data_PVN
# 
_chem_comp.id                                    PVN 
_chem_comp.name                                  PHYCOVIOLOBILIN 
_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                         "Phycoviolobilin, bound form" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2006-11-02 
_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                     PVN 
_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        2J96 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_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 
PVN C31  C31  C 0 1 N N N N N N -24.875 15.221 -3.833 -5.821 2.758  -0.135 C31  PVN 1  
PVN C32  C32  C 0 1 N N N N N N -24.306 14.331 -4.946 -6.085 1.568  0.789  C32  PVN 2  
PVN C3   C3   C 0 1 N N N N N N -26.110 16.059 -4.362 -4.792 2.374  -1.167 C3   PVN 3  
PVN C2   C2   C 0 1 N N N N N N -26.081 17.051 -5.300 -5.033 1.931  -2.397 C2   PVN 4  
PVN C21  C21  C 0 1 N N N N N N -24.894 17.618 -6.084 -6.403 1.729  -2.992 C21  PVN 5  
PVN C1   C1   C 0 1 N N N N N N -27.494 17.517 -5.444 -3.766 1.668  -3.088 C1   PVN 6  
PVN O1   O1   O 0 1 N N N N N N -27.835 18.394 -6.196 -3.666 1.255  -4.227 O1   PVN 7  
PVN N1   N1   N 0 1 N N N N N N -28.318 16.832 -4.629 -2.731 1.953  -2.275 N1   PVN 8  
PVN C4   C4   C 0 1 N N R N N N -27.571 15.897 -3.896 -3.291 2.426  -1.002 C4   PVN 9  
PVN C5   C5   C 0 1 N N N N N N -27.812 15.921 -2.400 -2.853 1.504  0.138  C5   PVN 10 
PVN C6   C6   C 0 1 Y N N N N N -29.180 15.480 -1.920 -1.375 1.669  0.378  C6   PVN 11 
PVN C7   C7   C 0 1 Y N N N N N -30.332 16.270 -1.856 -0.799 2.679  1.086  C7   PVN 12 
PVN C41  C41  C 0 1 N N N N N N -30.502 17.696 -2.230 -1.525 3.815  1.760  C41  PVN 13 
PVN N2   N2   N 0 1 Y N N N N N -29.481 14.215 -1.458 -0.414 0.837  -0.070 N2   PVN 14 
PVN C9   C9   C 0 1 Y N N N N N -30.826 14.193 -1.103 0.814  1.314  0.348  C9   PVN 15 
PVN C8   C8   C 0 1 Y N N N N N -31.366 15.464 -1.357 0.577  2.480  1.080  C8   PVN 16 
PVN C51  C51  C 0 1 N N N N N N -32.776 16.001 -1.168 1.614  3.352  1.740  C51  PVN 17 
PVN C52  C52  C 0 1 N N N N N N -32.981 16.702 0.183  1.857  2.864  3.169  C52  PVN 18 
PVN C53  C53  C 0 1 N N N N N N -33.710 15.783 1.138  2.894  3.736  3.829  C53  PVN 19 
PVN O54  O54  O 0 1 N N N N N N -34.682 15.095 0.708  3.268  3.493  5.095  O54  PVN 20 
PVN O55  O55  O 0 1 N N N N N N -33.325 15.731 2.338  3.388  4.654  3.218  O55  PVN 21 
PVN C10  C10  C 0 1 N N N N N N -31.554 13.075 -0.569 2.060  0.737  0.090  C10  PVN 22 
PVN C11  C11  C 0 1 N N N N N N -31.147 11.720 -0.529 2.139  -0.596 -0.347 C11  PVN 23 
PVN C12  C12  C 0 1 N N N N N N -31.970 10.640 -0.083 3.281  -1.219 -0.907 C12  PVN 24 
PVN C61  C61  C 0 1 N N N N N N -33.389 10.746 0.434  4.626  -0.584 -1.145 C61  PVN 25 
PVN C62  C62  C 0 1 N N N N N N -33.579 10.249 1.884  4.616  0.144  -2.491 C62  PVN 26 
PVN C63  C63  C 0 1 N N N N N N -32.642 10.935 2.827  5.961  0.779  -2.729 C63  PVN 27 
PVN O64  O64  O 0 1 N N N N N N -32.952 12.084 3.247  6.839  0.663  -1.906 O64  PVN 28 
