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Product(s) |

Expression|

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Standard Name	yfaL
Gene Synonym(s)	ECK2225, b2233, JW2227, yfaF, yfaJ, yfaK^[1], yfaK
Product Desc.	potential adhesin^[2]^[3] Probable OM autotransporter adhesin, function unknown; overexpression increases adhesion and biofilm formation^[4]
Product Synonyms(s)	adhesin^[1], B2233^[2]^[1], YfaJ^[2]^[1], YfaK^[2]^[1], YfaF^[2]^[1], YfaL^[2]^[1] , ECK2225, JW2227, yfaF, yfaJ, yfaK, b2233
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yfaL^[2]
Regulation/Activity
Quick Links
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Notes

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Apparently cleaved fragment that may be a C-terminal passenger domain has been observed in a Western blot (Marani, 2006). AidA homolog.^[4]

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	yfaL
Mnemonic	Systematic nomenclature
Synonyms	ECK2225, b2233, JW2227, yfaF, yfaJ, yfaK^[1], yfaK
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	50.4 minutes, 50.4 minutes	MG1655: 2342191..2338439 <gbrowseImage> name=NC_000913:2338439..2342191 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2290869..2287117 <gbrowseImage> name=NC_012967:2287117..2290869 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2224244..2227996 <gbrowseImage> name=NC_012759:2224244..2227996 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2348839..2345087 <gbrowseImage> name=NC_007779:2345087..2348839 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2433179..2429427 <gbrowseImage> name=NC_010473:2429427..2433179 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔyfaL (Keio:JW2227)	deletion	deletion			PMID:16738554	Shigen CGSC9796^[5]
yfaL::Tn5KAN-I-SceI (FB20718)	Insertion at nt 2291 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20718	contains pKD46
ΔyfaL::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
zfa-723::Tn10	Insertion at 2,341,774 bp in MG1655 (NC_000913)				adapted from Nichols et al.^[6]	CAG12178 gyrA = CGSC7526^[5]	Synonyms: zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).
ΔyfaL786::kan					PMID:16738554	CGSC:104616
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW2227	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCGGATTATCTTTCTACGCAA Primer 2:CCCCATTTCACCGTCATCGACAA
E13A5	Kohara Phage	Genobase	PMID:3038334
2E8	Kohara Phage	Genobase	PMID:3038334
atoS298::Tn10	Linked marker	CAG12177 gyrA+ = CGSC7525^[5]	est. P1 cotransduction: 51% ^[6] Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).
zfb-223::Tn10	Linked marker	CAG18484 = CGSC7406^[5]	est. P1 cotransduction: 9% ^[6] Synonyms:zej-223::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG12850	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12850	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002399	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946595	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2695	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007377	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	YfaL
Synonyms	adhesin^[1], B2233^[2]^[1], YfaJ^[2]^[1], YfaK^[2]^[1], YfaF^[2]^[1], YfaL^[2]^[1] , ECK2225, JW2227, yfaF, yfaJ, yfaK, b2233
Product description	potential adhesin^[2]^[3] Probable OM autotransporter adhesin, function unknown; overexpression increases adhesion and biofilm formation^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0019867	outer membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006315	C	Seeded from EcoCyc (v14.0)	complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	metL	PMID:16606699	Experiment(s):EBI-1142273
Protein	alaS	PMID:16606699	Experiment(s):EBI-1142273
Protein	clpB	PMID:16606699	Experiment(s):EBI-1142273
Protein	mukB	PMID:16606699	Experiment(s):EBI-1142273
Protein	rpsB	PMID:16606699	Experiment(s):EBI-1142273
Protein	rplF	PMID:16606699	Experiment(s):EBI-1142273
