data_2VO # _chem_comp.id 2VO _chem_comp.name "Phytochromobilin, bound 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 2014-02-26 _chem_comp.pdbx_modified_date 2023-10-17 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status OBS _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 2VO _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 4OUR _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 _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag 2VO C01 C01 C 0 1 N N N 19.681 64.261 303.351 -9.307 1.587 -0.622 C01 2VO 1 N N N 2VO C02 C02 C 0 1 N N N 18.843 63.195 303.405 -8.704 0.981 0.413 C02 2VO 2 N N N 2VO C03 C03 C 0 1 N N N 19.342 61.754 303.665 -7.293 0.850 0.433 C03 2VO 3 N N N 2VO C04 C04 C 0 1 N N N 18.524 60.656 303.726 -6.526 0.266 1.402 C04 2VO 4 N N N 2VO C05 C05 C 0 1 N N N 17.010 60.666 303.552 -7.027 -0.373 2.672 C05 2VO 5 N N N 2VO C06 C06 C 0 1 N N N 19.331 59.539 303.969 -5.177 0.371 0.992 C06 2VO 6 N N N 2VO C07 C07 C 0 1 N N N 18.860 58.258 304.114 -4.001 -0.150 1.778 C07 2VO 7 N N N 2VO C08 C08 C 0 1 Y N N 19.409 57.311 305.247 -2.727 0.143 1.028 C08 2VO 8 N N N 2VO N09 N09 N 0 1 Y N N 19.420 55.953 305.174 -2.086 -0.708 0.178 N09 2VO 9 N N N 2VO C10 C10 C 0 1 Y N N 19.934 55.455 306.290 -0.972 -0.087 -0.306 C10 2VO 10 N N N 2VO C11 C11 C 0 1 N N N 20.138 54.054 306.623 0.017 -0.678 -1.277 C11 2VO 11 N N N 2VO C12 C12 C 0 1 Y N N 19.787 52.844 305.750 1.168 -1.283 -0.515 C12 2VO 12 N N N 2VO N13 N13 N 0 1 Y N N 19.236 52.813 304.510 2.352 -0.662 -0.233 N13 2VO 13 N N N 2VO C14 C14 C 0 1 Y N N 19.104 51.511 304.117 3.142 -1.531 0.479 C14 2VO 14 N N N 2VO C15 C15 C 0 1 N N N 18.521 50.913 302.778 4.496 -1.257 0.981 C15 2VO 15 N N N 2VO C16 C16 C 0 1 N N N 18.021 51.618 301.722 5.205 -0.241 0.473 C16 2VO 16 N N N 2VO N17 N17 N 0 1 N N N 17.962 52.989 301.688 4.859 0.508 -0.634 N17 2VO 17 N N N 2VO C18 C18 C 0 1 N N N 17.403 53.252 300.460 5.746 1.467 -0.930 C18 2VO 18 N N N 2VO O19 O19 O 0 1 N N N 17.195 54.382 300.082 5.651 2.245 -1.856 O19 2VO 19 N N N 2VO C20 C20 C 0 1 N N R 17.060 52.058 299.586 6.882 1.432 0.065 C20 2VO 20 N N N 2VO C21 C21 C 0 1 N N N 15.688 52.155 299.187 8.207 1.144 -0.645 C21 2VO 21 N N N 2VO C22 C22 C 0 1 N N R 17.387 50.880 300.557 6.516 0.280 1.021 C22 2VO 22 N N N 2VO C23 C23 C 0 1 N N N 18.292 49.765 299.998 6.341 0.802 2.448 C23 2VO 23 N N N 2VO C24 C24 C 0 1 N N N 17.789 49.177 298.675 7.677 1.342 2.961 C24 2VO 24 N N N 2VO C25 C25 C 0 1 Y N N 19.588 50.691 305.133 2.445 -2.695 0.638 C25 2VO 25 N N N 2VO C26 C26 C 0 1 N N N 19.636 49.183 305.121 2.922 -3.929 1.359 C26 2VO 26 N N N 2VO C27 C27 C 0 1 Y N N 20.015 51.531 