4194 Prenyltransferase-like
Ligands and drugs
Aggregated over all current member domains of this group. Drug annotations come from DrugDomain; buffers and crystallization additives are excluded from the tables below.
Chemical profile
ClassyFire chemical superclasses of the ligands bound by this X-group's proteins, from DrugDomain annotations.
The raw number of superclasses rises with the number of proteins sampled; the per-20 value compares X-groups at equal depth.
| Superclass | Proteins | Expected | 0.25×observed / expected4× | Ratio | Significance |
|---|---|---|---|---|---|
| Homogeneous metal compounds | 9 | 10.7 | 0.84× | q = 0.61 | |
| Nucleosides, nucleotides, and analogues | 0 | 6.0 | 0 | q = 3.1e-3 | |
| Alkaloids and derivatives | 1 | 0.1 | 14× | not tested | |
| Organic acids and derivatives | 15 | 3.4 | 4.47× | not tested | |
| Phenylpropanoids and polyketides | 2 | 0.5 | 4.43× | not tested | |
| Lipids and lipid-like molecules | 7 | 2.4 | 2.90× | not tested | |
| Organoheterocyclic compounds | 9 | 3.3 | 2.70× | not tested | |
| Homogeneous non-metal compounds | 8 | 4.7 | 1.71× | not tested | |
| Organic nitrogen compounds | 1 | 0.7 | 1.45× | not tested | |
| Benzenoids | 2 | 1.6 | 1.26× | not tested | |
| Organic oxygen compounds | 1 | 4.3 | 0.23× | not tested |
Unit: a protein (UniProt accession) with a ligand-binding domain in this X-group, counted once per superclass. Expected counts use each superclass's frequency across all ligand-binding X-groups; significance is Fisher's exact test with Benjamini–Hochberg correction. Buffers and crystallization additives are excluded. ECOD v295.2; the method follows the ECOD 2027 update, whose published figures used a slightly different artifact filter.
DrugBank compounds
| DrugBank | PDB ligand | Name | Domains |
|---|---|---|---|
| DB02270 | DST | Dimethylallyl S-Thiolodiphosphate | 57 |
| DB00150 | TRP | Tryptophan | 24 |
| DB02423 | PIS | Thiopyrophosphate | 21 |
| DB04702 | GST | S-[(2E)-3,7-DIMETHYLOCTA-2,6-DIENYL] TRIHYDROGENTHIODIPHOSPHATE | 17 |
| DB01785 | DMA | Dimethylallyl Diphosphate | 3 |
| DB02552 | GPP | Geranyl Diphosphate | 3 |
| DB00135 | TYR | Tyrosine | 2 |
| DB02676 | B3P | 2-[3-(2-Hydroxy-1,1-Dihydroxymethyl-Ethylamino)-Propylamino]-2-Hydroxymethyl-Propane-1,3-Diol | 2 |
| DB03793 | BEZ | Benzoic acid | 2 |
| DB00134 | MET | Methionine | 1 |
| DB01645 | GEN | Genistein | 1 |
| DB02521 | FLV | Flaviolin | 1 |
| DB04160 | PPV | Pyrophosphoric acid | 1 |
| DB04447 | DTT | 1,4-Dithiothreitol | 1 |
| DB07661 | DIN | 1,6-Naphthalenediol | 1 |
Most frequently bound compounds
| PDB ligand | Name | Domains in contact |
|---|---|---|
| DST | DIMETHYLALLYL S-THIOLODIPHOSPHATE | 65 |
| MGmetal | MAGNESIUM ION | 26 |
| PIS | TRIHYDROGEN THIODIPHOSPHATE | 25 |
| QRP | (3S,8aS)-3-(1H-indol-3-ylmethyl)hexahydropyrrolo[1,2-a]pyrazine-1,4-dione | 25 |
| NAmetal | SODIUM ION | 22 |
| TRP | TRYPTOPHAN | 22 |
| GST | GERANYL S-THIOLODIPHOSPHATE | 17 |
| CL | CHLORIDE ION | 12 |
| 6C7 | S-(3-methylbut-2-en-1-yl) trihydrogen thiodiphosphate | 6 |
| 8XL | 3-[(Z)-2-isocyanoethenyl]-1H-indole | 5 |
| A1LYE | (3~{S},6~{S})-3-(1~{H}-imidazol-4-ylmethyl)-6-propan-2-yl-piperazine-2,5-dione | 4 |
| A1LYF | (3~{Z},6~{S})-3-(1~{H}-imidazol-4-ylmethylidene)-6-propan-2-yl-piperazine-2,5-dione | 4 |
| DMA | DIMETHYLALLYL DIPHOSPHATE | 3 |
| GPP | GERANYL DIPHOSPHATE | 3 |
| PPV | PYROPHOSPHATE | 3 |
| XBU | methyl (2~{R})-3-(4-hydroxyphenyl)-2-[(4-hydroxyphenyl)methyl]-4-oxidanyl-5-oxidanylidene-furan-2-carboxylate | 3 |
| 0MV | (3S)-3-(1H-indol-3-ylmethyl)-3,4-dihydro-1H-1,4-benzodiazepine-2,5-dione | 2 |
| 34H | (2R)-2-HYDROXY-3-(4-HYDROXYPHENYL)PROPANOIC ACID | 2 |
| 8O0 | Hapalindole A | 2 |
| 8P6 | Hapalindole U | 2 |