data_A1EMC
# 
_chem_comp.id                                    A1EMC 
_chem_comp.name                                  "2-methyl-3-[(2~{E},6~{E},10~{E})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenyl]naphthalene-1,4-diol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C31 H42 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Menahydroquinone-4; Menaquinol-4; Mkh-4 cpd" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2025-02-21 
_chem_comp.pdbx_modified_date                    2025-10-03 
_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                        446.664 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A1EMC 
_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        9L6R 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBC 
_chem_comp.pdbx_pcm                              ? 
# 
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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
A1EMC C10 C1  C 0 1 Y N N N N N 124.110 132.789 129.256 -7.251 1.985  -1.192 C10 A1EMC 1  
A1EMC C15 C2  C 0 1 N N N N N N 124.508 136.281 134.643 -2.476 -1.933 0.305  C15 A1EMC 2  
A1EMC C17 C3  C 0 1 N N N N N N 126.310 137.994 134.936 -2.187 -2.443 2.675  C17 A1EMC 3  
A1EMC C20 C4  C 0 1 N N N N N N 122.299 140.012 133.760 1.564  -0.008 1.349  C20 A1EMC 4  
A1EMC C21 C5  C 0 1 N N N N N N 121.630 140.897 134.496 1.950  0.935  0.526  C21 A1EMC 5  
A1EMC C22 C6  C 0 1 N N N N N N 122.271 141.565 135.708 0.927  1.806  -0.156 C22 A1EMC 6  
A1EMC C24 C7  C 0 1 N N N N N N 119.243 140.243 134.814 3.824  0.384  -1.002 C24 A1EMC 7  
A1EMC C26 C8  C 0 1 N N N N N N 117.220 140.367 136.272 6.088  -0.433 -1.413 C26 A1EMC 8  
A1EMC C28 C9  C 0 1 N N N N N N 116.269 141.126 137.227 7.574  -0.224 -1.554 C28 A1EMC 9  
A1EMC C01 C10 C 0 1 N N N N N N 126.515 136.370 131.750 -4.756 -2.130 -2.290 C01 A1EMC 10 
A1EMC C02 C11 C 0 1 Y N N N N N 125.636 135.121 131.753 -5.207 -1.087 -1.300 C02 A1EMC 11 
A1EMC C03 C12 C 0 1 Y N N N N N 125.178 134.554 132.953 -4.804 -1.183 0.029  C03 A1EMC 12 
A1EMC C04 C13 C 0 1 Y N N N N N 124.370 133.413 132.917 -5.195 -0.254 0.951  C04 A1EMC 13 
A1EMC C06 C14 C 0 1 Y N N N N N 124.017 132.826 131.671 -6.019 0.818  0.555  C06 A1EMC 14 
A1EMC C07 C15 C 0 1 Y N N N N N 123.195 131.659 131.641 -6.441 1.792  1.475  C07 A1EMC 15 
A1EMC C08 C16 C 0 1 Y N N N N N 122.849 131.085 130.423 -7.246 2.808  1.059  C08 A1EMC 16 
A1EMC C09 C17 C 0 1 Y N N N N N 123.308 131.650 129.227 -7.645 2.907  -0.272 C09 A1EMC 17 
A1EMC C11 C18 C 0 1 Y N N N N N 124.464 133.376 130.505 -6.429 0.916  -0.797 C11 A1EMC 18 
A1EMC C12 C19 C 0 1 Y N N N N N 125.284 134.539 130.535 -6.006 -0.061 -1.720 C12 A1EMC 19 
A1EMC C14 C20 C 0 1 N N N N N N 125.538 135.168 134.320 -3.923 -2.328 0.456  C14 A1EMC 20 
A1EMC C16 C21 C 0 1 N N N N N N 124.857 137.534 134.918 -1.659 -2.036 1.323  C16 A1EMC 21 
A1EMC C18 C22 C 0 1 N N N N N N 123.758 138.575 135.224 -0.191 -1.748 1.143  C18 A1EMC 22 
