comp.pdbx_modified_date 2024-09-27 _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 588.694 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PVG _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 3VV4 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 PVG C32 C32 C 0 1 N N N N N N -9.331 -16.155 -30.758 5.554 0.465 1.472 C32 PVG 1 PVG C31 C31 C 0 1 N N N N N N -8.654 -14.837 -30.411 5.179 -0.942 1.941 C31 PVG 2 PVG C3 C3 C 0 1 N N N N N N -7.119 -14.904 -30.453 4.623 -1.726 0.780 C3 PVG 3 PVG C2 C2 C 0 1 N N N N N N -6.280 -14.602 -31.490 5.298 -2.555 -0.010 C2 PVG 4 PVG C21 C21 C 0 1 N N N N N N -6.663 -14.509 -33.019 6.768 -2.865 0.113 C21 PVG 5 PVG C1 C1 C 0 1 N N N N N N -4.967 -14.602 -30.998 4.398 -3.122 -1.019 C1 PVG 6 PVG O1 O1 O 0 1 N N N N N N -3.954 -14.581 -31.708 4.728 -3.914 -1.882 O1 PVG 7 PVG N1 N1 N 0 1 N N N N N N -4.953 -14.785 -29.680 3.153 -2.638 -0.851 N1 PVG 8 PVG C4 C4 C 0 1 N N S N N N -6.292 -14.494 -29.289 3.191 -1.725 0.299 C4 PVG 9 PVG C5 C5 C 0 1 N N N N N N -6.706 -13.539 -28.160 2.261 -2.227 1.406 C5 PVG 10 PVG C6 C6 C 0 1 Y N N N N N -5.894 -13.752 -26.940 0.828 -2.087 0.961 C6 PVG 11 PVG N2 N2 N 0 1 Y N N N N N -6.206 -14.588 -25.933 0.069 -0.984 1.110 N2 PVG 12 PVG C7 C7 C 0 1 Y N N N N N -4.777 -13.015 -26.560 0.098 -3.053 0.338 C7 PVG 13 PVG C41 C41 C 0 1 N N N N N N -4.092 -11.938 -27.405 0.581 -4.435 -0.020 C41 PVG 14 PVG C8 C8 C 0 1 Y N N N N N -4.376 -13.436 -25.300 -1.171 -2.542 0.091 C8 PVG 15 PVG C51 C51 C 0 1 N N N N N N -3.157 -12.867 -24.501 -2.313 -3.260 -0.580 C51 PVG 16 PVG C52 C52 C 0 1 N N N N N N -3.684 -11.743 -23.554 -3.146 -3.991 0.475 C52 PVG 17 PVG C53 C53 C 0 1 N N N N N N -2.511 -11.173 -22.795 -4.288 -4.709 -0.196 C53 PVG 18 PVG O55 O55 O 0 1 N N N N N N -2.107 -11.802 -21.779 -5.156 -5.423 0.538 O55 PVG 19 PVG O54 O54 O 0 1 N N N N N N -1.886 -10.304 -23.387 -4.422 -4.643 -1.395 O54 PVG 20 PVG C9 C9 C 0 1 Y N N N N N -5.301 -14.445 -24.916 -1.183 -1.234 0.581 C9 PVG 21 PVG C10 C10 C 0 1 N N N N N N -5.232 -15.113 -23.656 -2.259 -0.344 0.541 C10 PVG 22 PVG C11 C11 C 0 1 N N N N N N -5.913 -16.346 -23.504 -2.046 1.026 0.763 C11 PVG 23 PVG N3 N3 N 0 1 N N N N N N -6.599 -17.031 -24.425 -0.855 1.621 0.910 N3 PVG 24 PVG C12 C12 C 0 1 N N N N N N -5.970 -17.085 -22.296 -3.053 2.017 0.863 C12 PVG 25 PVG C61 C61 C 0 1 N N N N N N -5.272 -16.808 -20.968 -4.541 1.802 0.753 C61 PVG 26 PVG C62 C62 C 0 1 N N N N N N -6.300 -16.391 -19.850 -4.952 1.824 -0.720 C62 PVG 27 PVG C63 C63 C 0 1 N N N N N N -6.789 -14.984 -20.143 -6.439 1.609 -0.830 C63 PVG 28 PVG O65 O65 O 0 1 N N N N N N -8.012 -14.851 -20.355 -7.102 1.454 0.168 O65 PVG 29 PVG O64 O64 O 0 