PVN O65  O65  O 0 1 N N N N N N -31.573 10.341 3.149  6.185  1.475  -3.855 O65  PVN 29 
PVN N3   N3   N 0 1 N N N N N N -29.917 11.185 -0.922 1.149  -1.497 -0.299 N3   PVN 30 
PVN C14  C14  C 0 1 N N N N N N -29.975 9.852  -0.745 1.578  -2.654 -0.795 C14  PVN 31 
PVN C13  C13  C 0 1 N N N N N N -31.231 9.487  -0.227 2.929  -2.501 -1.188 C13  PVN 32 
PVN C71  C71  C 0 1 N N N N N N -31.671 8.078  0.093  3.810  -3.560 -1.799 C71  PVN 33 
PVN C15  C15  C 0 1 N N N N N N -28.917 8.933  -1.100 0.788  -3.877 -0.911 C15  PVN 34 
PVN C16  C16  C 0 1 N N N N N N -28.563 8.516  -2.421 -0.049 -4.256 0.114  C16  PVN 35 
PVN C17  C17  C 0 1 N N N N N N -29.381 8.562  -3.629 -0.981 -3.428 0.780  C17  PVN 36 
PVN C81  C81  C 0 1 N N N N N N -30.773 9.061  -3.785 -1.240 -1.970 0.499  C81  PVN 37 
PVN N4   N4   N 0 1 N N N N N N -27.308 7.963  -2.727 -0.137 -5.525 0.678  N4   PVN 38 
PVN C19  C19  C 0 1 N N N N N N -27.346 7.677  -4.065 -1.069 -5.492 1.650  C19  PVN 39 
PVN O19  O19  O 0 1 N N N N N N -26.411 7.175  -4.688 -1.400 -6.434 2.350  O19  PVN 40 
PVN C18  C18  C 0 1 N N N N N N -28.593 8.029  -4.656 -1.601 -4.188 1.720  C18  PVN 41 
PVN C91  C91  C 0 1 N N N N N N -28.984 7.853  -6.128 -2.673 -3.720 2.671  C91  PVN 42 
PVN C92  C92  C 0 1 N N N N N N -29.121 6.370  -6.503 -4.049 -4.015 2.072  C92  PVN 43 
PVN H321 H321 H 0 0 N N N N N N -25.084 13.636 -5.293 -5.159 1.283  1.288  H321 PVN 44 
PVN H322 H322 H 0 0 N N N N N N -23.975 14.960 -5.785 -6.829 1.846  1.536  H322 PVN 45 
PVN HC4  HC4  H 0 1 N N N N N N -27.880 14.897 -4.234 -2.969 3.448  -0.805 HC4  PVN 46 
PVN H211 H211 H 0 0 N N N N N N -24.429 16.816 -6.676 -7.109 1.475  -2.201 H211 PVN 47 
PVN H212 H212 H 0 0 N N N N N N -25.245 18.414 -6.757 -6.723 2.646  -3.486 H212 PVN 48 
PVN H213 H213 H 0 0 N N N N N N -24.155 18.031 -5.382 -6.366 0.918  -3.720 H213 PVN 49 
PVN HN1  HN1  H 0 1 N N N N N N -29.306 16.968 -4.557 -1.790 1.865  -2.492 HN1  PVN 50 
PVN H5C1 H5C1 H 0 0 N N N N N N -27.655 16.953 -2.054 -3.400 1.764  1.045  H5C1 PVN 51 
PVN H5C2 H5C2 H 0 0 N N N N N N -27.067 15.261 -1.932 -3.065 0.469  -0.130 H5C2 PVN 52 
PVN HN2  HN2  H 0 1 N N N N N N -28.843 13.448 -1.390 -0.559 0.036  -0.597 HN2  PVN 53 
PVN H411 H411 H 0 0 N N N N N N -30.791 17.766 -3.289 -1.778 3.530  2.781  H411 PVN 54 
PVN H412 H412 H 0 0 N N N N N N -31.287 18.148 -1.605 -0.885 4.697  1.777  H412 PVN 55 
PVN H413 H413 H 0 0 N N N N N N -29.554 18.232 -2.072 -2.439 4.039  1.209  H413 PVN 56 
PVN H101 H101 H 0 0 N N N N N N -32.525 13.294 -0.149 2.962  1.315  0.225  H101 PVN 57 
PVN H511 H511 H 0 0 N N N N N N -32.986 16.722 -1.971 2.545  3.300  1.175  H511 PVN 58 
PVN H512 H512 H 0 0 N N N N N N -33.482 15.160 -1.236 1.260  4.383  1.763  H512 PVN 59 
PVN H521 H521 H 0 0 N N N N N N -33.574 17.616 0.033  0.926  2.915  3.734  H521 PVN 60 
PVN H522 H522 H 0 0 N N N N N N -32.002 16.967 0.608  2.211  1.833  3.146  H522 PVN 61 
PVN H54  H54  H 0 1 N N N N N N -35.037 14.571 1.416  3.936  4.079  5.475  H54  PVN 62 
PVN H611 H611 H 0 0 N N N N N N -33.693 11.802 0.390  4.837  0.130  -0.348 H611 PVN 63 
