rlmE: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 |
rlmE |
|---|---|
| Gene Synonym(s) |
ECK3168, b3179, JW3146, ftsJ, mrsF, rrmJ[1], mrsF, rrmJ |
| Product Desc. |
23S rRNA m2U2552 methyltransferase[2][3] 23S rRNA U2552 ribose 2'-O-methyltransferase, SAM-dependent; involved in cell division and growth; heat inducible; suppresssed by cloned ObgE and Der[4] |
| Product Synonyms(s) |
23S rRNA methyltransferase[1], B3179[2][1], RrmJ[2][1], MrsF[2][1], FtsJ[2][1] , ECK3168, ftsJ, JW3146, mrsF, rrmJ, b3179 |
| Function from GO |
<GO_nr /> |
| Knock-Out Phenotype | |
| Regulation/Expression | |
| Regulation/Activity | |
| Quick Links | |
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</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>
Notes
Gene
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Nomenclature
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
<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 |
71.67 minutes |
MG1655: 3325686..3325057 |
||
|
NC_012759: 3212205..3212834 |
||||
|
W3110 |
|
W3110: 3327519..3326890 |
||
|
DH10B: 3423431..3422802 |
||||
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Notes
Sequence Features
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
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 |
||||
|
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 |
||||||
|
rlmE |
deletion |
Sensitivity to |
increases sensitivity to bicyclomycin |
PMID:21357484 |
fig 2 | ||
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Notes
Genetic Interactions
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| Interactor | Interaction | Allele | Score(s) | Reference(s) | Accessions | Notes |
|---|---|---|---|---|---|---|
| edit table |
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Notes
Genetic Resources
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW3146 |
Plasmid clone |
PMID:16769691 Status:Clone OK Primer 1:GCCACAGGTAAGAAGCGTTCTGC Primer 2:CCGGGTTTACGCCCGGTCGCTAC | |
|
Kohara Phage |
PMID:3038334 | ||
|
Kohara Phage |
PMID:3038334 | ||
|
Linked marker |
est. P1 cotransduction: % [6] | ||
|
Linked marker |
est. P1 cotransduction: 81% [6] | ||
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Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
RegulonDB: |
Escherichia coli str. K-12 substr. MG1655 | |
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Notes
Links
| Name | URL | Comments |
|---|---|---|
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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 |
RlmE |
|---|---|
| Synonyms |
23S rRNA methyltransferase[1], B3179[2][1], RrmJ[2][1], MrsF[2][1], FtsJ[2][1] , ECK3168, ftsJ, JW3146, mrsF, rrmJ, b3179 |
| Product description |
23S rRNA m2U2552 methyltransferase[2][3] 23S rRNA U2552 ribose 2'-O-methyltransferase, SAM-dependent; involved in cell division and growth; heat inducible; suppresssed by cloned ObgE and Der[4] |
| EC number (for enzymes) | |
| edit table |
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Notes
Function
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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:0003676 |
nucleic acid binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
InterPro:IPR002877 |
F |
Seeded from EcoCyc (v14.0) |
complete | |
|
GO:0005737 |
cytoplasm |
GOA:hamap |
IEA: Inferred from Electronic Annotation |
HAMAP:MF_01547 |
C |
Seeded from EcoCyc (v14.0) |
complete | |
|
GO:0005737 |
cytoplasm |
GOA:spkw |
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:0006950 |
response to stress |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
SP_KW:KW-0346 |
P |
Seeded from EcoCyc (v14.0) |
complete | |
|
GO:0008650 |
rRNA (uridine-2'-O-)-methyltransferase activity |
GOA:hamap |
IEA: Inferred from Electronic Annotation |
HAMAP:MF_01547 |
F |
Seeded from EcoCyc (v14.0) |
complete | |
| edit table |
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 |
aceF |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
clpA |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
ffh |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
lon |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rplA |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rplC |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rplD |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rplV |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rpsB |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rpsD |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rpsE |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rpsG |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
tufA |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
rplJ |
PMID:15690043 |
Experiment(s):EBI-881132 | |
|
Protein |
groL |
PMID:16606699 |
Experiment(s):EBI-1145040 | |
|
Protein |
yfdQ |
PMID:16606699 |
Experiment(s):EBI-1145040 | |
|
Protein |
rplJ |
PMID:16606699 |
Experiment(s):EBI-1145040 | |
|
Protein |
speD |
PMID:16606699 |
Experiment(s):EBI-1145040 | |
|
Protein |
ygbA |
PMID:16606699 |
Experiment(s):EBI-1145040 | |
|
Protein |
rplA |
PMID:19402753 |
MALDI(Z-score):23.770470 | |
|
Protein |
tufB |
PMID:19402753 |
MALDI(Z-score):23.014924 | |
|
Protein |
lon |
PMID:19402753 |
MALDI(Z-score):28.131900 | |
|
Protein |
clpA |
PMID:19402753 |
MALDI(Z-score):24.748640 | |
|
Protein |
ffh |
PMID:19402753 |
MALDI(Z-score):34.290099 | |
| edit table |
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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 |
|---|---|---|---|---|
| edit table |
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Notes
Structure and Physical Properties
<protect>
Physical Properties
See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.
| Name | |
|---|---|
| Sequence |
MTGKKRSASS SRWLQEHFSD KYVQQAQKKG LRSRAWFKLD EIQQSDKLFK PGMTVVDLGA APGGWSQYVV TQIGGKGRII ACDLLPMDPI VGVDFLQGDF RDELVMKALL ERVGDSKVQV VMSDMAPNMS GTPAVDIPRA MYLVELALEM CRDVLAPGGS FVVKVFQGEG FDEYLREIRS LFTKVKVRKP DSSRARSREV YIVATGRKP |
| Length |
209 |
| Mol. Wt |
23.334 kDa |
| pI |
9.8 (calculated) |
| Extinction coefficient |
23,950 - 24,200 (calc based on 5 Y, 3 W, and 2 C residues) |
| edit table |
Domains/Motifs/Modification Sites
|
See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.
|
<motif_map/> |
|
Structure
| </protect>
Structure figures<protect> | ||||||
Notes
Gene Product Resources
See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.
| Resource type | Source | Notes/Reference |
|---|---|---|
| edit table |
<protect></protect>
Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
RegulonDB: |
Escherichia coli str. K-12 substr. MG1655 | |
|
EchoBASE: |
Escherichia coli str. K-12 substr. MG1655 | |
| edit table |
<protect></protect>
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
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
| Molecule | Organism or Strain | Value | Units | Experimental Conditions | Assay used | Notes | Reference(s) |
|---|---|---|---|---|---|---|---|
|
Protein |
Ecoli K-12 |
10.389+/-0.147 |
Molecules/cell |
|
Single Molecule Fluorescence |
PMID:20671182 | |
|
Protein |
E. coli K-12 MG1655 |
1629 |
molecules/cell/generation |
|
Ribosome Profiling |
PMID: 24766808 | |
|
Protein |
E. coli K-12 MG1655 |
325 |
molecules/cell/generation |
|
Ribosome Profiling |
PMID: 24766808 | |
|
Protein |
E. coli K-12 MG1655 |
1851 |
molecules/cell/generation |
|
Ribosome Profiling |
PMID: 24766808 | |
| edit table |
Notes
Transcription and Transcriptional Regulation
<protect>
|
See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.
|
Figure courtesy of RegulonDB |
</protect>
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
<protect><gbrowseImage>
name=NC_000913:3325666..3325706
source=MG1655
flip=1
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
This picture shows the sequence around the N-terminus.
</protect>
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
</protect>
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
<protect>
Mutations Affecting Expression
See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.
| Allele Name | Mutation | Phenotype | Reference |
|---|---|---|---|
| edit table |
Expression Studies
See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.
| Type | Reference | Notes |
|---|---|---|
|
microarray |
NCBI GEO profiles for rrmJ | |
|
microarray |
Summary of data for rrmJ from multiple microarray studies | |
| edit table |
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 (3325205..3325479) fused to gfpmut2. |
GFP fusion described in Zaslaver, et al. | ||
| edit table |
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Notes
Accessions Related to rlmE Expression
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
RegulonDB: |
Escherichia coli str. K-12 substr. MG1655 | |
|
ASAP: |
Escherichia coli str. K-12 substr. MG1655 | |
| edit table |
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Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
Evolution
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Homologs in Other Organisms
See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.