1 N N N N N N -5.912 -14.106 -20.311 -7.027 1.590 -2.037 O64 PVG 30 PVG C13 C13 C 0 1 N N N N N N -6.744 -18.193 -22.567 -2.419 3.200 1.078 C13 PVG 31 PVG C71 C71 C 0 1 N N N N N N -7.016 -19.335 -21.498 -3.069 4.548 1.252 C71 PVG 32 PVG C14 C14 C 0 1 N N N N N N -7.190 -18.103 -23.895 -1.031 2.924 1.104 C14 PVG 33 PVG C15 C15 C 0 1 N N N N N N -7.938 -19.079 -24.593 0.031 3.908 1.305 C15 PVG 34 PVG C16 C16 C 0 1 N N N N N N -9.143 -19.730 -24.253 1.169 3.859 0.534 C16 PVG 35 PVG C17 C17 C 0 1 N N N N N N -10.090 -19.252 -23.307 1.388 3.017 -0.580 C17 PVG 36 PVG C81 C81 C 0 1 N N N N N N -9.991 -18.004 -22.455 0.418 2.010 -1.141 C81 PVG 37 PVG C18 C18 C 0 1 N N N N N N -11.131 -20.167 -23.223 2.634 3.284 -1.053 C18 PVG 38 PVG C91 C91 C 0 1 N N N N N N -12.431 -20.094 -22.342 3.291 2.622 -2.236 C91 PVG 39 PVG C92 C92 C 0 1 N N N N N N -12.063 -20.059 -20.779 3.066 3.473 -3.488 C92 PVG 40 PVG C19 C19 C 0 1 N N N N N N -10.834 -21.127 -24.187 3.203 4.290 -0.245 C19 PVG 41 PVG O19 O19 O 0 1 N N N N N N -11.555 -22.097 -24.420 4.315 4.771 -0.385 O19 PVG 42 PVG N4 N4 N 0 1 N N N N N N -9.676 -20.859 -24.830 2.313 4.634 0.705 N4 PVG 43 PVG H1 H1 H 0 1 N N N N N N -10.423 -16.031 -30.708 6.367 0.403 0.748 H1 PVG 44 PVG H2 H2 H 0 1 N N N N N N -9.043 -16.458 -31.775 4.688 0.936 1.006 H2 PVG 45 PVG H3 H3 H 0 1 N N N N N N -9.016 -16.928 -30.042 5.874 1.060 2.327 H3 PVG 46 PVG H4 H4 H 0 1 N N N N N N -8.989 -14.074 -31.130 6.066 -1.444 2.327 H4 PVG 47 PVG H5 H5 H 0 1 N N N N N N -8.962 -14.545 -29.396 4.428 -0.875 2.727 H5 PVG 48 PVG H8 H8 H 0 1 N N N N N N -7.758 -14.529 -33.125 7.056 -3.574 -0.663 H8 PVG 49 PVG H9 H9 H 0 1 N N N N N N -6.271 -13.571 -33.439 7.344 -1.947 -0.001 H9 PVG 50 PVG H10 H10 H 0 1 N N N N N N -6.226 -15.362 -33.559 6.967 -3.299 1.093 H10 PVG 51 PVG H11 H11 H 0 1 N N N N N N -4.185 -15.061 -29.102 2.375 -2.856 -1.387 H11 PVG 52 PVG H12 H12 H 0 1 N N N N N N -6.447 -15.417 -28.711 2.899 -0.721 -0.011 H12 PVG 53 PVG H13 H13 H 0 1 N N N N N N -6.571 -12.502 -28.502 2.477 -3.275 1.613 H13 PVG 54 PVG H14 H14 H 0 1 N N N N N N -7.765 -13.710 -27.918 2.420 -1.638 2.309 H14 PVG 55 PVG H15 H15 H 0 1 N N N N N N -6.982 -15.219 -25.928 0.353 -0.153 1.521 H15 PVG 56 PVG H16 H16 H 0 1 N N N N N N -4.538 -10.957 -27.182 0.380 -5.116 0.807 H16 PVG 57 PVG H17 H17 H 0 1 N N N N N N -3.018 -11.915 -27.168 0.060 -4.782 -0.912 H17 PVG 58 PVG H18 H18 H 0 1 N N N N N N -4.227 -12.168 -28.472 1.653 -4.406 -0.214 H18 PVG 59 PVG H19 H19 H 0 1 N N N N N N -2.693 -13.668 -23.907 -2.940 -2.537 -1.101 H19 PVG 60 PVG H20 H20 H 0 1 N N N N N N -2.415 -12.450 -25.198 -1.918 -3.981 -1.295 H20 PVG 61 PVG H21 H21 H 0 1 N N N N N N -4.163 -10.951 -24.148 -2.518 -4.714 0.996 H21 PVG 62 PVG H22 H22 H 0 1 N N N N N N -4.415 -12.164 -22.848 -3.540 -3.270 1.190 H22 PVG 63 PVG H23 H23 H 0 1 N N N N N N -1.239 -11.497 -21.542 -5.873 -5.866 0.063 H23 PVG 64 PVG H24 H24 H 0 1 N N N N N N -4.673 -14.687 -22.836 -3.255 -0.710 0.340 H24 PVG 65 PVG H27 H27 H 0 1 N N N N N N -4.743 -17.717 -20.646 -4.801 0.837 1.188 H27 PVG 66 PVG H28 H28 H 0 1 N N N N N N -4.547 -15.993 -21.109 -5.063 2.595 1.288 H28 PVG 67 PVG H29 H29 H 0 1 N N N N N N -7.152 -17.087 -19.851 -4.691 2.789 -1.156 H29 PVG 68 PVG H30 H30 H 0 1 N N N N N N -5.808 -16.415 -18.866 -4.429 1.031 -1.255 H30 PVG 69 PVG H31 H31 H 0 1 N N N N N N -6.319 -13.308 -20.629 -7.984 1.449 -2.057 H31 PVG 70 PVG H32 H32 H 0 1 N N N N N N -6.512 -19.082 -20.554 -3.279 4.717 2.308 H32 PVG 71 PVG H33 H33 H 0 1 N N N N N N -8.098 -19.423 -21.323 -2.398 5.325 0.885 H33 PVG 72 PVG H34 H34 H 0 1 N N N N N N -6.627 -20.292 -21.876 -4.001 4.577 0.687 H34 PVG 73 PVG H35 H35 H 0 1 N N N N N N -7.518 -19.375 -25.543 -0.078 4.673 2.060 H35 PVG 74 PVG H37 H37 H 0 1 N N N N N N -10.889 -17.917 -21.826 -0.535 2.497 -1.345 H37 PVG 75 PVG H38 H38 H 0 1 N N N N N N -9.099 -18.068 -21.814 0.819 1.594 -2.065 H38 PVG 76 PVG H39 H39 H 0 1 N N N N N N -9.912 -17.121 -23.106 0.268 1.208 -0.417 H39 PVG 77 PVG H40 H40 H 0 1 N N N N N N -12.991 -19.183 -22.601 4.361 2.526 -2.050 H40 PVG 78 PVG H41 H41 H 0 1 N N N N N N -13.054 -20.977 -22.546 2.858 1.633 -2.386 H41 PVG 79 PVG H42 H42 H 0 1 N N N N N N -12.988 -20.008 -20.185 3.465 2.952 -4.358 H42 PVG 80 PVG H43 H43 H 0 1 N N N N N N -11.506 -20.970 -20.513 1.998 3.642 -3.624 H43 PVG 81 PVG H44 H44 H 0 1 N N N N N N -11.443 -19.175 -20.568 3.574 4.430 -3.373 H44 PVG 82 PVG H6 H6 H 0 1 N N N N N N -9.281 -21.383 -25.584 2.447 5.305 1.393 H6 PVG 83 # 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 PVG C21 C2 SING N N 1 PVG O1 C1 DOUB N N 2 PVG C2 C1 SING N N 3 PVG C2 C3 DOUB N N 4 PVG C1 N1 SING N N 5 PVG C32 C31 SING N N 6 PVG C3 C31 SING N N 7 PVG C3 C4 SING N N 8 PVG N1 C4 SING N N 9 PVG C4 C5 SING N N 10 PVG C5 C6 SING N N 11 PVG C41 C7 SING N N 12 PVG C6 C7 DOUB Y N 13 PVG C6 N2 SING Y N 14 PVG C7 C8 SING Y N 15 PVG N2 C9 SING Y N 16 PVG C8 C9 DOUB Y N 17 PVG C8 C51 SING N N 18 PVG C9 C10 SING N N 19 PVG N4 C16 SING N N 20 PVG N4 C19 SING N N 21 PVG C15 C16 DOUB N E 22 PVG C15 C14 SING N N 23 PVG C51 C52 SING N N 24 PVG N3 C14 DOUB N N 25 PVG N3 C11 SING N N 26 PVG O19 C19 DOUB N N 27 PVG C16 C17 SING N N 28 PVG C19 C18 SING N N 29 PVG C14 C13 SING N N 30 PVG C10 C11 DOUB N Z 31 PVG C52 C53 SING N N 32 PVG C11 C12 SING N N 33 PVG O54 C53 DOUB N N 34 PVG C17 C18 DOUB N N 35 PVG