rlmE:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK3168, b3179, JW3146, ftsJ, mrsF'', rrmJ<ref name='LIB:Riley_2006'/>
''ECK3168, b3179, JW3146, ftsJ, mrsF'', rrmJ<ref name='LIB:Riley_2006'/>, mrsF, rrmJ''


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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11507 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11507 EcoCyc]
{{GBrowseLink|MG1655|NC_000913|3324057|3326686|GBrowse(MG1655)}}
{{GBrowseLink|ecoli|NC_000913|3324057|3326686|GBrowse(MG1655)}}
   
   
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{{GBrowseFastaLink|MG1655|NC_000913|3325057|3325686|FASTA Dump}}
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*[http://biocyc.org/ECOLI/sequence?object=EG11507 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11507 EcoCyc Sequence Dump]  
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{{GBrowseLink|BW2952|NC_012759|3212205|3212834|GBrowse (BW2952)}}
{{GBrowseLink|BW2952|012759|3212205|NC_3212834|GBrowse (BW2952)}}
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{{GBrowseLink|W3110|AC_000091|3325890|3328519|GBrowse(W3110)}}  
{{GBrowseLink|ecoli_W3110|AC_000091|3325890|3328519|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|3326890|3327519|FASTA Dump}}  
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{{GBrowseLink|DH10B|NC_010473|3421544|3424689|GBrowse(DH10B)}}
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Primer 2:CCGGGTTTACGCCCGGTCGCTAC  
Primer 2:CCGGGTTTACGCCCGGTCGCTAC  
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[[:Category:Kohara_Phage:18H7|18H7]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=520 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:14F11|14F11]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=521 Genobase]
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PMID:3038334
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11507 ECOCYC:EG11507]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/gene?term=947689 GeneID:947689]
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Escherichia coli str. K-12 substr. MG1655


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Revision as of 19:56, 24 September 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

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

Standard name

rlmE

Mnemonic

rRNA large-subunit methylation

Synonyms

ECK3168, b3179, JW3146, ftsJ, mrsF, rrmJ[1], mrsF, rrmJ

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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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

71.67 minutes 

MG1655: 3325686..3325057
<gbrowseImage> name=NC_000913:3325057..3325686 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3212205..3212834
<gbrowseImage> name=NC_012759:3212205..3212834 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3327519..3326890
<gbrowseImage> name=AC_000091:3326890..3327519 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3423431..3422802
<gbrowseImage> name=NC_010473:3422802..3423431 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

ΔrrmJ (Keio:JW3146)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10390[3]

rlmED83A

D83A

5-fold decrease in activity. Increase in Km for 50S subunit and for S- adenosyl-L-methionine. Loss of S- adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

rlmES197A

S197A

No change in activity. Increase in Km for 50S subunit

seeded from UniProt:P0C0R7

rlmEE199A

E199A

16-fold decrease in activity. No change in S-adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

rlmED20A

D20A

2-fold decrease in activity. Increase in Km for 50S subunit

seeded from UniProt:P0C0R7

rlmEY22A

Y22A

No change in activity

seeded from UniProt:P0C0R7

rlmER32A

R32A

4-fold decrease in activity and increase in Km for 50S subunit; when associated with A-34

seeded from UniProt:P0C0R7

rlmER34A

R34A

4-fold decrease in activity and increase in Km for 50S subunit; when associated with A-32

seeded from UniProt:P0C0R7

rlmEK38A

K38A

Loss of activity. Almost no change in S-adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

rlmED124A

D124A

Loss of activity. Loss of S- adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

rlmED136N

D136N

2-fold decrease in activity

seeded from UniProt:P0C0R7

rlmEK164A

K164A

Loss of activity. No change in S- adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

rlmEK189A

K189A

9-fold decrease in activity

seeded from UniProt:P0C0R7

rlmER194A

R194A

No change in activity. Increase in Km for 50S subunit

seeded from UniProt:P0C0R7

rlmEY201A

Y201A

5-fold decrease in activity. Almost no change in S-adenosyl-L-methionine binding

seeded from UniProt:P0C0R7

ΔrrmJ786::kan

PMID:16738554[2]

CGSC:102804


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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

JW3146

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCACAGGTAAGAAGCGTTCTGC

Primer 2:CCGGGTTTACGCCCGGTCGCTAC

18H7

Kohara Phage

Genobase

PMID:3038334[5]

14F11

Kohara Phage

Genobase

PMID:3038334[5]

aer-3075::Tn10

Linked marker

CAG12152 = CGSC7438[3]

est. P1 cotransduction: % [6]
Synonyms:zgh-3075::Tn10, zgj-3075::Tn10

sfsB203::Tn10

Linked marker

CAG12072 = CGSC7440[3]

est. P1 cotransduction: 81% [6]
Synonyms:zgj-203::Tn10, zha-203::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 (EcoliWiki Page)

EcoCyc:EG11507

EchoBASE (EcoliWiki Page)

EchoBASE:EB1470

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3179

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3936

EcoGene (EcoliWiki Page)

EcoGene:EG11507

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FTSJ

CGSC (EcoliWiki Page)

CGSC:33511

ASAP (EcoliWikiPage)

ASAP:ABE-0010447

EcoCyc (EcoliWiki Page)

ECOCYC:EG11507

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947689

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. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 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
  3. ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. ↑ 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
  5. ↑ 5.0 5.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 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

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