Protein profile

PA4583

hypothetical protein

Genome: NC_002516.2

Gene: PA4583 Structure source: AlphaFold UniProt Q9HVK1
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Amino acids 404
Annotations 8
Features 10
PDB binders 3
Druggability 0.785

Overview

Basic information about this protein and its source genome.

Accession
PA4583
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA4583
Status
annotated
Amino acids
404
Structure source
AlphaFold
EC
6.5.1.8
GO
GO:0005525 Binding to GTP, guanosine triphosphate. GO:0046872 Binding to a metal ion. GO:0170057 Catalysis of the joining of an RNA with 3'-phosphate or 2',3'-cyclic-phosphate ends to an RNA with 5'-hydroxy ends according to either (i) a 3'-end 3'-phospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP; or (ii) a 3'-end 2',3'-cyclophospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP + H2O = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP + H+. GO:0006281 The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway. GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules. GO:0042245 Any process that results in the repair of damaged RNA.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
27.111
Human E-value
5.53e-29
Gut microbiome off-target
hit
Essential (DEG)
N
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.

FPocket 0.785
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0005525 Binding to GTP, guanosine triphosphate.
  • GO:0046872 Binding to a metal ion.
  • GO:0170057 Catalysis of the joining of an RNA with 3'-phosphate or 2',3'-cyclic-phosphate ends to an RNA with 5'-hydroxy ends according to either (i) a 3'-end 3'-phospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP; or (ii) a 3'-end 2',3'-cyclophospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP + H2O = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP + H+.
  • GO:0006281 The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
  • GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
  • GO:0042245 Any process that results in the repair of damaged RNA.
  • GO:0008452 Catalysis of the formation of a phosphodiester bond between a hydroxyl group at the end of one RNA chain and the phosphate group at the end of another.

Sequence Features

Domain/signature hits from InterPro and related databases.

10 records
Show feature table
Start End DB Term Name
7 404 SUPERFAMILY SSF103365 Hypothetical protein PH1602
7 404 InterPro IPR036025 tRNA-splicing ligase RtcB-like superfamily
31 404 Pfam PF01139 tRNA-splicing ligase RtcB
31 404 InterPro IPR001233 RNA-splicing ligase, RtcB
31 60 ProSitePatterns PS01288 Uncharacterized protein family UPF0027 signature.
31 60 InterPro IPR001233 RNA-splicing ligase, RtcB
11 404 FunFam G3DSA:3.90.1860.10:FF:000002 RNA-splicing ligase RtcB
6 404 PANTHER PTHR43749 RNA-SPLICING LIGASE RTCB
16 404 Gene3D G3DSA:3.90.1860.10 -
16 404 InterPro IPR036025 tRNA-splicing ligase RtcB-like superfamily

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

0 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA4583
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
5 0.785

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.

53 records

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.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
5GP
4DWQ
O59245 363.2 Da LogP -2.57 TPSA 206.0 1 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O…
MLI
4DWQ
O59245 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
POP
4DWQ
O59245 176.0 Da LogP -2.08 TPSA 129.9 ✓ Ro5 ✓ Clean O[P@@](=O)([O-])O[P@@](=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.