A1EMC C19 C23 C 0 1 N N N N N N 123.760 139.623 134.104 0.095  -0.296 1.529  C19 A1EMC 23 
A1EMC C23 C24 C 0 1 N N N N N N 120.166 141.246 134.114 3.418  1.148  0.260  C23 A1EMC 24 
A1EMC C25 C25 C 0 1 N N N N N N 118.280 140.986 135.774 5.292  0.597  -1.268 C25 A1EMC 25 
A1EMC C27 C26 C 0 1 N N N N N N 116.932 138.907 135.921 5.517  -1.828 -1.439 C27 A1EMC 26 
A1EMC C29 C27 C 0 1 N N N N N N 114.908 141.291 136.538 8.240  -0.365 -0.184 C29 A1EMC 27 
A1EMC C30 C28 C 0 1 N N N N N N 113.986 142.270 137.283 9.726  -0.156 -0.324 C30 A1EMC 28 
A1EMC C31 C29 C 0 1 N N N N N N 112.764 142.510 136.826 10.334 0.741  0.412  C31 A1EMC 29 
A1EMC C32 C30 C 0 1 N N N N N N 111.849 143.484 137.572 9.567  1.493  1.469  C32 A1EMC 30 
A1EMC C33 C31 C 0 1 N N N N N N 112.272 141.818 135.555 11.800 1.021  0.202  C33 A1EMC 31 
A1EMC O05 O1  O 0 1 N N N N N N 123.906 132.840 134.112 -4.792 -0.364 2.245  O05 A1EMC 32 
A1EMC O13 O2  O 0 1 N N N N N N 125.736 135.095 129.334 -6.389 0.017  -3.022 O13 A1EMC 33 
A1EMC H1  H1  H 0 1 N N N N N N 124.463 133.226 128.333 -7.571 2.072  -2.220 H1  A1EMC 34 
A1EMC H2  H2  H 0 1 N N N N N N 123.458 136.027 134.645 -2.114 -1.564 -0.643 H2  A1EMC 35 
A1EMC H3  H3  H 0 1 N N N N N N 126.353 139.064 135.187 -2.567 -3.464 2.624  H3  A1EMC 36 
A1EMC H4  H4  H 0 1 N N N N N N 126.867 137.418 135.689 -1.383 -2.391 3.409  H4  A1EMC 37 
A1EMC H5  H5  H 0 1 N N N N N N 126.758 137.831 133.945 -2.992 -1.770 2.968  H5  A1EMC 38 
A1EMC H6  H6  H 0 1 N N N N N N 121.815 139.557 132.908 2.297  -0.579 1.899  H6  A1EMC 39 
A1EMC H7  H7  H 0 1 N N N N N N 121.551 142.256 136.170 0.400  2.400  0.591  H7  A1EMC 40 
A1EMC H8  H8  H 0 1 N N N N N N 122.562 140.796 136.439 1.427  2.470  -0.861 H8  A1EMC 41 
A1EMC H9  H9  H 0 1 N N N N N N 123.163 142.124 135.389 0.213  1.179  -0.690 H9  A1EMC 42 
A1EMC H11 H10 H 0 1 N N N N N N 118.656 139.700 134.059 3.631  -0.679 -0.862 H11 A1EMC 43 
A1EMC H10 H11 H 0 1 N N N N N N 119.851 139.529 135.389 3.245  0.750  -1.850 H10 A1EMC 44 
A1EMC H12 H12 H 0 1 N N N N N N 116.145 140.554 138.158 7.983  -0.970 -2.235 H12 A1EMC 45 
A1EMC H13 H13 H 0 1 N N N N N N 116.689 142.116 137.458 7.764  0.773  -1.950 H13 A1EMC 46 
A1EMC H14 H14 H 0 1 N N N N N N 125.879 137.267 131.708 -5.481 -2.943 -2.316 H14 A1EMC 47 
A1EMC H16 H15 H 0 1 N N N N N N 127.122 136.393 132.667 -4.678 -1.681 -3.280 H16 A1EMC 48 
A1EMC H15 H16 H 0 1 N N N N N N 127.178 136.350 130.872 -3.784 -2.519 -1.989 H15 A1EMC 49 
A1EMC H17 H17 H 0 1 N N N N N N 122.842 131.223 132.564 -6.136 1.729  2.510  H17 A1EMC 50 
A1EMC H18 H18 H 0 1 N N N N N N 122.226 130.203 130.399 -7.570 3.555  1.769  H18 A1EMC 51 
A1EMC H19 H19 H 0 1 N N N N N N 123.040 131.203 128.281 -8.277 3.728  -0.578 H19 A1EMC 52 
A1EMC H21 H20 H 0 1 N N N N N N 125.501 134.391 135.098 -4.129 -3.197 -0.168 H21 A1EMC 53 
A1EMC H20 H21 H 0 1 N N N N N N 126.549 135.598 134.279 -4.125 -2.573 1.499  H20 A1EMC 54 
A1EMC H22 H22 H 0 1 N N N N N N 123.965 139.061 136.189 0.391  -2.415 1.780  H22 A1EMC 55 
