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ompT:On One Page

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Standard Name

ompT

Gene Synonym(s)

ECK0557, b0565, JW0554[1]

Product Desc.

outer membrane protein 3b (a), protease VII[2]; outer membrane protease VII (outer membrane protein 3b)[3]

Outer membrane protease VII, DLP12 prophage; OM protein 2b; omptin[4]

Product Synonyms(s)

DLP12 prophage; outer membrane protease VII (outer membrane protein 3b)[1], B0565[2][1], OmpT[2][1], protease VII[2][1], omptin[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ompT[2], envY-ompT[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(ompT)    Textpresso(ompT)

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Notes

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Mg(2+) stimulon-PhoPQ regulon, EvgAS-PhoPQ cascade enhanced-expression subset.[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

ompT

Mnemonic

Outer membrane protein

Synonyms

ECK0557, b0565, JW0554[1]

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Notes

Location(s) and DNA Sequence

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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

12.58 minutes 

MG1655: 584856..583903
gbrowse_img.php?coord=583903..584856&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 560984..560031
gbrowse_img.php?coord=560031..560984&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 584856..583903
gbrowse_img.php?coord=583903..584856&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 524188..523235
gbrowse_img.php?coord=523235..524188&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

DH10B

DH10B: 637448..636495
gbrowse_img.php?coord=636495..637448&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 486663..487616
gbrowse_img.php?coord=486663..487616&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔompT (Keio:JW0554)

deletion

deletion

PMID:16738554

Shigen
CGSC8680[5]

ompTD103A

D103A

Loss of activity

seeded from UniProt:P09169

ompTD105A

D105A

Loss of activity

seeded from UniProt:P09169

ompTD230A

D230A

Loss of activity

seeded from UniProt:P09169

ompTGK236KG

GK236KG

70% of wild-type enzymatic activity

seeded from UniProt:P09169

ompTK237T

K237T

40% of wild-type enzymatic activity

seeded from UniProt:P09169

ompTR238L

R238L

Loss of activity

seeded from UniProt:P09169

ΔompT

deletion

deletion

lack ompT protease activity. lack the ability to cleave between specific paired basic amino acids

PMID: 17880914

ΔompT504

CGSC:28510

ompT1000::kan

CGSC:30156

ΔompT774::kan

PMID:16738554

CGSC:102186


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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW0554

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCGGGCGAAACTTCTGGGAAT

Primer 2:CCAAATGTGTACTTAAGACCAGC

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[5]

est. P1 cotransduction: 28% [6]
Synonyms:purE79::Tn10

dsbG601::Tn10

Linked marker

CAG12149 = CGSC7346[5]

est. P1 cotransduction: 9% [6]
Synonyms:zbd-601::Tn10, zbe-601::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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10673

EchoBASE (EcoliWiki Page)

EchoBASE:EB0667

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0565

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0652

EcoGene (EcoliWiki Page)

EcoGene:EG10673

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z1931

CGSC (EcoliWiki Page)

CGSC:4984

ASAP (EcoliWikiPage)

ASAP:ABE-0001931


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Notes

Links

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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

OmpT

Synonyms

DLP12 prophage; outer membrane protease VII (outer membrane protein 3b)[1], B0565[2][1], OmpT[2][1], protease VII[2][1], omptin[2][1]

Product description

outer membrane protein 3b (a), protease VII[2]; outer membrane protease VII (outer membrane protein 3b)[3]

Outer membrane protease VII, DLP12 prophage; OM protein 2b; omptin[4]

EC number (for enzymes)
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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0004175

endopeptidase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000036

F

Seeded from EcoCyc [7]

complete

GO:0004190

aspartic-type endopeptidase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0064

F

Seeded from EcoCyc [7]

complete

GO:0006508

proteolysis

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000036

P

Seeded from EcoCyc [7]

complete

GO:0008233

peptidase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0645

F

Seeded from EcoCyc [7]

complete

GO:0009279

cell outer membrane

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000036

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc [7]

complete

GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc [7]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [7]

complete

GO:0019867

outer membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0557

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0031230

intrinsic to cell outer membrane

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0005886

plasma membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc [7]

complete

GO:0009050

glycopeptide catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence
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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

outer membrane

Outer Membrane

PMID:9298646

EchoLocation:ompT


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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MRAKLLGIVL TTPIAISSFA STETLSFTPD NINADISLGT LSGKTKERVY LAEEGGRKVS
QLDWKFNNAA IIKGAINWDL MPQISIGAAG WTTLGSRGGN MVDQDWMDSS NPGTWTDESR
HPDTQLNYAN EFDLNIKGWL LNEPNYRLGL MAGYQESRYS FTARGGSYIY SSEEGFRDDI
GSFPNGERAI GYKQRFKMPY IGLTGSYRYE DFELGGTFKY SGWVESSDND EHYDPGKRIT
YRSKVKDQNY YSVAVNAGYY VTPNAKVYVE GAWNRVTNKK GNTSLYDHNN NTSDYSKNGA
GIENYNFITT AGLKYTF
Length

317

Mol. Wt

35.563 kDa

pI

5.8 (calculated)

Extinction coefficient

78,270 (calc based on 23 Y, 8 W, and 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.

TypeResiduesDescriptionNotesReferences

motif

1-20

UniProt Manual:Signal Peptides

UniProt:P09169


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

Structures
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10673-MONOMER

UniProt (EcoliWiki Page)

UniProt:P09169

PFAM (EcoliWiki Page)

PFAM:PF01278

RefSeq (EcoliWiki Page)

RefSeq:NP_415097


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Notes

Links

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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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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)

ompT

envY-ompT

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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=584836..584876&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b0565 (EcoliWiki Page)

NCBI GEO profiles for ompT

microarray

GenExpDB:b0565 (EcoliWiki Page)

Summary of data for ompT 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 NameResource TypeDescriptionSourceNotes

GFP Fusion

Intergenic region (584578..585222) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ18; Well:H2[9]

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Notes

Accessions Related to ompT Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10673

EchoBASE (EcoliWiki Page)

EchoBASE:EB0667

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0565

EcoGene (EcoliWiki Page)

EcoGene:EG10673


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Notes

Links

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Evolution

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Homologs in Other Organisms

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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.

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF01278


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Notes

Links

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References

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

  1. ↑ 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. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 7.7 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  9. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

Categories

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