rimO: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

RimO

Synonyms

predicted SAM-dependent methyltransferase[1], B0835[2][1], YliG[2][1] , ECK0825, JW0819, yliG, b0835

Product description

predicted SAM-dependent methylase[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.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0005506

iron ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc (v14.0)

complete

GO:0005575

cellular component

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020612

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01865

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005840

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:0009451

RNA modification

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005839

P

Seeded from EcoCyc (v14.0)

complete

GO:0009451

RNA modification

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013848

P

Seeded from EcoCyc (v14.0)

complete

GO:0018339

peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01865

P

Seeded from EcoCyc (v14.0)

complete

GO:0018339

peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005840

P

Seeded from EcoCyc (v14.0)

complete

GO:0018339

peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid

PMID:19736993[4]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

GO:0050497

transferase activity, transferring alkylthio groups

PMID:18252828[5]

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0050497

transferase activity, transferring alkylthio groups

PMID:19736993[4]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01865

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005839

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005840

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013848

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020612

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0004

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

PMID:19736993[4]

IDA: Inferred from Direct Assay

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

rplQ

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

rpsE

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

nadE

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

fur

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

dnaK

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

slyB

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

rhsA

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

rhsC

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

rpsD

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

dtd

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

stpA

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

sdhA

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

ybgA

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

rpsC

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

cybC

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

iscS

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

uspG

PMID:16606699[6]

Experiment(s):EBI-1138150

Protein

secA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

gadB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

clpB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

elaB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

gnd

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

purL

PMID:19402753[7]

LCMS(ID Probability):99.2

Protein

slyD

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

dnaN

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

dps

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

ybiA

PMID:19402753[7]

LCMS(ID Probability):99.0

Protein

ydfZ

PMID:19402753[7]

LCMS(ID Probability):99.3

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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 

MSKVTPQPKI GFVSLGCPKN LVDSERILTE LRTEGYDVVP SYDDADMVIV NTCGFIDSAV
QESLEAIGEA LNENGKVIVT GCLGAKEDQI REVHPKVLEI TGPHSYEQVL EHVHHYVPKP
KHNPFLSLVP EQGVKLTPRH YAYLKISEGC NHRCTFCIIP SMRGDLVSRP IGEVLSEAKR
LVDAGVKEIL VISQDTSAYG VDVKHRTGFH NGEPVKTSMV SLCEQLSKLG IWTRLHYVYP
YPHVDDVIPL MAEGKILPYL DIPLQHASPR ILKLMKRPGS VDRQLARIKQ WREICPELTL
RSTFIVGFPG ETEEDFQMLL DFLKEARLDR VGCFKYSPVE GADANALPDQ VPEEVKEERW
NRFMQLQQQI SAERLQEKVG REILVIIDEV DEEGAIGRSM ADAPEIDGAV YLNGETNVKP
GDILRVKVEH ADEYDLWGSR V
Length

441

Mol. Wt

49.581 kDa

pI

5.3 (calculated)

Extinction coefficient

42,860 - 43,985 (calc based on 14 Y, 4 W, and 9 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

144..323

PF04055 Radical SAM superfamily

PMID:19920124[8]

Domain

9..102

PF00919 Uncharacterized protein family UPF0004

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=yliG 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:16128803

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945465

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AEI4

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945465

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:

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. ↑ 4.0 4.1 4.2 Lee, KH et al. (2009) Characterization of RimO, a new member of the methylthiotransferase subclass of the radical SAM superfamily. Biochemistry 48 10162-74 PubMed
  5. ↑ Anton, BP et al. (2008) RimO, a MiaB-like enzyme, methylthiolates the universally conserved Asp88 residue of ribosomal protein S12 in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 105 1826-31 PubMed
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 6.11 6.12 6.13 6.14 6.15 6.16 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 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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