yfiF: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

YfiF

Synonyms

predicted methyltransferase[1], B2581[2][1], YfiF[2][1] , ECK2579, JW2565, b2581

Product description

predicted methyltransferase[2][3]

Putative methyltransferase, function unknown; spoU paralog; non-essential gene[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:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001537

F

Seeded from EcoCyc (v14.0)

complete

GO:0006396

RNA processing

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001537

P

Seeded from EcoCyc (v14.0)

complete

GO:0008168

methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013123

F

Seeded from EcoCyc (v14.0)

complete

GO:0008168

methyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0489

F

Seeded from EcoCyc (v14.0)

complete

GO:0008173

RNA methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001537

F

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

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

holB

PMID:15690043[5]

Experiment(s):EBI-879491

Protein

rplA

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rplB

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rplF

PMID:15690043[5]

Experiment(s):EBI-879491

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-879491

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-879491

Protein

rpsD

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rpsF

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rpsG

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rpsM

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-891424

Protein

rluB

PMID:15690043[5]

Experiment(s):EBI-879491, EBI-889536

Protein

rpsH

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsK

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsL

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsN

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsO

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsP

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsR

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsS

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

yfhM

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

dacA

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

hupA

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rplP

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rplR

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rplT

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsT

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsU

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

sufC

PMID:15690043[5]

Experiment(s):EBI-891424

Protein

rpsD

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

hybD

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

ihfA

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

greB

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

rplQ

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

yehZ

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

ybgP

PMID:16606699[6]

Experiment(s):EBI-1143364

Protein

rpsJ

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplP

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsH

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):16.955360

Protein

rplS

PMID:19402753[7]

LCMS(ID Probability):99.4 MALDI(Z-score):4.459057

Protein

rpsM

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):32.877064

Protein

rplU

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsI

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):15.503798

Protein

rpsK

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):3.033690

Protein

rpsF

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):14.882886

Protein

rpsD

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):38.254885

Protein

rpsS

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753[7]

LCMS(ID Probability):97.9 MALDI(Z-score):34.596309

Protein

rplB

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):16.577573

Protein

rpsL

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):36.450286

Protein

rpsR

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsO

PMID:19402753[7]

LCMS(ID Probability):99.2

Protein

rplR

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplD

PMID:19402753[7]

LCMS(ID Probability):98.1 MALDI(Z-score):3.148972

Protein

rpsU

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

sufC

PMID:19402753[7]

LCMS(ID Probability):99.2

Protein

rplQ

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

dacA

PMID:19402753[7]

LCMS(ID Probability):99.2

Protein

rlmL

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):38.983788

Protein

yhiR

PMID:19402753[7]

MALDI(Z-score):34.110125

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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 

MNDEMKGKSG KVKVMYVRSD DDSDKRTHNP RTGKGGGRPG KSRADGGRRP ARDDKQSQPR
DRKWEDSPWR TVSRAPGDET PEKADHGGIS GKSFIDPEVL RRQRAEETRV YGENACQALF
QSRPEAIVRA WFIQSVTPRF KEALRWMAAN RKAYHVVDEA ELTKASGTEH HGGVCFLIKK
RNGTTVQQWV SQAGAQDCVL ALENESNPHN LGGMMRSCAH FGVKGVVVQD AALLESGAAI
RTAEGGAEHV QPITGDNIVN VLDDFRQAGY TVVTTSSEQG KPLFKTSLPA KMVLVLGQEY
EGLPDAARDP NDLRVKIDGT GNVAGLNISV ATGVLLGEWW RQNKA
Length

345

Mol. Wt

37.783 kDa

pI

9.0 (calculated)

Extinction coefficient

45,950 - 46,450 (calc based on 5 Y, 7 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

197..337

PF00588 SpoU rRNA Methylase family

PMID:19920124[8]

Domain

109..183

PF08032 RNA 2'-O ribose methyltransferase substrate binding

PMID:19920124[8]

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<motif_map/>

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

Structures

<beststructure> gene=yfiF 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:16130506

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947066

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008497

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AGJ5

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11786

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11786

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947066

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001720

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1734

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 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. ↑ 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 5.17 5.18 5.19 5.20 5.21 5.22 5.23 5.24 5.25 5.26 5.27 5.28 5.29 5.30 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 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 7.18 7.19 7.20 7.21 7.22 7.23 7.24 7.25 7.26 7.27 7.28 7.29 7.30 7.31 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ 8.0 8.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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