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MRIIFLRKEY LSLLPSMIAS LFSANGVAAV TDSCQGYDVK ASCQASRQSL SGITQDWSIA DGQWLVFSDM TNNASGGAVF LQQGAEFSLL PENETGMTLF ANNTVTGEYN NGGAIFAKEN STLNLTDVIF SGNVAGGYGG AIYSSGTNDT GAVDLRVTNA MFRNNIANDG KGGAIYTINN DVYLSDVIFD NNQAYTSTSY SDGDGGAIDV TDNNSDSKHP SGYTIVNNTA FTNNTAEGYG GAIYTNSVTA PYLIDISVDD SYSQNGGVLV DENNSAAGYG DGPSSAAGGF MYLGLSEVTF DIADGKTLVI GNTENDGAVD SIAGTGLITK TGSGDLVLNA DNNDFTGEMQ IENGEVTLGR SNSLMNVGDT HCQDDPQDCY GLTIGSIDQY QNQAELNVGS TQQTFVHALT GFQNGTLNID AGGNVTVNQG SFAGIIEGAG QLTIAQNGSY VLAGAQSMAL TGDIVVDDGA VLSLEGDAAD LTALQDDPQS IVLNGGVLDL SDFSTWQSGT SYNDGLEVSG SSGTVIGSQD VVDLAGGDNL HIGGDGKDGV YVVVDASDGQ VSLANNNSYL GTTQIASGTL MVSDNSQLGD THYNRQVIFT DKQQESVMEI TSDVDTRSDA AGHGRDIEMR ADGEVAVDAG VDTQWGALMA DSSGQHQDEG STLTKTGAGT LELTASGTTQ SAVRVEEGTL KGDVADILPY ASSLWVGDGA TFVTGADQDI QSIDAISSGT IDISDGTVLR LTGQDTSVAL NASLFNGDGT LVNATDGVTL TGELNTNLET DSLTYLSNVT VNGNLTNTSG AVSLQNGVAG DTLTVNGDYT GGGTLLLDSE LNGDDSVSDQ LVMNGNTAGN TTVVVNSITG IGEPTSTGIK VVDFAADPTQ FQNNAQFSLA GSGYVNMGAY DYTLVEDNND WYLRSQEVTP PSPPDPDPTP DPDPTPDPDP TPDPEPTPAY QPVLNAKVGG YLNNLRAANQ AFMMERRDHA GGDGQTLNLR VIGGDYHYTA AGQLAQHEDT STVQLSGDLF SGRWGTDGEW MLGIVGGYSD NQGDSRSNMT GTRADNQNHG YAVGLTSSWF QHGNQKQGAW LDSWLQYAWF SNDVSEQEDG TDHYHSSGII ASLEAGYQWL PGRGVVIEPQ AQVIYQGVQQ DDFTAANRAR VSQSQGDDIQ TRLGLHSEWR TAVHVIPTLD LNYYHDPHST EIEEDGSTIS DDAVKQRGEI KVGVTGNISQ RVSLRGSVAW QKGSDDFAQT AGFLSMTVKW
Length	1,250
Mol. Wt	131.151 kDa
pI	3.8 (calculated)
Extinction coefficient	150,580 - 151,080 (calc based on 42 Y, 16 W, and 4 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	Notes	References
motif	1-23	UniProt Manual:Signal Peptides	UniProt:P45508
Domain	982..1239	PF03797 Autotransporter beta-domain		PMID:19920124
Domain	127..145	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)		PMID:19920124
Domain	186..211	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)		PMID:19920124
Domain	222..246	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)		PMID:19920124
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=yfaL taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16130168	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946595	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007377	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P45508	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12850	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12850	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946595	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002399	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2695	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	E. coli K-12 MG1655	3	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	3	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
yfaL
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2342171..2342211 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b2233 (EcoliWiki Page)	NCBI GEO profiles for yfaL
microarray	GenExpDB:b2233 (EcoliWiki Page)	Summary of data for yfaL from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (2342090..2342947) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ18; Well:C4^[7]
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Notes

Accessions Related to yfaL Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG12850	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2695	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2233
EcoGene	EcoGene:EG12850	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002399	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007377	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Drosophila melanogaster	FBgn0029697 (score: 1.000; bootstrap: 100%) FBgn0038492 (score: 0.053)	From Inparanoid:20070104
E. coli O157	YFAL	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF03797 Autotransporter beta-domain
Pfam (EcoliWiki Page)	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)
Pfam (EcoliWiki Page)	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)
Pfam (EcoliWiki Page)	PF02415 Chlamydia polymorphic membrane protein (Chlamydia_PMP)
Superfamily (EcoliWiki Page)	SUPERFAMILY:51126
Superfamily (EcoliWiki Page)	SUPERFAMILY:51126
Superfamily (EcoliWiki Page)	SUPERFAMILY:103515
EcoCyc	EcoCyc:EG12850	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12850	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002399	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2695	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007377	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 ^1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 ^5.3 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 ^6.2 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

yfaL:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to yfaL Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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