306.159 1.201 -2.528 0.007 C27 2VO 27 N N N 2VO C28 C28 C 0 1 N N N 20.643 51.085 307.487 0.099 -3.552 -0.068 C28 2VO 28 N N N 2VO C29 C29 C 0 1 N N N 22.159 50.846 307.325 0.277 -4.402 -1.327 C29 2VO 29 N N N 2VO C30 C30 C 0 1 N N N 22.875 50.613 308.677 -0.826 -5.427 -1.402 C30 2VO 30 N N N 2VO O31 O31 O 0 1 N N N 23.846 49.773 308.741 -1.668 -5.472 -0.537 O31 2VO 31 N N N 2VO O32 O32 O 0 1 N N N 22.507 51.241 309.711 -0.872 -6.289 -2.430 O32 2VO 32 N N N 2VO C33 C33 C 0 1 Y N N 20.275 56.526 307.135 -0.909 1.146 0.235 C33 2VO 33 N N N 2VO C34 C34 C 0 1 N N N 20.926 56.419 308.568 0.158 2.179 -0.022 C34 2VO 34 N N N 2VO C39 C39 C 0 1 Y N N 19.939 57.691 306.481 -2.028 1.295 1.079 C39 2VO 35 N N N 2VO C40 C40 C 0 1 N N N 20.144 59.105 307.056 -2.376 2.516 1.891 C40 2VO 36 N N N 2VO N41 N41 N 0 1 N N N 20.600 59.949 304.058 -5.088 0.983 -0.164 N41 2VO 37 N N N 2VO C42 C42 C 0 1 N N N 20.641 61.283 303.877 -6.315 1.319 -0.610 C42 2VO 38 N N N 2VO O43 O43 O 0 1 N N N 21.668 61.966 303.897 -6.579 1.889 -1.648 O43 2VO 39 N N N 2VO C35 C35 C 0 1 N N N 22.452 56.909 308.571 -0.250 3.050 -1.211 C35 2VO 40 N N N 2VO C36 C36 C 0 1 N N N 23.429 56.037 309.369 0.817 4.083 -1.467 C36 2VO 41 N N N 2VO O37 O37 O 0 1 N N N 24.613 56.439 309.547 1.803 4.118 -0.770 O37 2VO 42 N N N 2VO O38 O38 O 0 1 N N N 23.068 54.908 309.850 0.672 4.964 -2.470 O38 2VO 43 N N N 2VO H1 H1 H 0 1 N N N 20.743 64.121 303.492 -8.717 1.974 -1.439 H1 2VO 44 N N N 2VO H2 H2 H 0 1 N N N 19.286 65.249 303.167 -10.382 1.683 -0.640 H2 2VO 45 N N N 2VO H3 H3 H 0 1 N N N 17.785 63.359 303.261 -9.294 0.593 1.230 H3 2VO 46 N N N 2VO H4 H4 H 0 1 N N N 16.622 59.641 303.652 -8.113 -0.301 2.711 H4 2VO 47 N N N 2VO H5 H5 H 0 1 N N N 16.557 61.306 304.323 -6.730 -1.422 2.693 H5 2VO 48 N N N 2VO H6 H6 H 0 1 N N N 16.758 61.058 302.556 -6.597 0.142 3.532 H6 2VO 49 N N N 2VO H7 H7 H 0 1 N N N 17.775 58.341 304.275 -3.970 0.337 2.752 H7 2VO 50 N N N 2VO H8 H8 H 0 1 N N N 19.051 57.746 303.160 -4.103 -1.227 1.913 H8 2VO 51 N N N 2VO H9 H9 H 0 1 N N N 19.091 55.414 304.399 -2.374 -1.607 -0.046 H9 2VO 52 N N N 2VO H10 H10 H 0 1 N N N 19.582 53.900 307.560 -0.473 -1.451 -1.869 H10 2VO 53 N N N 2VO H11 H11 H 0 1 N N N 21.217 53.962 306.817 0.390 0.105 -1.937 H11 2VO 54 N N N 2VO H12 H12 H 0 1 N N N 18.970 53.613 303.972 2.594 0.241 -0.491 H12 2VO 55 N N N 2VO H13 H13 H 0 1 N N N 18.517 49.837 302.688 4.919 -1.875 1.759 H13 2VO 56 N N N 2VO H14 H14 H 0 1 N N N 18.255 53.640 302.388 4.051 0.355 -1.148 H14 2VO 57 N N N 2VO H15 H15 H 0 1 N N N 17.732 52.018 298.716 6.939 2.373 0.613 H15 2VO 58 N N N 2VO H16 H16 H 0 1 N N N 15.428 51.294 298.553 8.415 1.939 -1.361 