rlmF:Gene Product(s)

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

Nomenclature

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Standard name

YbiN

Synonyms

predicted SAM-dependent methyltransferase[1], YbiN[2][1], B0807[2][1] , ECK0796, JW5107, ybiN, b0807

Product description

predicted SAM-dependent methyltransferase[2][3]

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. 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

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01848

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016909

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:0008988

rRNA (adenine-N6-)-methyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01848

F

Seeded from EcoCyc (v14.0)

complete

GO:0008988

rRNA (adenine-N6-)-methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016909

F

Seeded from EcoCyc (v14.0)

complete

GO:0008988

rRNA (adenine-N6-)-methyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.1.48

F

Seeded from EcoCyc (v14.0)

complete

GO:0070475

rRNA base methylation

PMID:18021804[4]

IMP: Inferred from Mutant Phenotype

P

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

rpsM

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

tig

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

pykF

PMID:19402753[5]

LCMS(ID Probability):99.6

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Notes

Localization

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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 

MGNDKRSQIF TLSRYAGILR RCLKENAMSA QKPGLHPRNR HHSRYDLATL CQVNPELRQF
LTLTPAGEQS VDFANPLAVK ALNKALLAHF YAVANWDIPD GFLCPPVPGR ADYIHHLADL
LAEASGTIPA NASILDIGVG ANCIYPLIGV HEYGWRFTGS ETSSQALSSA QAIISSNPGL
NRAIRLRRQK ESGAIFNGII HKNEQYDATL CNPPFHDSAA AARAGSERKR RNLGLNKDDA
LNFGGQQQEL WCEGGEVTFI KKMIEESKGF AKQVMWFTSL VSRGENLPPL YRALTDVGAV
KVVKKEMAQG QKQSRFIAWT FMNDEQRRRF VNRQR
Length

335

Mol. Wt

37.35 kDa

pI

9.8 (calculated)

Extinction coefficient

39,420 - 40,170 (calc based on 8 Y, 5 W, and 6 C residues)

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Domains/Motifs/Modification Sites

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Type Residues Description Notes References

Domain

2..296

PF05971 Protein of unknown function (DUF890)

PMID:19920124[6]

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<motif_map/>

Structure
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Structures

<beststructure> gene=rlmF taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

Structure figures

<protect>

</protect>

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:162135897

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944938

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002757

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75782

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6416

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13319

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944938

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003016

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3103

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ Sergiev, PV et al. (2008) The ybiN gene of Escherichia coli encodes adenine-N6 methyltransferase specific for modification of A1618 of 23 S ribosomal RNA, a methylated residue located close to the ribosomal exit tunnel. J. Mol. Biol. 375 291-300 PubMed
  5. ↑ 5.0 5.1 5.2 5.3 5.4 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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