ampC:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Convert to gbrowse_img.php extension.
Adding section & Genetic interactions table to Gene pages.
Line 16: Line 16:
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
Line 388: Line 389:
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18865.V4e04b7496eaa3-->
<!--
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Genetic_interaction_help}}
{|  id="V4e04b7496eaa3"  class=" tableEdit Genetic_interaction_table dataTable" 
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.18865.V4e04b7496eaa3&page=18865&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18865.V4e04b7496eaa3--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:11, 24 June 2011

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

ampC

Mnemonic

Ampicillin

Synonyms

ECK4146, b4150, JW4111, ampA[1]

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

94.31 minutes, 94.31 minutes 

MG1655: 4376967..4375834
<gbrowseImage> name=NC_000913:4375834..4376967 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4357655..4356522
<gbrowseImage> name=NC_012967:4356522..4357655 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4314569..4315702
<gbrowseImage> name=NC_012759:4314569..4315702 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4383624..4382491
<gbrowseImage> name=AC_000091:4382491..4383624 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4477329..4476196
<gbrowseImage> name=NC_010473:4476196..4477329 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

edit table


Notes

Sequence Features

[back to top]


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

4375837

Edman degradation

PMID:6795623[2]


edit table


Notes

Alleles and Phenotypes

[back to top]


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

ampCS80D,E,G

S80D,E,G

Loss of activity

seeded from UniProt:P00811

ampCK83Q,T

K83Q,T

Lowers activity more than 1000- fold and increases protein stability

seeded from UniProt:P00811

ampCK331A

K331A

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ampCN168D,H

N168D,H

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ampCY166E

Y166E

Lowers activity more than 1000- fold

seeded from UniProt:P00811

ΔampC (Keio:JW4111)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC10960[4]

ampC12

CGSC:10039

ampC11

CGSC:11804

ampC3

CGSC:11809

ΔampC777::kan

PMID:16738554[3]

CGSC:99998


edit table


Notes

Genetic Interactions

[back to top]



Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table


Notes

Genetic Resources

[back to top]


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

Resource Resource Type Source Notes/Reference

JW4111

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCTTCAAAACGACGCTCTGCGC

Primer 2:CCtTGTAGAGCGTTAAGAATCTG

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[4]

est. P1 cotransduction: 50% [6]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[4]

est. P1 cotransduction: 10% [6]

edit table


Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10040

EchoBASE (EcoliWiki Page)

EchoBASE:EB0038

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4150

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C5238

EcoGene (EcoliWiki Page)

EcoGene:EG10040

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:AMPC

CGSC (EcoliWiki Page)

CGSC:1033

ASAP (EcoliWikiPage)

ASAP:ABE-0013592


edit table


Notes

Links

[back to top]



<protect>

References

[back to top]


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

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Jaurin, B & Grundström, T (1981) ampC cephalosporinase of Escherichia coli K-12 has a different evolutionary origin from that of beta-lactamases of the penicillinase type. Proc. Natl. Acad. Sci. U.S.A. 78 4897-901 PubMed
  3. ↑ 3.0 3.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  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

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=ampC:Gene&oldid=1248472"