iadA:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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Standard Name

iadA

Gene Synonym(s)

ECK4319, b4328, JW4291, yjiF[1], yjiF

Product Desc.

IadA[2][3];

Component of isoaspartyl dipeptidase[3]

Isoaspartyl dipeptidase[4]

Product Synonyms(s)

isoaspartyl dipeptidase[1], B4328[2][1], YjiF[2][1] , ECK4319, JW4291, yjiF, b4328

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): iadA[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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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

iadA

Mnemonic

Isoaspartyl dipeptidase

Synonyms

ECK4319, b4328, JW4291, yjiF[1], yjiF

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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

98.2 minutes 

MG1655: 4557549..4556377
<gbrowseImage> name=NC_000913:4556377..4557549 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4540440..4539268
<gbrowseImage> name=NC_012967:4539268..4540440 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4494862..4496034
<gbrowseImage> name=NC_012759:4494862..4496034 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4564206..4563034
<gbrowseImage> name=NC_007779:4563034..4564206 source=W3110 preset=GeneLocation </gbrowseImage>

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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

Coding Start (SO:0000323)

MG1655

4556377

Edman degradation

PMID:7876157


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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

iadA(del) (Keio:JW4291)

deletion

deletion

PMID:16738554

Shigen

CGSC11075[5]

iadA726(del)::kan

PMID:16738554

CGSC:101512


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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

JW4291

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCATTGATTATACCGCAGCCGG

Primer 2:CCAGCCGTTTCAAACGTTCCTTT

1D6

Kohara Phage

Genobase

PMID:3038334

5G8

Kohara Phage

Genobase

PMID:3038334

8H8

Kohara Phage

Genobase

PMID:3038334

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[5]

est. P1 cotransduction: % [6]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[5]

est. P1 cotransduction: 22% [6]
Synonyms:zjj-202::Tn10, zji-202::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:G7925

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12567

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004420

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948853

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2455

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014195

Escherichia coli str. K-12 substr. MG1655

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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

IadA

Synonyms

isoaspartyl dipeptidase[1], B4328[2][1], YjiF[2][1] , ECK4319, JW4291, yjiF, b4328

Product description

IadA[2][3];

Component of isoaspartyl dipeptidase[3]

Isoaspartyl dipeptidase[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:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0645

F

Seeded from EcoCyc (v14.0)

complete

GO:0008237

metallopeptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0482

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006680

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016810

hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011059

F

Seeded from EcoCyc (v14.0)

complete

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of isoaspartyl dipeptidase

could be indirect

Protein

dnaE

PMID:16606699

Experiment(s):EBI-1147874

Protein

topA

PMID:16606699

Experiment(s):EBI-1147874

Protein

rhsD

PMID:16606699

Experiment(s):EBI-1147874

Protein

ygaE

PMID:16606699

Experiment(s):EBI-1147874

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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

MIDYTAAGFT LLQGAHLYAP EDRGICDVLV ANGKIIAVAS NIPSDIVPNC TVVDLSGQIL
CPGFIDQHVH LIGGGGEAGP TTRTPEVALS RLTEAGVTSV VGLLGTDSIS RHPESLLAKT
RALNEEGISA WMLTGAYHVP SRTITGSVEK DVAIIDRVIG VKCAISDHRS AAPDVYHLAN
MAAESRVGGL LGGKPGVTVF HMGDSKKALQ PIYDLLENCD VPISKLLPTH VNRNVPLFEQ
ALEFARKGGT IDITSSIDEP VAPAEGIARA VQAGIPLARV TLSSDGNGSQ PFFDDEGNLT
HIGVAGFETL LETVQVLVKD YDFSISDALR PLTSSVAGFL NLTGKGEILP GNDADLLVMT
PELRIEQVYA RGKLMVKDGK ACVKGTFETA
Length

390

Mol. Wt

41.083 kDa

pI

5.0 (calculated)

Extinction coefficient

15,930 - 16,680 (calc based on 7 Y, 1 W, and 6 C residues)


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

59..208

PF01979 Amidohydrolase family

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=iadA 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:16132149

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948853

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014195

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P39377

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7925

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12567

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948853

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004420

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2455

Escherichia coli str. K-12 substr. MG1655

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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

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

5.35E+02

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

1637

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

225

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

918

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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)

iadA

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_000913:4557529..4557569 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


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

Type Reference Notes

microarray

GEO Profiles:b4328 (EcoliWiki Page)

NCBI GEO profiles for iadA

microarray

GenExpDB:b4328 (EcoliWiki Page)

Summary of data for iadA from multiple microarray studies


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 iadA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G7925

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2455

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4328

EcoGene

EcoGene:EG12567

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004420

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014195

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Shigella flexneri

IADA

From SHIGELLACYC

E. coli O157

IADA

From ECOO157CYC


Do-It-Yourself Web Tools

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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)

PF01979 Amidohydrolase family

Superfamily (EcoliWiki Page)

SUPERFAMILY:51338

Superfamily (EcoliWiki Page)

SUPERFAMILY:51556

Panther (EcoliWiki Page)

PTHR11647:SF34

EcoCyc

EcoCyc:G7925

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12567

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004420

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2455

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014195

Escherichia coli str. K-12 substr. MG1655

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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. 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.0 2.1 2.2 2.3 2.4 2.5 2.6 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 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 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).

Categories

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