Protein profile

PA1839

RNA methyltransferase

Genome: NC_002516.2

Gene: PA1839 Structure source: AlphaFold UniProt Q9I2Q6
Export view
Amino acids 346
Annotations 10
Features 17
PDB binders 1
Druggability 0.754

Overview

Basic information about this protein and its source genome.

Accession
PA1839
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA1839
Status
annotated
Amino acids
346
Structure source
AlphaFold
EC
2.1.1.-
GO
GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands. GO:0046872 Binding to a metal ion. GO:0008173 Catalysis of the transfer of a methyl group from a donor to a nucleoside residue in an RNA molecule. GO:0070475 The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule. GO:0030488 The posttranscriptional addition of methyl groups to specific residues in a tRNA molecule.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
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 0.754
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

MRSQDLHQRLADLGAKPLHCGRIVRAWLQGRALDACTARQRAEDFLPLGVRHGLPQVAAELEGIARLHSEHPASDGSSRLLVELADRQMVESVLLPRGGLCVSTQVGCAVGCVFCMTGRSGLLRQVGSLEMVAQVVLARRRRAVKKVVFMGMGEPAHNLDNVLEAIDLLGTDGGIGHKNLVFSTVGDPRVFERLPRQRVKPALALSLHSTRAELRRQLLPKAPPLSPEELVEAGEAYARRVDYPIQYQWTLLEGINDSLEEMDGILRLLKGRFAVMNLIPYNSMDGDAYRRPSGERIVELVRYLHSRGVLTKVRNSAGQDIDGGCGQLRARATQGTAERRIPARQA

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

9
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0046872 Binding to a metal ion.
  • GO:0008173 Catalysis of the transfer of a methyl group from a donor to a nucleoside residue in an RNA molecule.
  • GO:0070475 The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule.
  • GO:0030488 The posttranscriptional addition of methyl groups to specific residues in a tRNA molecule.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
  • GO:0051536 Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
3 338 SFLD SFLDS00029 Radical SAM
3 338 InterPro IPR007197 Radical SAM
65 337 Gene3D G3DSA:3.20.20.70 Aldolase class I
65 337 InterPro IPR013785 Aldolase-type TIM barrel
65 337 FunFam G3DSA:3.20.20.70:FF:000315 Probable RNA methyltransferase PA14_40730
3 338 SFLD SFLDF00275 adenosine C2 methyltransferase (RlmN-like)
3 338 InterPro IPR004383 Ribosomal RNA large subunit methyltransferase RlmN/Cfr
1 346 PIRSF PIRSF006004 Cfr
1 346 InterPro IPR004383 Ribosomal RNA large subunit methyltransferase RlmN/Cfr
94 320 ProSiteProfiles PS51918 Radical SAM core domain profile.
94 320 InterPro IPR007197 Radical SAM
1 335 PANTHER PTHR30544 23S RRNA METHYLTRANSFERASE
1 335 InterPro IPR040072 Methyltransferase (Class A)
102 261 Pfam PF04055 Radical SAM superfamily
102 261 InterPro IPR007197 Radical SAM
100 303 SUPERFAMILY SSF102114 Radical SAM enzymes
107 307 CDD cd01335 Radical_SAM

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

Loading 3D structure...

Legend High Medium Low

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 PA1839
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
1 0.754

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.

51 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
5AD
5HR6
P36979 251.2 Da LogP -0.95 TPSA 119.3 ✓ Ro5 ✓ Clean C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)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.