Pseudomonas aeruginosa PAO1, PA4239 (rpsD)

Gene Feature Overview

Strain	Pseudomonas aeruginosa PAO1 (Stover et al., 2000) GCF_000006765.1|latest
Locus Tag	PA4239
Name	rpsD
Replicon	chromosome
Genomic location	4755447 - 4756067 (- strand)
Transposon Mutants in orthologs	1 transposon mutants in orthologs

Cross-References

RefSeq	NP_252929.1
GI	15599435
Affymetrix	PA4239_rpsD_at
DNASU	PaCD00007838
Entrez	881814
GenBank	AAG07627.1
INSDC	AAC03115.1
NCBI Locus Tag	PA4239
protein_id(GenBank)	gb|AAG07627.1|AE004841_5|gnl|PseudoCAP|PA4239
TIGR	NTL03PA04240
UniParc	UPI0000135015
UniProtKB Acc	O52759
UniProtKB ID	RS4_PSEAE
UniRef100	UniRef100_B7V667
UniRef50	UniRef50_P44373
UniRef90	UniRef90_A6UZL2

Product

Feature Type	CDS
Coding Frame	1
Product Name	30S ribosomal protein S4 Product Name Confidence: Class 2
Synonyms
Evidence for Translation	Identified using nanoflow high-pressure liquid chromatography (HPLC) in conjunction with microelectrospray ionization on LTQ XL mass spectrometer (PMID:24291602). Detected using LC-MS/MS (23.28 kDa, PMID:21751344)
Charge (pH 7)	16.35
Kyte-Doolittle Hydrophobicity Value	-0.677
Molecular Weight (kDa)	23.3
Isoelectric Point (pI)	10.48

Subcellular localization

Individual Mappings	Localization Confidence PMID Cytoplasmic Class 3 20472543 Outer Membrane Vesicle Class 1
Additional evidence for subcellular localization

AlphaFold 2 Protein Structure Predictions

Protein structure predictions using a neural network model developed by DeepMind. If a UniProtKB accession is associated with this protein, a search link will be provided below.

Look for predicted 3D structure in AlphaFold DB: Search

PDB 3D Structures

Accession	Header	Accession Date	Compound	Source	Resolution	Method	Percent Identity
6SPF	RIBOSOME	09/01/19	Pseudomonas aeruginosa 70s ribosome from an aminoglycoside resistant clinical isolate	Pseudomonas aeruginosa	2.89	ELECTRON MICROSCOPY	100.0
6SPE	RIBOSOME	09/01/19	Pseudomonas aeruginosa 30s ribosome from a clinical isolate	Pseudomonas aeruginosa	3.6	ELECTRON MICROSCOPY	100.0
7UNU	RIBOSOME	04/11/22	Pseudomonas aeruginosa 70S ribosome initiation complex bound to compact IF2-GDP (composite structure I-B)	Escherichia coli; Pseudomonas aeruginosa PAO1; SYNTHETIC CONSTRUCT	2.9	ELECTRON MICROSCOPY	100.0
6SPG	RIBOSOME	09/01/19	Pseudomonas aeruginosa 70s ribosome from a clinical isolate	Pseudomonas aeruginosa	3.34	ELECTRON MICROSCOPY	100.0
7UNW	RIBOSOME	04/11/22	Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-B)	Escherichia coli; Pseudomonas aeruginosa PAO1; SYNTHETIC CONSTRUCT	2.6	ELECTRON MICROSCOPY	100.0
7UNR	RIBOSOME	04/11/22	Pseudomonas aeruginosa 70S ribosome initiation complex bound to compact IF2-GDP (composite structure I-A)	Escherichia coli; Pseudomonas aeruginosa PAO1; SYNTHETIC CONSTRUCT	2.9	ELECTRON MICROSCOPY	100.0
6SPC	RIBOSOME	09/01/19	Pseudomonas aeruginosa 30s ribosome from an aminoglycoside resistant clinical isolate	Pseudomonas aeruginosa	2.95	ELECTRON MICROSCOPY	100.0
7UNV	RIBOSOME	04/11/22	Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-A)	Escherichia coli; Pseudomonas aeruginosa PAO1; SYNTHETIC CONSTRUCT	2.7	ELECTRON MICROSCOPY	100.0

Drugs Targeting this Protein

Identified by Diamond using e-value cutoff of 0.0001 and returning alignments that span 100% of the query sequence and that have more than 95% identity.

Drug Name	Source Accession	Source DB	Version	Target Accession	Target Description	Percent Identity	Alignment Length	E-Value
2-METHYLTHIO-N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE	DB08185	DrugBank	5.1.4	P80373	30S ribosomal protein S4	52.9	210	6.3e-52

Pathogen Association Analysis

Results

Common Found in both pathogen and nonpathogenic strains Hits to this gene were found in 611 genera

Orthologs/Comparative Genomics

Pseudomonas Ortholog Database	View orthologs at Pseudomonas Ortholog Database
Pseudomonas Ortholog Group	POG001471 (536 members)
Putative Inparalogs	None Found

Interactions

STRING database

Search for predicted protein-protein interactions using: Search term: PA4239 Search term: rpsD Search term: 30S ribosomal protein S4

Human Homologs

References

Regulation of alpha operon gene expression in Escherichia coli. A novel form of translational coupling. Thomas MS, Bedwell DM, Nomura M J Mol Biol 1987 Jul 20;196(2):333-45 PubMed ID: 3309351

Mutations in ribosomal proteins S4 and S12 influence the higher order structure of 16 S ribosomal RNA. Allen PN, Noller HF J Mol Biol 1989 Aug 5;208(3):457-68 PubMed ID: 2477554

Proteomic analysis of outer membrane vesicles derived from Pseudomonas aeruginosa. Choi DS, Kim DK, Choi SJ, Lee J, Choi JP, Rho S, Park SH, Kim YK, Hwang D, Gho YS Proteomics 2011 Aug;11(16):3424-9 PubMed ID: 21751344