C17 C81 SING N N 36 PVG C18 C91 SING N N 37 PVG C53 O55 SING N N 38 PVG C13 C12 DOUB N N 39 PVG C13 C71 SING N N 40 PVG C91 C92 SING N N 41 PVG C12 C61 SING N N 42 PVG C61 C62 SING N N 43 PVG O65 C63 DOUB N N 44 PVG O64 C63 SING N N 45 PVG C63 C62 SING N N 46 PVG C32 H1 SING N N 47 PVG C32 H2 SING N N 48 PVG C32 H3 SING N N 49 PVG C31 H4 SING N N 50 PVG C31 H5 SING N N 51 PVG C21 H8 SING N N 52 PVG C21 H9 SING N N 53 PVG C21 H10 SING N N 54 PVG N1 H11 SING N N 55 PVG C4 H12 SING N N 56 PVG C5 H13 SING N N 57 PVG C5 H14 SING N N 58 PVG N2 H15 SING N N 59 PVG C41 H16 SING N N 60 PVG C41 H17 SING N N 61 PVG C41 H18 SING N N 62 PVG C51 H19 SING N N 63 PVG C51 H20 SING N N 64 PVG C52 H21 SING N N 65 PVG C52 H22 SING N N 66 PVG O55 H23 SING N N 67 PVG C10 H24 SING N N 68 PVG C61 H27 SING N N 69 PVG C61 H28 SING N N 70 PVG C62 H29 SING N N 71 PVG C62 H30 SING N N 72 PVG O64 H31 SING N N 73 PVG C71 H32 SING N N 74 PVG C71 H33 SING N N 75 PVG C71 H34 SING N N 76 PVG C15 H35 SING N N 77 PVG C81 H37 SING N N 78 PVG C81 H38 SING N N 79 PVG C81 H39 SING N N 80 PVG C91 H40 SING N N 81 PVG C91 H41 SING N N 82 PVG C92 H42 SING N N 83 PVG C92 H43 SING N N 84 PVG C92 H44 SING N N 85 PVG N4 H6 SING N N 86 # 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 PVG InChI InChI 1.03 "InChI=1S/C33H40N4O6/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/h13,15,27,35H,7-12,14H2,1-6H3,(H,36,43)(H,37,42)(H,38,39)(H,40,41)/b26-13+,28-15-/t27-/m0/s1" PVG InChIKey InChI 1.03 YWHXTEHCIWOHBT-STWNLGFLSA-N PVG SMILES_CANONICAL CACTVS 3.370 "CCC1=C(C)C(=O)N[C@H]1Cc2[nH]c(\C=C3/N=C(\C=C/4NC(=O)C(=C/4C)CC)C(=C3CCC(O)=O)C)c(CCC(O)=O)c2C" PVG SMILES CACTVS 3.370 "CCC1=C(C)C(=O)N[CH]1Cc2[nH]c(C=C3N=C(C=C4NC(=O)C(=C4C)CC)C(=C3CCC(O)=O)C)c(CCC(O)=O)c2C" PVG SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCC1=C(C(=O)N[C@H]1Cc2c(c(c([nH]2)/C=C\3/C(=C(C(=N3)/C=C/4\C(=C(C(=O)N4)CC)C)C)CCC(=O)O)CCC(=O)O)C)C" PVG SMILES "OpenEye OEToolkits" 1.7.6 "CCC1=C(C(=O)NC1Cc2c(c(c([nH]2)C=C3C(=C(C(=N3)C=C4C(=C(C(=O)N4)CC)C)C)CCC(=O)O)CCC(=O)O)C)C" # _pdbx_chem_comp_identifier.comp_id PVG _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-[[(2S)-3-ethyl-4-methyl-5-oxidanylidene-1,2-dihydropyrrol-2-yl]methyl]-2-[(Z)-[5-[(E)-(4-ethyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-pyrrol-2-ylidene]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 PVG "Create component" 2012-11-12 PDBJ PVG "Initial release" 2013-01-25 RCSB PVG "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id PVG _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _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 C31 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #