argH:On One Page

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

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Standard Name

argH

Gene Synonym(s)

ECK3951, b3960, JW3932[1], JW3932

Product Desc.

Argininosuccinate lyase[2]

Product Synonyms(s)

argininosuccinate lyase[1], B3960[3][1], ArgH[3][1] , ECK3951, JW3932, b3960

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): argCBH[3], OP00005

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

argH

Mnemonic

Arginine

Synonyms

ECK3951, b3960, JW3932[1], JW3932

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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

89.55 minutes, 89.55 minutes 

MG1655: 4154873..4156246
<gbrowseImage> name=NC_000913:4154873..4156246 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4136711..4138084
<gbrowseImage> name=NC_012967:4136711..4138084 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4044542..4045915
<gbrowseImage> name=NC_012759:4044542..4045915 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3479831..3478458
<gbrowseImage> name=NC_007779:3478458..3479831 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4254570..4255943
<gbrowseImage> name=NC_010473:4254570..4255943 source=DH10B 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
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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

ΔargH (Keio:JW3932)

deletion

deletion

Auxotrophies

PMID:16738554

Shigen

CGSC8310[4]

ΔargH1

deletion

deletion

Auxotrophies

CGSC:4841

argH39

Auxotrophies

CGSC:5154

argH46

Auxotrophies

CGSC:5161

argH50

Auxotrophies

CGSC:5165

argH56

Auxotrophies

CGSC:5171

argH70

Auxotrophies

CGSC:5186

argH212

Auxotrophies

CGSC:19044

argH0

Auxotrophies

CGSC:27215

ΔargH747::kan

deletion

deletion

Auxotrophies

PMID:16738554

CGSC:99803


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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

JW3932

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCACTTTGGGGCGGGCGTTT

Primer 2:CCgCCTAACCGAGCCTGCGCAAA

4G11

Kohara Phage

Genobase

PMID:3038334

8H10

Kohara Phage

Genobase

PMID:3038334

argE86::Tn10

Linked marker

CAG12185 = CGSC7471[4]

est. P1 cotransduction: 93% [5]

thiC39::Tn10

Linked marker

CAG18500 = CGSC7472[4]

est. P1 cotransduction: 19% [5]
Synonyms:thi-39::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:EG11223

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11223

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001201

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948463

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1205

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012969

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

ArgH

Synonyms

argininosuccinate lyase[1], B3960[3][1], ArgH[3][1] , ECK3951, JW3932, b3960

Product description

Argininosuccinate lyase[2]

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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000362

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008948

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020557

F

Seeded from EcoCyc (v14.0)

complete

GO:0004056

argininosuccinate lyase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00006

F

Seeded from EcoCyc (v14.0)

complete

GO:0004056

argininosuccinate lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009049

F

Seeded from EcoCyc (v14.0)

complete

GO:0004056

argininosuccinate lyase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.3.2.1

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00006

C

Seeded from EcoCyc (v14.0)

complete

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:0006526

arginine biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00006

P

Seeded from EcoCyc (v14.0)

complete

GO:0006526

arginine biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0055

P

Seeded from EcoCyc (v14.0)

complete

GO:0008652

cellular amino acid biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0028

P

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0456

F

Seeded from EcoCyc (v14.0)

complete

GO:0042450

arginine biosynthetic process via ornithine

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009049

P

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 Notes References Evidence
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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 

MALWGGRFTQ AADQRFKQFN DSLRFDYRLA EQDIVGSVAW SKALVTVGVL TAEEQAQLEE
ALNVLLEDVR ARPQQILESD AEDIHSWVEG KLIDKVGQLG KKLHTGRSRN DQVATDLKLW
CKDTVSELLT ANRQLQSALV ETAQNNQDAV MPGYTHLQRA QPVTFAHWCL AYVEMLARDE
SRLQDALKRL DVSPLGCGAL AGTAYEIDRE QLAGWLGFAS ATRNSLDSVS DRDHVLELLS
AAAIGMVHLS RFAEDLIFFN TGEAGFVELS DRVTSGSSLM PQKKNPDALE LIRGKCGRVQ
GALTGMMMTL KGLPLAYNKD MQEDKEGLFD ALDTWLDCLH MAALVLDGIQ VKRPRCQEAA
QQGYANATEL ADYLVAKGVP FREAHHIVGE AVVEAIRQGK PLEDLPLSEL QKFSQVIDED
VYPILSLQSC LDKRAAKGGV SPQQVAQAIA FAQARLG
Length

457

Mol. Wt

50.318 kDa

pI

5.0 (calculated)

Extinction coefficient

50,420 - 51,295 (calc based on 8 Y, 7 W, and 7 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

6..301

PF00206 Lyase

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=argH 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:16131798

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948463

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012969

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P11447

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11223

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11223

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948463

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001201

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1205

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 MG1655

337

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

1878

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

232

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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<protect>

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

Transcription unit(s)

argCBH

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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_000913:4154853..4154893 source=MG1655 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:b3960 (EcoliWiki Page)

NCBI GEO profiles for argH

microarray

GenExpDB:b3960 (EcoliWiki Page)

Summary of data for argH 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 argH Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11223

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1205

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3960

EcoGene

EcoGene:EG11223

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001201

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012969

Escherichia coli str. K-12 substr. MG1655

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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

Anopheles gambiae

  • ENSANGP00000006856 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000027455 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G10920 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000020375 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000015734 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000013026 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-1152 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-2084 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0032076 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA17268-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000004034 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000004053 (score: 0.839)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000354710 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000015581 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000008034 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:88084 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000032888 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000001211 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YHR018C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC17734 (score: 1.000; bootstrap: 100%)
  • SPBC15393c (score: 0.589)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000148426 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00029954001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000006535 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

ARGH

From SHIGELLACYC

E. coli O157

ARGH

From ECOO157CYC

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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)

PF00206 Lyase

Superfamily (EcoliWiki Page)

SUPERFAMILY:48557

Panther (EcoliWiki Page)

PTHR11444:SF3

PFAM (EcoliWiki Page)

PFAM:PF00206

EcoCyc

EcoCyc:EG11223

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11223

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001201

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1205

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012969

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 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  3. ↑ 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 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).

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