Protein target profile

PA1161

rRNA methyltransferase

Genome: NC_002516.2

Gene: PA1161 rrmA 3D evidence: AlphaFold DB model UniProt Q9I4H6

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Length 267

Pocket druggability 0.694

EC / GO 0 / 3

Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

3 signals

Strengths

Risks / watch

No major risk signal surfaced in the loaded evidence.

Missing evidence

No metabolic context No SBML/network-derived reaction evidence is loaded for this protein. No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.

How to read this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal TPW pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Overview

Basic information about this protein and its source genome.

Accession: PA1161
Assembly: Pseudomonas aeruginosa PAO1, complete genome
Gene: PA1161 rrmA
Status: annotated
Amino acids: 267
3D evidence: AlphaFold DB model

GO:0046872 Binding to a metal ion. GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0032259 The process in which a methyl group is covalently attached to a molecule.

Target profile

Computed evidence for target prioritization.

Human off-target: No hit
Gut microbiome off-target: Hit
Essential (DEG): N
Localization: Cytoplasmic

Selected pocket evidence

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.694

Structure –

Pocket –

Sequence

Primary amino-acid sequence viewer.

MLICPLCSAALGEVDNGVACPAGHRFDRARQGYLNLLPVQHKKSLDPGDNAAMVEARRQFLGAGHYAPLARRLAELAAERAPRRWLDIGCGEGYYSARLGEALAGAEGYALDISREAVKRACRRAPQLSWLVASMARLPLADASCELIASVFSPIDWNEAVRILSPGGGVLRLGPASAHLLELRQRLYDDVRDYADDKHLAGLPAQLRLRHTETLEFRLALDSYDARENLLAMTPHGWRVNPERRARILAEPFEVSVAVRYDWLQRD

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

GO:0046872 Binding to a metal ion.
GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
GO:0032259 The process in which a methyl group is covalently attached to a molecule.

Sequence Features

Domain/signature hits from InterPro and related databases.

10 records

Show feature table

Start	End	DB	Term	Name
84	168	CDD	cd02440	AdoMet_MTases
1	267	PIRSF	PIRSF018249	MyrA
1	267	InterPro	IPR016718	rRNA (guanine-N1-)-methyltransferase A, predicted
81	239	PANTHER	PTHR43460	METHYLTRANSFERASE
86	168	Pfam	PF13649	Methyltransferase domain
86	168	InterPro	IPR041698	Methyltransferase domain 25
1	266	Gene3D	G3DSA:3.40.50.150	Vaccinia Virus protein VP39
1	266	InterPro	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily
1	249	SUPERFAMILY	SSF53335	S-adenosyl-L-methionine-dependent methyltransferases
1	249	InterPro	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

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Structural evidence

0 + 1

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry	Method	Resolution	Chain	Coverage	Links	Status
AlphaFold DB PA1161	AlphaFold DB	—	—	full sequence	—	Viewing

Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · FPocket

Druggability: high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Site 1 FPocket #1

0.694

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Site 2 FPocket #2

0.296

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