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Gene |

Product(s) |

Expression|

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Standard Name	secY
Gene Synonym(s)	ECK3287, b3300, JW3262, prlA^[1], prlA
Product Desc.	SecY^[2]^[3]; Component of SecEGY-Secretion Complex^[2]^[3]; Sec Protein Secretion Complex^[2]^[3] SecYE core translocon, protein export inner membrane pore protein^[4]
Product Synonyms(s)	preprotein translocase membrane subunit^[1], B3300^[2]^[1], SecY^[2]^[1], PrlA^[2]^[1] , ECK3287, JW3262, prlA, b3300
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rplNXE-rpsNH-rplFR-rpsE-rpmD-rplO-secY-rpmJ^[2], rplNXE-rpsNH-rplFR-rpsE-rpmD-rplO-prlA-rpmJ
Regulation/Activity
Quick Links
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Notes

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SecYEG complex interacts with SecDFyajC to form a hexameric holocomplex. N-terminus is blocked. Overexpression causes a decrease in the amount of biofilm formed and decreases motility.^[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	secY
Mnemonic	Secretory
Synonyms	ECK3287, b3300, JW3262, prlA^[1], prlA
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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	74.16 minutes	MG1655: 3442119..3440788 <gbrowseImage> name=NC_000913:3440788..3442119 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3370671..3372002 <gbrowseImage> name=NC_012967:3370671..3372002 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3327945..3329276 <gbrowseImage> name=NC_012759:3327945..3329276 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4196319..4197650 <gbrowseImage> name=NC_007779:4196319..4197650 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3539864..3538533 <gbrowseImage> name=NC_010473:3538533..3539864 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	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
secYI290T	I290T		In secY121; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secYP40S	P40S		In secY100; temperature-sensitive			seeded from UniProt:P0AGA2
secYR357H	R357H		In secY39; cold-sensitive			seeded from UniProt:P0AGA2
secYF67C	F67C		In prlA3; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secYG167E	G167E		In secY100; temperature-sensitive			seeded from UniProt:P0AGA2
secYG240D	G240D		In secY24; temperature-sensitive			seeded from UniProt:P0AGA2
secYS282R	S282R		In prlA401; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secYF286Y	F286Y		In prlA4-1; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secYP287L	P287L		In secY161; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secYA363S	A363S		In secY40; cold-sensitive			seeded from UniProt:P0AGA2
secYI408N	I408N		In prlA4-2; alterated signal sequence interaction			seeded from UniProt:P0AGA2
secY*
secY24(ts)			temperature sensitive	PMID:7665473 PMID:8650200	CGSC:19326
secY125		Growth Phenotype	cold-sensitive	PMID:10852867 PMID:8190079
secY215 (ts)		Growth Phenotype	growth stops at 42C and sensitivity to temperature becomes more pronounced with increase in salt concentration	PMID:6339072		previously known as ts215
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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
JW3262	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGCTAAACAACCGGGATTAGA Primer 2:CCTCGGCCGTAGCCTTTCAGGTT
E1H9	Kohara Phage	Genobase	PMID:3038334
smg-3082::Tn10	Linked marker	CAG12071 = CGSC7444^[5]	est. P1 cotransduction: 66% ^[6] Synonyms:zhb-3082::Tn10, zhd-3082::Tn10
zhf-3084::Tn10	Linked marker	CAG18456 = CGSC7576^[5]	est. P1 cotransduction: 4% ^[6] Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).
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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:EG10766	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10766	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000757	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947799	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0759	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010814	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	SecY
Synonyms	preprotein translocase membrane subunit^[1], B3300^[2]^[1], SecY^[2]^[1], PrlA^[2]^[1] , ECK3287, JW3262, prlA, b3300
Product description	SecY^[2]^[3]; Component of SecEGY-Secretion Complex^[2]^[3]; Sec Protein Secretion Complex^[2]^[3] SecYE core translocon, protein export inner membrane pore protein^[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:0005515	protein binding	PMID:9180258	IGI: Inferred from Genetic Interaction		F	Seeded from EcoCyc (v14.0)	Missing: with/from
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015450	P-P-bond-hydrolysis-driven protein transmembrane transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002208	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9909	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	PMID:3004955	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0043952	protein transport by the Sec complex	PMID:2254269	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0065002	intracellular protein transmembrane transport	PMID:2254269	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0006886	intracellular protein transport	PMID:2254269	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0016021	integral to membrane	PMID:3004955	IDA: Inferred from Direct Assay		C	SecY is not detectable by SDS-PAGE if the samples have been boiled first (pp. 3354).	complete
	GO:0005886	plasma membrane	PMID:3004955	IDA: Inferred from Direct Assay		C		complete
	GO:0005515	protein binding	PMID:9180258	IGI: Inferred from Genetic Interaction	EcoliWiki:secG\|EcoliWiki:secE	F		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	Notes
Protein	Subunits of SecEGY-Secretion Complex	could be indirect
Protein	Subunits of Sec Protein Secretion Complex	could be indirect
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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
plasma membrane	C-terminus localized in the cytoplasm with 10 predicted transmembrane domains	Daley et al. (2005) ^[7]
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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 MAKQPGLDFQ SAKGGLGELK RRLLFVIGAL IVFRIGSFIP IPGIDAAVLA KLLEQQRGTI IEMFNMFSGG ALSRASIFAL GIMPYISASI IIQLLTVVHP TLAEIKKEGE SGRRKISQYT RYGTLVLAIF QSIGIATGLP NMPGMQGLVI NPGFAFYFTA VVSLVTGTMF LMWLGEQITE RGIGNGISII IFAGIVAGLP PAIAHTIEQA RQGDLHFLVL LLVAVLVFAV TFFVVFVERG QRRIVVNYAK RQQGRRVYAA QSTHLPLKVN MAGVIPAIFA SSIILFPATI ASWFGGGTGW NWLTTISLYL QPGQPLYVLL YASAIIFFCF FYTALVFNPR ETADNLKKSG AFVPGIRPGE QTAKYIDKVM TRLTLVGALY ITFICLIPEF MRDAMKVPFY FGGTSLLIVV VVIMDFMAQV QTLMMSSQYE SALKKANLKG YGR
Length	443
Mol. Wt	48.513 kDa
pI	10.3 (calculated)
Extinction coefficient	44,350 - 44,600 (calc based on 15 Y, 4 W, and 2 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
Domain	76..418	PF00344 eubacterial secY protein		PMID:19920124
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<motif_map/>

Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=secY 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:16131179	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947799	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010814	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AGA2	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10766	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10766	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947799	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000757	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0759	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	Reference(s)
Protein	E. coli K-12 MC4100	1.28E+03	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	9848	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	1778	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	4940	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	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)
rplNXE-rpsNH-rplFR-rpsE-rpmD-rplO-secY-rpmJ
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Figure courtesy of RegulonDB

</protect>

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_000913:3442099..3442139 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:b3300 (EcoliWiki Page)	NCBI GEO profiles for secY
microarray	GenExpDB:b3300 (EcoliWiki Page)	Summary of data for secY 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
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Notes

Accessions Related to secY Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10766	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0759	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3300
EcoGene	EcoGene:EG10766	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000757	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010814	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
Arabidopsis thaliana	AT2G18710 (score: 1.000; bootstrap: 96%)	From Inparanoid:20070104
Oryza gramene	O63066 (score: 1.000; bootstrap: 99%) Q6ZG25 (score: 0.806)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC3542c (score: 1.000; bootstrap: 100%) SPBC19G77 (score: 0.243)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000043402 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	PRLA	From SHIGELLACYC
E. coli O157	PRLA	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
Panther (EcoliWiki Page)	PTHR10906:SF2
Superfamily (EcoliWiki Page)	SUPERFAMILY:103491
Pfam (EcoliWiki Page)	PF00344 eubacterial secY protein
EcoCyc	EcoCyc:EG10766	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10766	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000757	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0759	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010814	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 ^3.2 ^3.3 ^3.4 ^3.5 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 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 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).
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

secY: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 secY Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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