Protein profile

PA4951

oligoribonuclease

Genome: NC_002516.2

Gene: orn PA4951 Structure source: Experimental + AlphaFold UniProt P57665
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Amino acids 180
Annotations 5
Features 15
PDB binders 3
Druggability 0.41

Overview

Basic information about this protein and its source genome.

Accession
PA4951
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
orn PA4951
Status
annotated
Amino acids
180
Structure source
Experimental + AlphaFold
EC
3.1.15.-
GO
GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0000175 Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule. GO:0003676 Binding to a nucleic acid. GO:0006259 Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
65.789
Human E-value
4.77e-12
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.

FPocket 0.41
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0000175 Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0006259 Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
55 173 PANTHER PTHR11046 OLIGORIBONUCLEASE, MITOCHONDRIAL
55 173 InterPro IPR022894 Oligoribonuclease
2 179 SUPERFAMILY SSF53098 Ribonuclease H-like
2 179 InterPro IPR012337 Ribonuclease H-like superfamily
6 179 SMART SM00479 exoiiiendus
6 179 InterPro IPR013520 Exonuclease, RNase T/DNA polymerase III
1 180 FunFam G3DSA:3.30.420.10:FF:000003 Oligoribonuclease
1 180 Gene3D G3DSA:3.30.420.10 -
1 180 InterPro IPR036397 Ribonuclease H superfamily
2 180 Hamap MF_00045 Oligoribonuclease [orn].
2 180 InterPro IPR022894 Oligoribonuclease
7 178 CDD cd06135 Orn
7 178 InterPro IPR022894 Oligoribonuclease
8 169 Pfam PF00929 Exonuclease
8 169 InterPro IPR013520 Exonuclease, RNase T/DNA polymerase III

3D Structure

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

3D visualization script Full viewer

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Structural evidence

4 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 7VA3
X-ray 1.80 Å A,B
100.0% 1-180
PDBe RCSB PDBj File
Viewing
PDB 7V9Z
X-ray 1.85 Å A,B
100.0% 1-180
PDBe RCSB PDBj File
Loaded
PDB 7VA6
X-ray 2.10 Å A,B
100.0% 1-180
PDBe RCSB PDBj File
Loaded
PDB 7VA2
X-ray 2.30 Å A,B
100.0% 1-180
PDBe RCSB PDBj File
Loaded
AlphaFold PA4951
AlphaFold — — full sequence — Loaded
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
1 0.41

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 2.26 0.056

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
9RC
6A4D
Q47VZ4 443.3 Da LogP 0.60 TPSA 183.2 ✓ Ro5 ✓ Clean CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O…
FLC
1YTA
P0A784 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
MLI
6N6I
Q9Y3B8 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=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.