rlmB:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

RlmB

Synonyms

23S rRNA (Gm2251)-methyltransferase[1], RlmB[2][1], YjfH[2][1], B4180[2][1] , ECK4176, JW4138, yjfH, b4180

Product description

23S rRNA methyltransferase monomer[2][3];

Component of 23S rRNA methyltransferase[3]

23S rRNA mG2251 methyltransferase, SAM-dependent[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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001537

F

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

Protein

Subunits of 23S rRNA methyltransferase

could be indirect

Protein

ybfO

PMID:15690043[5]

Experiment(s):EBI-889499

Protein

yjeE

PMID:15690043[5]

Experiment(s):EBI-889499

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplF

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplR

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplS

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpmB

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpmG

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpsB

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpsG

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpsJ

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rpsU

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

yjeF

PMID:15690043[5]

Experiment(s):EBI-894497

Protein

rplM

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpmG

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsU

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplF

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplR

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

yjeE

PMID:19402753[6]

LCMS(ID Probability):84.4 MALDI(Z-score):21.236787

Protein

yjeF

PMID:19402753[6]

LCMS(ID Probability):99.6

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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 

MSEMIYGIHA VQALLERAPE RFQEVFILKG REDKRLLPLI HALESQGVVI QLANRQYLDE
KSDGAVHQGI IARVKPGRQY QENDLPDLIA SLDQPFLLIL DGVTDPHNLG ACLRSADAAG
VHAVIVPKDR SAQLNATAKK VACGAAESVP LIRVTNLART MRMLQEENIW IVGTAGEADH
TLYQSKMTGR LALVMGAEGE GMRRLTREHC DELISIPMAG SVSSLNVSVA TGICLFEAVR QRS
Length

243

Mol. Wt

26.556 kDa

pI

6.6 (calculated)

Extinction coefficient

11,460 - 11,960 (calc based on 4 Y, 1 W, and 4 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

95..236

PF00588 SpoU rRNA Methylase family

PMID:19920124[7]

Domain

4..80

PF08032 RNA 2'-O ribose methyltransferase substrate binding

PMID:19920124[7]

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

Structures

<beststructure> gene=rlmB 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:16132002

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948694

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013684

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P63177

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7845

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12483

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948694

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004341

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2376

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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 5.11 5.12 5.13 5.14 5.15 5.16 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 6.7 6.8 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  7. ↑ 7.0 7.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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