Overview
Basic information about this protein and its source genome.
- Accession
- PA5569
- Gene
- PA5569 rnpA
- Status
- annotated
- Amino acids
- 135
- Structure source
- AlphaFold
Target profile
Computed evidence for target prioritization.
- Human off-target
- No hit
- Gut microbiome off-target
- hit
- Essential (DEG)
- Y
- Localization
- Cytoplasmic
Selected Druggability evidence
Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.
Sequence
Primary amino-acid sequence viewer.
Functional Annotations
Enzyme classification and Gene Ontology terms linked to this protein.
Enzyme Commission (EC)
1Gene Ontology (GO)
7- GO:0030677 A ribonucleoprotein complex that catalyzes cleavage of the leader sequence of precursor tRNAs (pre-tRNAs), generating the mature 5' end of tRNAs.
- GO:0042781 Catalysis of the endonucleolytic cleavage of RNA, removing extra 3' nucleotides from tRNA precursor, generating 3' termini of tRNAs. A 3'-hydroxy group is left at the tRNA terminus and a 5'-phosphoryl group is left at the trailer molecule.
- GO:0004526 Catalysis of the endonucleolytic cleavage of RNA, removing 5' extra nucleotides from tRNA precursor.
- GO:0000049 Binding to a transfer RNA.
- GO:0042780 The process in which the 3' end of a pre-tRNA molecule is converted to that of a mature tRNA.
- GO:0001682 Generation of the mature 5'-end of the tRNA, usually via an endonucleolytic cleavage by RNase P.
- GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
Sequence Features
Domain/signature hits from InterPro and related databases.
Show feature table
| Start | End | DB | Term | Name |
|---|---|---|---|---|
| 6 | 115 | SUPERFAMILY | SSF54211 | Ribosomal protein S5 domain 2-like |
| 6 | 115 | InterPro | IPR020568 | Ribosomal protein S5 domain 2-type fold |
| 57 | 71 | ProSitePatterns | PS00648 | Bacterial ribonuclease P protein component signature. |
| 57 | 71 | InterPro | IPR020539 | Ribonuclease P, conserved site |
| 1 | 118 | FunFam | G3DSA:3.30.230.10:FF:000105 | Ribonuclease P protein component |
| 6 | 116 | Hamap | MF_00227 | Ribonuclease P protein component [rnpA]. |
| 6 | 116 | InterPro | IPR000100 | Ribonuclease P |
| 10 | 113 | NCBIfam | TIGR00188 | ribonuclease P protein component, bacterial type |
| 10 | 113 | InterPro | IPR000100 | Ribonuclease P |
| 1 | 122 | PANTHER | PTHR33992 | RIBONUCLEASE P PROTEIN COMPONENT |
| 1 | 122 | InterPro | IPR000100 | Ribonuclease P |
| 1 | 118 | Gene3D | G3DSA:3.30.230.10 | - |
| 1 | 118 | InterPro | IPR014721 | Ribosomal protein S5 domain 2-type fold, subgroup |
| 6 | 113 | Pfam | PF00825 | Ribonuclease P |
| 6 | 113 | InterPro | IPR000100 | Ribonuclease P |
3D Structure
Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.
Loading 3D structure...
Structural evidence
0 + 1Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.
| Entry | Method | Resolution | Chain | Coverage | Links | Status |
|---|---|---|---|---|---|---|
|
AlphaFold
PA5569
|
AlphaFold | — | — | full sequence | — | Viewing |
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer
Pockets (FPOCKET)
Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).
| FPOCKET | Sticks | Spheres | Surfaces | Druggability | Labels | Zoom | Positions |
|---|---|---|---|---|---|---|---|
| 3 | 0.655 | ||||||
| 1 | 0.445 |
Ligand evidence
Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.
Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in TPW, use Open crystal to inspect it in the structure viewer.
No PDB structure with a co-crystallized ligand found for this exact protein.
Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.
| Ligand | Source crystal | UniProt (homolog) | MW · LogP · TPSA | Lipinski | PAINS | SMILES |
|---|---|---|---|---|---|---|
| PPV | P25814 | 178.0 Da LogP -0.81 TPSA 124.3 | ✓ Ro5 | ✓ Clean |
OP(=O)(O)OP(=O)(O)O
|
Experimental bioactivity from ChEMBL measured directly on this protein. Score = pchembl (−log Ki/IC₅₀; higher = more potent).
No ChEMBL bioactivity data found for this exact protein.
Bioactivity inferred from similar proteins in ChEMBL. Score = pchembl (−log Ki/IC₅₀; higher = more potent).
No ChEMBL hits found through similar proteins.
Proposed virtual-screening candidates from ZINC. Score = Tanimoto similarity to a known binder (0–1; higher = more similar).
| Ligand | Tanimoto | MW · LogP · TPSA | Lipinski | PAINS | SMILES |
|---|---|---|---|---|---|
| ZINC6827739 | 0.692 | 258.0 Da LogP -0.69 TPSA 170.8 | ✓ Ro5 | ✓ Clean |
O=P(O)(O)OP(=O)(O)OP(=O)(O)O
|
PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.