A1EMC H23 H23 H 0 1 N N N N N N 122.777 138.079 135.267 0.086  -1.908 0.101  H23 A1EMC 56 
A1EMC H24 H24 H 0 1 N N N N N N 124.248 139.205 133.211 -0.181 -0.136 2.571  H24 A1EMC 57 
A1EMC H25 H25 H 0 1 N N N N N N 124.309 140.516 134.438 -0.486 0.371  0.893  H25 A1EMC 58 
A1EMC H27 H26 H 0 1 N N N N N N 119.927 142.267 134.445 3.612  2.211  0.120  H27 A1EMC 59 
A1EMC H26 H27 H 0 1 N N N N N N 120.037 141.174 133.024 3.998  0.782  1.108  H26 A1EMC 60 
A1EMC H28 H28 H 0 1 N N N N N N 118.474 142.015 136.039 5.688  1.599  -1.339 H28 A1EMC 61 
A1EMC H30 H29 H 0 1 N N N N N N 116.014 138.581 136.431 5.397  -2.191 -0.418 H30 A1EMC 62 
A1EMC H29 H30 H 0 1 N N N N N N 116.801 138.811 134.833 4.548  -1.814 -1.936 H29 A1EMC 63 
A1EMC H31 H31 H 0 1 N N N N N N 117.775 138.279 136.246 6.195  -2.487 -1.982 H31 A1EMC 64 
A1EMC H33 H32 H 0 1 N N N N N N 115.072 141.668 135.518 7.831  0.381  0.498  H33 A1EMC 65 
A1EMC H32 H33 H 0 1 N N N N N N 114.415 140.309 136.491 8.050  -1.362 0.213  H32 A1EMC 66 
A1EMC H34 H34 H 0 1 N N N N N N 114.333 142.763 138.179 10.290 -0.745 -1.032 H34 A1EMC 67 
A1EMC H36 H35 H 0 1 N N N N N N 112.374 143.878 138.455 9.538  0.903  2.385  H36 A1EMC 68 
A1EMC H37 H36 H 0 1 N N N N N N 111.578 144.316 136.905 10.059 2.446  1.666  H37 A1EMC 69 
A1EMC H35 H37 H 0 1 N N N N N N 110.937 142.958 137.892 8.551  1.675  1.121  H35 A1EMC 70 
A1EMC H40 H38 H 0 1 N N N N N N 111.243 142.140 135.336 12.180 0.386  -0.599 H40 A1EMC 71 
A1EMC H38 H39 H 0 1 N N N N N N 112.927 142.088 134.714 11.934 2.068  -0.070 H38 A1EMC 72 
A1EMC H39 H40 H 0 1 N N N N N N 112.291 140.728 135.700 12.345 0.811  1.122  H39 A1EMC 73 
A1EMC H41 H41 H 0 1 N N N N N N 124.226 133.344 134.851 -3.959 0.087  2.437  H41 A1EMC 74 
A1EMC H42 H42 H 0 1 N N N N N N 126.267 135.860 129.519 -5.783 0.523  -3.581 H42 A1EMC 75 
# 
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 
A1EMC C09 C10 DOUB Y N 1  
A1EMC C09 C08 SING Y N 2  
A1EMC C10 C11 SING Y N 3  
A1EMC O13 C12 SING N N 4  
A1EMC C08 C07 DOUB Y N 5  
A1EMC C11 C12 DOUB Y N 6  
A1EMC C11 C06 SING Y N 7  
A1EMC C12 C02 SING Y N 8  
A1EMC C07 C06 SING Y N 9  
A1EMC C06 C04 DOUB Y N 10 
A1EMC C01 C02 SING N N 11 
A1EMC C02 C03 DOUB Y N 12 
A1EMC C04 C03 SING Y N 13 
A1EMC C04 O05 SING N N 14 
A1EMC C03 C14 SING N N 15 
A1EMC C20 C19 SING N N 16 
A1EMC C20 C21 DOUB N E 17 
A1EMC C19 C18 SING N N 18 
A1EMC C23 C21 SING N N 19 
A1EMC C23 C24 SING N N 20 
A1EMC C14 C15 SING N N 21 
A1EMC C21 C22 SING N N 22 
A1EMC C15 C16 DOUB N E 23 
A1EMC C24 C25 SING N N 24 
A1EMC C16 C17 SING N N 25 
A1EMC C16 C18 SING N N 26 
A1EMC C33 C31 SING N N 27 
A1EMC C25 C26 DOUB N E 28 
A1EMC C27 C26 SING N N 29 
A1EMC C26 C28 SING N N 30 
A1EMC C29 C28 SING N N 31 
A1EMC C29 C30 SING N N 32 
A1EMC C31 C30 DOUB N N 33 
A1EMC C31 C32 SING N N 34 
A1EMC C10 H1  SING N N 35 
A1EMC C15 H2  SING N N 36 
A1EMC C17 H3  SING N N 37 
A1EMC C17 H4  SING N N 38 
A1EMC C17 H5  SING N N 39 
A1EMC C20 H6  SING N N 40 
A1EMC C22 H7  SING N N 41 
A1EMC C22 H8  SING N N 42 
