372 RNase A-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 |
|---|---|---|---|---|---|
| Nucleosides, nucleotides, and analogues | 10 | 5.5 | 1.83× | q = 0.06 | |
| Homogeneous metal compounds | 10 | 9.7 | 1.03× | q = 1.00 | |
| Organic salts | 1 | 0.0 | 49× | not tested | |
| Organometallic compounds | 1 | 0.0 | 36× | not tested | |
| Organohalogen compounds | 1 | 0.1 | 18× | not tested | |
| Mixed metal/non-metal compounds | 2 | 0.4 | 4.83× | not tested | |
| Organic nitrogen compounds | 2 | 0.6 | 3.18× | not tested | |
| Homogeneous non-metal compounds | 8 | 4.2 | 1.89× | not tested | |
| Benzenoids | 2 | 1.4 | 1.39× | not tested | |
| Organoheterocyclic compounds | 4 | 3.0 | 1.32× | not tested | |
| Organic oxygen compounds | 5 | 3.9 | 1.27× | not tested | |
| Organic acids and derivatives | 3 | 3.1 | 0.98× | not tested | |
| Lipids and lipid-like molecules | 1 | 2.2 | 0.46× | 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 |
|---|---|---|---|
| DB01694 | TAR | D-tartaric acid | 13 |
| DB03685 | U5P | Uridine monophosphate | 12 |
| DB03326 | CGP | Deoxycytidylyl-3',5'-guanosine | 10 |
| DB01961 | C3P | Cytidine 3'-monophosphate | 9 |
| DB02714 | U3P | 3'-Uridinemonophosphate | 9 |
| DB09459 | TLA | L-tartaric acid | 9 |
| DB00131 | AMP | Adenosine phosphate | 7 |
| DB03512 | UVC | Uridine-2',3'-vanadate | 7 |
| DB02573 | CPA | 2'-deoxycytidine-2'-deoxyadenosine-3',5'-monophosphate | 6 |
| DB00171 | ATP | ATP | 5 |
| DB02098 | A2P | Adenosine-2'-5'-Diphosphate | 5 |
| DB03448 | UM3 | 2'-Deoxyuridine 3'-Monophosphate | 5 |
| DB04514 | U2G | Uridylyl-2'-5'-phospho-guanosine | 5 |
| DB01812 | A3P | Adenosine 3',5'-diphosphate | 4 |
| DB02805 | UA3 | Arabinouridine 3'-phosphate | 4 |
| DB03403 | C5P | Cytidine-5'-Monophosphate | 4 |
| DB03435 | UDP | Uridine-5'-Diphosphate | 4 |
| DB03798 | DCM | 2'-Deoxycytidine-5'-Monophosphate | 4 |
| DB03800 | UMP | Deoxyuridine monophosphate | 4 |
| DB03900 | TBU | tert-butanol | 4 |
Most frequently bound compounds
| PDB ligand | Name | Domains in contact |
|---|---|---|
| CL | CHLORIDE ION | 75 |
| NAmetal | SODIUM ION | 21 |
| PTmetal | PLATINUM (II) ION | 14 |
| TAR | D(-)-TARTARIC ACID | 13 |
| U5P | URIDINE-5'-MONOPHOSPHATE | 12 |
| AMP | ADENOSINE MONOPHOSPHATE | 10 |
| TLA | L(+)-TARTARIC ACID | 10 |
| CGP | 2'-DEOXYCYTIDINE-2'-DEOXYGUANOSINE-3',5'-MONOPHOSPHATE | 9 |
| F3I | (mi2-acetato-O, O')-hexaaquo-dirhodium (II) | 9 |
| ZNmetal | ZINC ION | 9 |
| C3P | CYTIDINE-3'-MONOPHOSPHATE | 8 |
| NH3 | AMMONIA | 8 |
| U3P | 3'-URIDINEMONOPHOSPHATE | 8 |
| DVT | DECAVANADATE | 6 |
| UVC | URIDINE-2',3'-VANADATE | 6 |
| ATP | ADENOSINE-5'-TRIPHOSPHATE | 5 |
| CPA | 2'-DEOXYCYTIDINE-2'-DEOXYADENOSINE-3',5'-MONOPHOSPHATE | 5 |
| D1O | tri-(mi2-acetato-(O, O')-diaqua-dirhodium(II, II) | 5 |
| VVU | dirhodium (II) tetraacetate | 5 |
| 9Q8 | tris(oxidaniumylidynemethyl)-tris(oxidanyl)ruthenium | 4 |