PVN H612 H612 H 0 0 N N N N N N -34.040 10.149 -0.222 5.396  -1.355 -1.155 H612 PVN 64 
PVN H621 H621 H 0 0 N N N N N N -34.614 10.451 2.198  4.405  -0.570 -3.288 H621 PVN 65 
PVN H622 H622 H 0 0 N N N N N N -33.390 9.166  1.918  3.846  0.915  -2.481 H622 PVN 66 
PVN H65  H65  H 0 1 N N N N N N -31.069 10.891 3.737  7.064  1.865  -3.963 H65  PVN 67 
PVN H151 H151 H 0 0 N N N N N N -28.337 8.521  -0.287 0.861  -4.485 -1.801 H151 PVN 68 
PVN H711 H711 H 0 0 N N N N N N -31.931 8.009  1.160  3.199  -4.253 -2.377 H711 PVN 69 
PVN H712 H712 H 0 0 N N N N N N -32.550 7.821  -0.516 4.544  -3.089 -2.454 H712 PVN 70 
PVN H713 H713 H 0 0 N N N N N N -30.853 7.378  -0.131 4.326  -4.104 -1.008 H713 PVN 71 
PVN HN4  HN4  H 0 1 N N N N N N -26.546 7.810  -2.098 0.384  -6.300 0.417  HN4  PVN 72 
PVN H811 H811 H 0 0 N N N N N N -31.088 8.950  -4.833 -0.619 -1.645 -0.336 H811 PVN 73 
PVN H812 H812 H 0 0 N N N N N N -31.445 8.480  -3.137 -2.291 -1.830 0.246  H812 PVN 74 
PVN H813 H813 H 0 0 N N N N N N -30.816 10.123 -3.500 -0.997 -1.381 1.383  H813 PVN 75 
PVN H911 H911 H 0 0 N N N N N N -29.946 8.356  -6.304 -2.570 -4.244 3.621  H911 PVN 76 
PVN H912 H912 H 0 0 N N N N N N -28.209 8.311  -6.760 -2.570 -2.647 2.834  H912 PVN 77 
PVN H921 H921 H 0 0 N N N N N N -29.402 6.284  -7.563 -4.187 -5.093 1.990  H921 PVN 78 
PVN H922 H922 H 0 0 N N N N N N -28.161 5.859  -6.335 -4.823 -3.598 2.717  H922 PVN 79 
PVN H923 H923 H 0 0 N N N N N N -29.898 5.904  -5.879 -4.120 -3.563 1.082  H923 PVN 80 
PVN H31  H31  H 0 1 N N N N N N -25.201 14.587 -2.995 -6.747 3.043  -0.634 H31  PVN 81 
PVN H323 H323 H 0 0 N N N N N N -23.451 13.759 -4.557 -6.455 0.728  0.203  H323 PVN 82 
PVN HXT  HXT  H 0 1 N Y N N N N -24.092 15.912 -3.487 -5.450 3.599  0.451  HXT  PVN 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 
PVN C31 C32  SING N N 1  
PVN C31 C3   SING N N 2  
PVN C31 H31  SING N N 3  
PVN C31 HXT  SING N N 4  
PVN C32 H323 SING N N 5  
PVN C32 H321 SING N N 6  
PVN C32 H322 SING N N 7  
PVN C3  C4   SING N N 8  
PVN C3  C2   DOUB N N 9  
PVN C2  C21  SING N N 10 
PVN C2  C1   SING N N 11 
PVN C21 H212 SING N N 12 
PVN C21 H213 SING N N 13 
PVN C21 H211 SING N N 14 
PVN C1  O1   DOUB N N 15 
PVN C1  N1   SING N N 16 
PVN N1  C4   SING N N 17 
PVN N1  HN1  SING N N 18 
PVN C4  C5   SING N N 19 
PVN C4  HC4  SING N N 20 
PVN C5  C6   SING N N 21 
PVN C5  H5C2 SING N N 22 
PVN C5  H5C1 SING N N 23 
PVN C6  C7   DOUB Y N 24 
PVN C6  N2   SING Y N 25 
PVN C7  C41  SING N N 26 
PVN C7  C8   SING Y N 27 
PVN C41 H411 SING N N 28 
PVN C41 H412 SING N N 29 
PVN C41 H413 SING N N 30 
PVN N2  C9   SING Y N 31 
PVN N2  HN2  SING N N 32 
PVN C9  C8   DOUB Y N 33 
PVN C9  C10  SING N N 34 
PVN C8  C51  SING N N 35 
PVN C51 C52  SING N N 36 
PVN C51 H511 SING N N 37 
PVN C51 H512 SING N N 38 
PVN C52 C53  SING N N 39 
PVN C52 H522 SING N N 40 
PVN C52 H521 SING N N 41 
PVN C53 O54  SING N N 42 
PVN C53 O55  DOUB N N 43 
PVN O54 H54  SING N N 44 
PVN C10 C11  DOUB N Z 45 
PVN C10 H101 SING N N 46 
PVN C11 C12  SING N N 47 
PVN C11 N3   SING N N 48 
PVN C12 C61  SING N N 49 
