argI: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

argI

Gene Synonym(s)

ECK4247, b4254, JW4211[1], JW4211

Product Desc.

ArgI[2][3];

Component of ornithine carbamoyltransferase[2][3]

Ornithine carbamoyltransferase; ornithine transcarbamylase; OTCase[4]

Product Synonyms(s)

ornithine carbamoyltransferase 1[1], B4254[2][1], ArgI[2][1] , ECK4247, JW4211, b4254

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): argI[2], OP00008

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

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

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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argI and argF have same enzyme activity. ArgF and ArgI form both homotrimers and heterotrimers (Legrain, 1972).[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

argI

Mnemonic

Arginine

Synonyms

ECK4247, b4254, JW4211[1], JW4211

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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

96.46 minutes 

MG1655: 4476334..4475330
<gbrowseImage> name=NC_000913:4475330..4476334 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4461443..4460439
<gbrowseImage> name=NC_012967:4460439..4461443 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4414065..4415069
<gbrowseImage> name=NC_012759:4414065..4415069 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4482991..4481987
<gbrowseImage> name=NC_007779:4481987..4482991 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4578142..4577138
<gbrowseImage> name=NC_010473:4577138..4578142 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

Coding Start (SO:0000323)

MG1655

4475333

Edman degradation

PMID:9298646


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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

ΔargI (Keio:JW4211)

deletion

deletion

Auxotrophies

PMID:16738554

Shigen

CGSC11031[5]

argI44

Auxotrophies

CGSC:5159

argI60

Auxotrophies

CGSC:5176

argI61

Auxotrophies

CGSC:5177

argI67

Auxotrophies

CGSC:5183

ΔargI68

deletion

deletion

Auxotrophies

CGSC:5184

ΔargI74

deletion

deletion

Auxotrophies

CGSC:5190

argI82

Auxotrophies

CGSC:5198

argI140(Am)

Auxotrophies

PMID:4942757

CGSC:5208

amber (UAG) mutation

ΔargI728::kan

deletion

deletion

Auxotrophies

PMID:16738554

CGSC:100048


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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

JW4211

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCCGGGTTTTATCATAAGCA

Primer 2:CCTTTACTGAGCGTCGCGACCAT

E1F5

Kohara Phage

Genobase

PMID:3038334

5C4

Kohara Phage

Genobase

PMID:3038334

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[5]

est. P1 cotransduction: 30% [6]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[5]

est. P1 cotransduction: % [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:EG10069

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10069

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000065

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948774

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0067

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013927

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

ArgI

Synonyms

ornithine carbamoyltransferase 1[1], B4254[2][1], ArgI[2][1] , ECK4247, JW4211, b4254

Product description

ArgI[2][3];

Component of ornithine carbamoyltransferase[2][3]

Ornithine carbamoyltransferase; ornithine transcarbamylase; OTCase[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:0004585

ornithine carbamoyltransferase activity

PMID:4873401

IGI: Inferred from Genetic Interaction

F

Table 4 shows specific activity of ornithine transcarbamylase in argI.

Missing: with/from

GO:0004585

ornithine carbamoyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01109

F

Seeded from EcoCyc (v14.0)

complete

GO:0004585

ornithine carbamoyltransferase activity

PMID:4558857

IGI: Inferred from Genetic Interaction

F

Activity of enzyme presented in Fig. 3. Table 1 displays quantification of enzyme protocol.

Missing: with/from

GO:0004585

ornithine carbamoyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002292

F

Seeded from EcoCyc (v14.0)

complete

GO:0004585

ornithine carbamoyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.3.3

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01109

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:0006520

cellular amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002292

P

Seeded from EcoCyc (v14.0)

complete

GO:0006520

cellular amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006130

P

Seeded from EcoCyc (v14.0)

complete

GO:0006520

cellular amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006131

P

Seeded from EcoCyc (v14.0)

complete

GO:0006520

cellular amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006132

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:0009348

ornithine carbamoyltransferase complex

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002292

C

Seeded from EcoCyc (v14.0)

complete

GO:0016597

amino acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006130

F

Seeded from EcoCyc (v14.0)

complete

GO:0016597

amino acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006131

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 ornithine carbamoyltransferase

arg I is able to produce a functional ornithine carbamoyltransferase

PMID:4558857

Protein

nadE

PMID:16606699

Experiment(s):EBI-1147760

Protein

ahpF

PMID:16606699

Experiment(s):EBI-1147760

Protein

pepA

PMID:16606699

Experiment(s):EBI-1147760

Protein

tyrR

PMID:16606699

Experiment(s):EBI-1147760

Protein

yfbU

PMID:16606699

Experiment(s):EBI-1147760

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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

MSGFYHKHFL KLLDFTPAEL NSLLQLAAKL KADKKSGKEE AKLTGKNIAL IFEKDSTRTR
CSFEVAAYDQ GARVTYLGPS GSQIGHKESI KDTARVLGRM YDGIQYRGYG QEIVETLAEY
ASVPVWNGLT NEFHPTQLLA DLLTMQEHLP GKAFNEMTLV YAGDARNNMG NSMLEAAALT
GLDLRLVAPQ ACWPEAALVT ECRALAQQNG GNITLTEDVA KGVEGADFIY TDVWVSMGEA
KEKWAERIAL LREYQVNSKM MQLTGNPEVK FLHCLPAFHD DQTTLGKKMA EEFGLHGGME
VTDEVFESAA SIVFDQAENR MHTIKAVMVA TLSK
Length

334

Mol. Wt

36.907 kDa

pI

5.5 (calculated)

Extinction coefficient

36,900 - 37,400 (calc based on 10 Y, 4 W, and 4 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

Initiator Methionine

1

Removed

UniProt:P04391

Domain

155..331

PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain

PMID:19920124

Domain

7..148

PF02729 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=argI 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:16132076

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948774

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013927

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P04391

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10069

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10069

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948774

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000065

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0067

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

63

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

2562

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

19a

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

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)

argI

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_000913:4476314..4476354 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:b4254 (EcoliWiki Page)

NCBI GEO profiles for argI

microarray

GenExpDB:b4254 (EcoliWiki Page)

Summary of data for argI 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

GFP Fusion

Intergenic region (4475783..4476040) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ01; Well:E1[7]

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Notes

Accessions Related to argI Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10069

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0067

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4254

EcoGene

EcoGene:EG10069

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000065

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013927

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

Apis mellifera

  • ENSAPMP00000022451 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G75330 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000001947 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000020690 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000029680 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000039007 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000017738 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000026385 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:97448 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6YVI0 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000037399 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000004686 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YJL088W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC4G90 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000176157 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000172677 (score: 0.621)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00025982001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000018777 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

ARGI

From SHIGELLACYC

E. coli O157

ARGI

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)

PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain

Pfam (EcoliWiki Page)

PF02729 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:53671

EcoCyc

EcoCyc:EG10069

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10069

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000065

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0067

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013927

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 2.7 2.8 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 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. Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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