Pseudomonas aeruginosa PAO1, PA1121 (yfiR)

Gene Feature Overview

Strain	Pseudomonas aeruginosa PAO1 (Stover et al., 2000) GCF_000006765.1|latest
Locus Tag	PA1121
Name	yfiR
Replicon	chromosome
Genomic location	1214502 - 1215074 (- strand)
Transposon Mutants	1 transposon mutants in PAO1
Transposon Mutants in orthologs	2 transposon mutants in orthologs

Cross-References

RefSeq	NP_249812.1
GI	15596318
Affymetrix	PA1121_at
DNASU	PaCD00006517
Entrez	877671
GenBank	AAG04510.1
INSDC	AAG04510.1
NCBI Locus Tag	PA1121
protein_id(GenBank)	gb|AAG04510.1|AE004542_6|gnl|PseudoCAP|PA1121
TIGR	NTL03PA01122
UniParc	UPI00000C525C
UniProtKB Acc	Q9I4L4
UniProtKB ID	Q9I4L4_PSEAE
UniRef100	UniRef100_Q9I4L4
UniRef50	UniRef50_W0YNF8
UniRef90	UniRef90_W0YNF8

Product

Feature Type	CDS
Coding Frame	1
Product Name	YfiR Product Name Confidence: Class 1
Synonyms
Evidence for Translation	Identified using nanoflow high-pressure liquid chromatography (HPLC) in conjunction with microelectrospray ionization on LTQ XL mass spectrometer (PMID:24291602).
Charge (pH 7)	4.53
Kyte-Doolittle Hydrophobicity Value	0.040
Molecular Weight (kDa)	20.7
Isoelectric Point (pI)	8.61

Subcellular localization

Individual Mappings	Localization Confidence PMID Periplasmic Class 3 20472543 Periplasmic 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
4YNA	TRANSCRIPTION	03/09/15	Oxidized YfiR	Pseudomonas aeruginosa PAO1	3.2	X-RAY DIFFRACTION	99.4
5EB3	TRANSCRIPTION	10/17/15	VB6-bound protein	Pseudomonas aeruginosa PAO1	2.4	X-RAY DIFFRACTION	99.4
4YN7	TRANSCRIPTION	03/09/15	Non-oxidized YfiR	Pseudomonas aeruginosa PAO1	2.6	X-RAY DIFFRACTION	99.4
5Y62	SIGNALING PROTEIN	08/10/17	YfiR complexed with GMP	Pseudomonas aeruginosa	3	X-RAY DIFFRACTION	99.4
5EB2	TRANSCRIPTION	10/17/15	Trp-bound YfiR	Pseudomonas aeruginosa PAO1	2.709	X-RAY DIFFRACTION	99.4
5EB1	MEMBRANE PROTEIN/TRANSCRIPTION	10/17/15	the YfiB-YfiR complex	Pseudomonas aeruginosa PAO1	1.8	X-RAY DIFFRACTION	99.4
4ZHU	TRANSCRIPTION	04/27/15	Crystal structure of a bacterial repressor protein	Pseudomonas aeruginosa PAO1	2.3968	X-RAY DIFFRACTION	100.0
4XJY	SIGNALING PROTEIN	01/09/15	Periplasmic repressor protein YfiR	Pseudomonas aeruginosa PAO1	1.8	X-RAY DIFFRACTION	100.0
6IKK	SIGNALING PROTEIN	10/16/18	Crystal structure of YfiB(L43P) in complex with YfiR	Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)	2.19	X-RAY DIFFRACTION	100.0
5Y61	SIGNALING PROTEIN	08/10/17	YfiB-YfiR complexed with GMP	Pseudomonas aeruginosa	2.99	X-RAY DIFFRACTION	99.4
4ZHY	TRANSCRIPTION/SIGNALING PROTEIN	04/27/15	Crystal structure of a bacterial signalling complex	Pseudomonas aeruginosa PAO1	1.969	X-RAY DIFFRACTION	99.5

Pathogen Association Analysis

Results

Common Found in both pathogen and nonpathogenic strains Hits to this gene were found in 38 genera

Orthologs/Comparative Genomics

Pseudomonas Ortholog Database	View orthologs at Pseudomonas Ortholog Database
Pseudomonas Ortholog Group	POG001081 (444 members)
Putative Inparalogs	None Found

Interactions

STRING database

Search for predicted protein-protein interactions using: Search term: PA1121 Search term: yfiR Search term: YfiR

Human Homologs

References

Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen. Lewenza S, Gardy JL, Brinkman FS, Hancock RE Genome Res 2005 Feb;15(2):321-9 PubMed ID: 15687295

YfiBNR mediates cyclic di-GMP dependent small colony variant formation and persistence in Pseudomonas aeruginosa. Malone JG, Jaeger T, Spangler C, Ritz D, Spang A, Arrieumerlou C, Kaever V, Landmann R, Jenal U PLoS Pathog 2010 Mar 12;6(3):e1000804 PubMed ID: 20300602