PVN C12 C13  DOUB N N 50 
PVN C61 H611 SING N N 51 
PVN C61 H612 SING N N 52 
PVN C61 C62  SING N N 53 
PVN C62 H621 SING N N 54 
PVN C62 H622 SING N N 55 
PVN C62 C63  SING N N 56 
PVN C63 O65  SING N N 57 
PVN C63 O64  DOUB N N 58 
PVN O65 H65  SING N N 59 
PVN N3  C14  DOUB N N 60 
PVN C14 C13  SING N N 61 
PVN C14 C15  SING N N 62 
PVN C13 C71  SING N N 63 
PVN C71 H713 SING N N 64 
PVN C71 H711 SING N N 65 
PVN C71 H712 SING N N 66 
PVN C15 H151 SING N N 67 
PVN C15 C16  DOUB N E 68 
PVN C16 C17  SING N N 69 
PVN C16 N4   SING N N 70 
PVN C17 C81  SING N N 71 
PVN C17 C18  DOUB N N 72 
PVN C81 H811 SING N N 73 
PVN C81 H812 SING N N 74 
PVN C81 H813 SING N N 75 
PVN N4  HN4  SING N N 76 
PVN N4  C19  SING N N 77 
PVN C19 O19  DOUB N N 78 
PVN C19 C18  SING N N 79 
PVN C18 C91  SING N N 80 
PVN C91 H911 SING N N 81 
PVN C91 H912 SING N N 82 
PVN C91 C92  SING N N 83 
PVN C92 H921 SING N N 84 
PVN C92 H922 SING N N 85 
PVN C92 H923 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 
PVN InChI            InChI                1.03  "InChI=1S/C33H40N4O7/c1-7-20-15(2)25(36-33(20)44)12-23-16(3)21(8-10-29(39)40)26(34-23)14-27-22(9-11-30(41)42)17(4)24(35-27)13-28-31(19(6)38)18(5)32(43)37-28/h12,14,19,28,35,38H,7-11,13H2,1-6H3,(H,36,44)(H,37,43)(H,39,40)(H,41,42)/b25-12+,26-14-/t19?,28-/m1/s1" 
PVN InChIKey         InChI                1.03  SYEAKBPGLNVPDH-HVONXEAXSA-N                                                                                                                                                                                                                                          
PVN SMILES_CANONICAL CACTVS               3.370 "CCC1=C(C)C(=O)N[C@@H]1Cc2[nH]c(\C=C\3N=C(\C=C/4NC(=O)C(=C/4C)CC)C(=C\3CCC(O)=O)C)c(CCC(O)=O)c2C"                                                                                                                                                                    
PVN 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"                                                                                                                                                                            
PVN 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"                                                                                                                                                              
PVN 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           PVN 
_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-[[(2R)-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 
PVN "Create component"   2006-11-02 RCSB 
PVN "Modify descriptor"  2011-06-04 RCSB 
PVN "Modify synonyms"    2012-07-17 EBI  
PVN "Modify value order" 2012-07-17 EBI  
PVN "Modify synonyms"    2020-06-05 PDBE 
PVN "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      PVN 
_pdbx_chem_comp_synonyms.name         "Phycoviolobilin, bound form" 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            PVN 
_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      ? 
# 
