rlmI: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

YccW

Synonyms

predicted methyltransferase[1], YccW[2][1], B0967[2][1] , ECK0958, JW5898, yccW, b0967

Product description

putative methyltransferase[2]; predicted methyltransferase[3]

Function unknown; putative SAM-dependent methyltransferase[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:IPR002478

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01857

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:0005737

cytoplasm

PMID:18786544[5]

IC: Inferred by Curator

GO:0016434

C

Seeded from EcoCyc (v14.0)

complete

GO:0016434

rRNA (cytosine) methyltransferase activity

PMID:18786544[5]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0031167

rRNA methylation

PMID:18786544[5]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0070475

rRNA base methylation

PMID:18786544[5]

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

rpsJ

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsS

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsH

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsR

PMID:19402753[6]

LCMS(ID Probability):99.4

Protein

rpsA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

accA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplP

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsF

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplO

PMID:19402753[6]

LCMS(ID Probability):99.4

Protein

rplI

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplX

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

ycgM

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):4.194165

Protein

rplD

PMID:19402753[6]

LCMS(ID Probability):99.4

Protein

phr

PMID:19402753[6]

LCMS(ID Probability):99.4

Protein

rnr

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rluB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

yeeX

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

yjiC

PMID:19402753[6]

LCMS(ID Probability):99.0

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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 

MEGKASLGET IDIVDHQGKW LARGAYSPAS QIRARVWTFD PSESIDIAFF SRRLQQAQKW
RDWLAQKDGL DSYRLIAGES DGLPGITIDR FGNFLVLQLL SAGAEYQRAA LISALQTLYP
ECSIYDRSDV AVRKKEGMEL TQGPVTGELP PALLPIEEHG MKLLVDIQHG HKTGYYLDQR
DSRLATRRYV ENKRVLNCFS YTGGFAVSAL MGGCSQVVSV DTSQEALDIA RQNVELNKLD
LSKAEFVRDD VFKLLRTYRD RGEKFDVIVM DPPKFVENKS QLMGACRGYK DINMLAIQLL
NEGGILLTFS CSGLMTSDLF QKIIADAAID AGRDVQFIEQ FRQAADHPVI ATYPEGLYLK
GFACRVM
Length

367

Mol. Wt

41.054 kDa

pI

5.8 (calculated)

Extinction coefficient

41,370 - 42,120 (calc based on 13 Y, 4 W, and 6 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

103..381

PF10672 S-adenosylmethionine-dependent methyltransferase

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=yccW 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:145698239

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946691

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75876

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946691

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. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 Purta, E et al. (2008) YccW is the m5C methyltransferase specific for 23S rRNA nucleotide 1962. J. Mol. Biol. 383 641-51 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 6.17 6.18 6.19 6.20 6.21 6.22 6.23 6.24 6.25 6.26 6.27 6.28 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  7. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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