A1EMC C22 H9  SING N N 43 
A1EMC C24 H11 SING N N 44 
A1EMC C24 H10 SING N N 45 
A1EMC C28 H12 SING N N 46 
A1EMC C28 H13 SING N N 47 
A1EMC C01 H14 SING N N 48 
A1EMC C01 H16 SING N N 49 
A1EMC C01 H15 SING N N 50 
A1EMC C07 H17 SING N N 51 
A1EMC C08 H18 SING N N 52 
A1EMC C09 H19 SING N N 53 
A1EMC C14 H21 SING N N 54 
A1EMC C14 H20 SING N N 55 
A1EMC C18 H22 SING N N 56 
A1EMC C18 H23 SING N N 57 
A1EMC C19 H24 SING N N 58 
A1EMC C19 H25 SING N N 59 
A1EMC C23 H27 SING N N 60 
A1EMC C23 H26 SING N N 61 
A1EMC C25 H28 SING N N 62 
A1EMC C27 H30 SING N N 63 
A1EMC C27 H29 SING N N 64 
A1EMC C27 H31 SING N N 65 
A1EMC C29 H33 SING N N 66 
A1EMC C29 H32 SING N N 67 
A1EMC C30 H34 SING N N 68 
A1EMC C32 H36 SING N N 69 
A1EMC C32 H37 SING N N 70 
A1EMC C32 H35 SING N N 71 
A1EMC C33 H40 SING N N 72 
A1EMC C33 H38 SING N N 73 
A1EMC C33 H39 SING N N 74 
A1EMC O05 H41 SING N N 75 
A1EMC O13 H42 SING N N 76 
# 
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 
A1EMC InChI            InChI                1.06  "InChI=1S/C31H42O2/c1-22(2)12-9-13-23(3)14-10-15-24(4)16-11-17-25(5)20-21-27-26(6)30(32)28-18-7-8-19-29(28)31(27)33/h7-8,12,14,16,18-20,32-33H,9-11,13,15,17,21H2,1-6H3/b23-14+,24-16+,25-20+" 
A1EMC InChIKey         InChI                1.06  NIOZAZRLJCBEGX-GHDNBGIDSA-N                                                                                                                                                                    
A1EMC SMILES_CANONICAL CACTVS               3.385 "CC(C)=CCC/C(C)=C/CCC(/C)=C/CCC(/C)=C/Cc1c(C)c(O)c2ccccc2c1O"                                                                                                                                  
A1EMC SMILES           CACTVS               3.385 "CC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCc1c(C)c(O)c2ccccc2c1O"                                                                                                                                        
A1EMC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c2ccccc2c1O)O)C/C=C(\C)/CC/C=C(\C)/CC/C=C(\C)/CCC=C(C)C"                                                                                                                               
A1EMC SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c2ccccc2c1O)O)CC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)C"                                                                                                                                        
# 
_pdbx_chem_comp_identifier.comp_id           A1EMC 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "2-methyl-3-[(2~{E},6~{E},10~{E})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenyl]naphthalene-1,4-diol" 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 A1EMC Menahydroquinone-4 PUBCHEM ? 
2 A1EMC Menaquinol-4       PUBCHEM ? 
3 A1EMC "Mkh-4 cpd"        PUBCHEM ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
A1EMC "Create component" 2025-02-21 PDBC 
A1EMC "Initial release"  2025-10-08 RCSB 
# 