H16 2VO 59 N N N 2VO H17 H17 H 0 1 N N N 15.046 52.159 300.080 9.010 1.097 0.090 H17 2VO 60 N N N 2VO H18 H18 H 0 1 N N N 15.536 53.086 298.622 8.138 0.191 -1.170 H18 2VO 61 N N N 2VO H19 H19 H 0 1 N N N 16.440 50.431 300.891 7.275 -0.501 0.988 H19 2VO 62 N N N 2VO H20 H20 H 0 1 N N N 18.347 48.955 300.741 5.600 1.601 2.455 H20 2VO 63 N N N 2VO H21 H21 H 0 1 N N N 19.297 50.181 299.835 6.005 -0.010 3.094 H21 2VO 64 N N N 2VO H22 H22 H 0 1 N N N 18.480 48.391 298.336 8.399 0.527 3.024 H22 2VO 65 N N N 2VO H23 H23 H 0 1 N N N 16.788 48.746 298.823 8.049 2.104 2.276 H23 2VO 66 N N N 2VO H24 H24 H 0 1 N N N 17.738 49.972 297.916 7.537 1.780 3.950 H24 2VO 67 N N N 2VO H25 H25 H 0 1 N N N 20.594 48.849 304.696 2.639 -3.868 2.410 H25 2VO 68 N N N 2VO H26 H26 H 0 1 N N N 19.540 48.805 306.150 2.465 -4.811 0.910 H26 2VO 69 N N N 2VO H27 H27 H 0 1 N N N 18.808 48.795 304.509 4.006 -4.001 1.278 H27 2VO 70 N N N 2VO H28 H28 H 0 1 N N N 20.480 51.867 308.243 0.138 -4.194 0.812 H28 2VO 71 N N N 2VO H29 H29 H 0 1 N N N 20.164 50.151 307.816 -0.866 -3.046 -0.105 H29 2VO 72 N N N 2VO H30 H30 H 0 1 N N N 22.310 49.961 306.690 0.237 -3.761 -2.207 H30 2VO 73 N N N 2VO H31 H31 H 0 1 N N N 22.604 51.726 306.838 1.242 -4.909 -1.290 H31 2VO 74 N N N 2VO H32 H32 H 0 1 N N N 23.046 50.980 310.449 -1.598 -6.927 -2.435 H32 2VO 75 N N N 2VO H33 H33 H 0 1 N N N 20.351 57.044 309.267 0.278 2.805 0.863 H33 2VO 76 N N N 2VO H34 H34 H 0 1 N N N 20.889 55.370 308.898 1.101 1.679 -0.244 H34 2VO 77 N N N 2VO H35 H35 H 0 1 N N N 19.246 59.408 307.614 -1.912 2.443 2.874 H35 2VO 78 N N N 2VO H36 H36 H 0 1 N N N 21.012 59.104 307.732 -2.011 3.407 1.382 H36 2VO 79 N N N 2VO H37 H37 H 0 1 N N N 20.321 59.813 306.233 -3.459 2.579 2.004 H37 2VO 80 N N N 2VO H38 H38 H 0 1 N N N 22.800 56.938 307.528 -0.371 2.425 -2.095 H38 2VO 81 N N N 2VO H39 H39 H 0 1 N N N 22.480 57.923 308.995 -1.193 3.550 -0.988 H39 2VO 82 N N N 2VO H40 H40 H 0 1 N N N 23.800 54.508 310.305 1.383 5.607 -2.595 H40 2VO 83 N N N # 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 2VO C24 C23 SING N N 1 2VO C21 C20 SING N N 2 2VO C20 C18 SING N N 3 2VO C20 C22 SING N N 4 2VO C23 C22 SING N N 5 2VO O19 C18 DOUB N N 6 2VO C18 N17 SING N N 7 2VO C22 C16 SING N N 8 2VO N17 C16 SING N N 9 2VO C16 C15 DOUB N Z 10 2VO C15 C14 SING N N 11 2VO C01 C02 DOUB N N 12 2VO C02 C03 SING N N 13 2VO C05 C04 SING N N 14 2VO C03 C04 DOUB N N 15 2VO C03 C42 SING N N 16 2VO C04 C06 SING N N 17 2VO C42 O43 DOUB N N 18 2VO C42 N41 SING N N 19 2VO C06 N41 DOUB N N 20 2VO C06 C07 SING N N 21 2VO C07 C08 SING N N 22 2VO C14 N13 SING Y N 23 2VO C14 C25 DOUB Y N 24 2VO N13 C12 SING Y N 25 2VO