| Organism | Homologs (Statistics) | Comments |
|---|---|---|
|
Anopheles gambiae |
|
From Inparanoid:20070104 |
|
Apis mellifera |
|
From Inparanoid:20070104 |
|
Arabidopsis thaliana |
|
From Inparanoid:20070104 |
|
Bos taurus |
|
From Inparanoid:20070104 |
|
Caenorhabditis briggsae |
|
From Inparanoid:20070104 |
|
Caenorhabditis elegans |
|
From Inparanoid:20070104 |
|
Canis familiaris |
|
From Inparanoid:20070104 |
|
Ciona intestinalis |
|
From Inparanoid:20070104 |
|
Danio rerio |
|
From Inparanoid:20070104 |
|
Dictyostelium discoideum |
|
From Inparanoid:20070104 |
|
Drosophila melanogaster |
|
From Inparanoid:20070104 |
|
Drosophila pseudoobscura |
|
From Inparanoid:20070104 |
|
Gallus gallus |
|
From Inparanoid:20070104 |
|
Homo sapiens |
|
From Inparanoid:20070104 |
|
Macaca mulatta |
|
From Inparanoid:20070104 |
|
Monodelphis domestica |
|
From Inparanoid:20070104 |
|
Mus musculus |
|
From Inparanoid:20070104 |
|
Oryza gramene |
|
From Inparanoid:20070104 |
|
Pan troglodytes |
|
From Inparanoid:20070104 |
|
Rattus norvegicus |
|
From Inparanoid:20070104 |
|
Saccharomyces cerevisiae |
|
From Inparanoid:20070104 |
|
Schizosaccharomyces pombe |
|
From Inparanoid:20070104 |
|
Takifugu rubripes |
|
From Inparanoid:20070104 |
|
Tetraodon nigroviridis |
|
From Inparanoid:20070104 |
|
Xenopus tropicalis |
|
From Inparanoid:20070104 |
|
Shigella flexneri |
FTSJ |
From SHIGELLACYC |
|
E. coli O157 |
FTSJ |
From ECOO157CYC |
| edit table |
Do-It-Yourself Web Tools
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Notes
Families
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
EcoCyc: |
Escherichia coli str. K-12 substr. MG1655 | |
|
EcoGene: |
Escherichia coli str. K-12 substr. MG1655 | |
|
RegulonDB: |
Escherichia coli str. K-12 substr. MG1655 | |
|
EchoBASE: |
Escherichia coli str. K-12 substr. MG1655 | |
|
ASAP: |
Escherichia coli str. K-12 substr. MG1655 | |
| edit table |
<protect></protect>
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
References
See Help:References for how to manage references in EcoliWiki.
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
- ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
- ↑ 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).
- ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed
Categories
- Genes in OpenBioSystems with Promoter Fusions
- Genes with homologs in Anopheles gambiae
- Genes with homologs in Apis mellifera
- Genes with homologs in Arabidopsis thaliana
- Genes with homologs in Bos taurus
- Genes with homologs in Caenorhabditis briggsae
- Genes with homologs in Caenorhabditis elegans
- Genes with homologs in Canis familiaris
- Genes with homologs in Ciona intestinalis
- Genes with homologs in Danio rerio
- Genes with homologs in Dictyostelium discoideum
- Genes with homologs in Drosophila melanogaster
- Genes with homologs in Drosophila pseudoobscura
- Genes with homologs in Gallus gallus
- Genes with homologs in Homo sapiens
- Genes with homologs in Macaca mulatta
- Genes with homologs in Monodelphis domestica
- Genes with homologs in Mus musculus
- Genes with homologs in Oryza gramene
- Genes with homologs in Pan troglodytes
- Genes with homologs in Rattus norvegicus
- Genes with homologs in Saccharomyces cerevisiae
- Genes with homologs in Schizosaccharomyces pombe
- Genes with homologs in Takifugu rubripes
- Genes with homologs in Tetraodon nigroviridis
- Genes with homologs in Xenopus tropicalis
- Genes with homologs in Shigella flexneri
- Genes with homologs in E. coli O157