C26 C25 SING N N 26 2VO C25 C27 SING Y N 27 2VO N09 C08 SING Y N 28 2VO N09 C10 SING Y N 29 2VO C08 C39 DOUB Y N 30 2VO C12 C27 DOUB Y N 31 2VO C12 C11 SING N N 32 2VO C27 C28 SING N N 33 2VO C10 C11 SING N N 34 2VO C10 C33 DOUB Y N 35 2VO C39 C40 SING N N 36 2VO C39 C33 SING Y N 37 2VO C33 C34 SING N N 38 2VO C29 C28 SING N N 39 2VO C29 C30 SING N N 40 2VO C34 C35 SING N N 41 2VO C35 C36 SING N N 42 2VO C30 O31 DOUB N N 43 2VO C30 O32 SING N N 44 2VO C36 O37 DOUB N N 45 2VO C36 O38 SING N N 46 2VO C01 H1 SING N N 47 2VO C01 H2 SING N N 48 2VO C02 H3 SING N N 49 2VO C05 H4 SING N N 50 2VO C05 H5 SING N N 51 2VO C05 H6 SING N N 52 2VO C07 H7 SING N N 53 2VO C07 H8 SING N N 54 2VO N09 H9 SING N N 55 2VO C11 H10 SING N N 56 2VO C11 H11 SING N N 57 2VO N13 H12 SING N N 58 2VO C15 H13 SING N N 59 2VO N17 H14 SING N N 60 2VO C20 H15 SING N N 61 2VO C21 H16 SING N N 62 2VO C21 H17 SING N N 63 2VO C21 H18 SING N N 64 2VO C22 H19 SING N N 65 2VO C23 H20 SING N N 66 2VO C23 H21 SING N N 67 2VO C24 H22 SING N N 68 2VO C24 H23 SING N N 69 2VO C24 H24 SING N N 70 2VO C26 H25 SING N N 71 2VO C26 H26 SING N N 72 2VO C26 H27 SING N N 73 2VO C28 H28 SING N N 74 2VO C28 H29 SING N N 75 2VO C29 H30 SING N N 76 2VO C29 H31 SING N N 77 2VO O32 H32 SING N N 78 2VO C34 H33 SING N N 79 2VO C34 H34 SING N N 80 2VO C40 H35 SING N N 81 2VO C40 H36 SING N N 82 2VO C40 H37 SING N N 83 2VO C35 H38 SING N N 84 2VO C35 H39 SING N N 85 2VO O38 H40 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 2VO 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/h8,14,19-20,34-35H,2,7,9-13,15H2,1,3-6H3,(H,37,42)(H,38,39)(H,40,41)/b27-14-/t19-,20-/m1/s1" 2VO InChIKey InChI 1.03 OTCFLTZTYFVISX-GBQRZCIWSA-N 2VO SMILES_CANONICAL CACTVS 3.385 "CC[C@@H]1[C@@H](C)C(=O)N\C1=C/c2[nH]c(Cc3[nH]c(CC4=NC(=O)C(=C4C)C=C)c(C)c3CCC(O)=O)c(CCC(O)=O)c2C" 2VO SMILES CACTVS 3.385 "CC[CH]1[CH](C)C(=O)NC1=Cc2[nH]c(Cc3[nH]c(CC4=NC(=O)C(=C4C)C=C)c(C)c3CCC(O)=O)c(CCC(O)=O)c2C" 2VO SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CC[C@@H]\1[C@H](C(=O)N/C1=C\c2c(c(c([nH]2)Cc3c(c(c([nH]3)CC4=NC(=O)C(=C4C)C=C)C)CCC(=O)O)CCC(=O)O)C)C" 2VO SMILES "OpenEye OEToolkits" 1.7.6 "CCC1C(C(=O)NC1=Cc2c(c(c([nH]2)Cc3c(c(c([nH]3)CC4=NC(=O)C(=C4C)C=C)C)CCC(=O)O)CCC(=O)O)C)C" # _pdbx_chem_comp_identifier.comp_id 2VO _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-[(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-yl)methyl]-2-[[5-[(Z)-[(3R,4R)-3-ethyl-4-methyl-5-oxidanylidene-pyrrolidin-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 2VO "Create component" 2014-02-26 RCSB 2VO "Initial release" 2014-07-16 RCSB 2VO "Obsolete component" 2023-10-17 RCSB #