rluD: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

RluD

Synonyms

23S rRNA pseudouridine synthase[1], B2594[2][1], YfiI[2][1], RluD[2][1], SfhB[2][1] , ECK2592, JW2576, sfhB, yfiI, b2594

Product description

23S rRNA pseudouridine synthase[2][3]

23S rRNA pseudouridine synthase; specific to U1911, U1915, and U1917; mutation supresses ftsH(Ts) mutants; null mutants grow very poorly[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:IPR002942

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006145

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006224

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006225

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020103

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:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006145

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006224

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006225

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020103

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

ymdF

PMID:15690043[5]

Experiment(s):EBI-889664

Protein

pepQ

PMID:15690043[5]

Experiment(s):EBI-882193

Protein

ycaO

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

galF

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

talA

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

prs

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

rpsJ

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

groL

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

ycgL

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

zwf

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

thiD

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

OrderedLocusNames=b4223,JW4182

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

glpD

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

mlc

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

ybgC

PMID:16606699[6]

Experiment(s):EBI-1143426

Protein

pepQ

PMID:19402753[7]

MALDI(Z-score):27.511193

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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 

MAQRVQLTAT VSENQLGQRL DQALAEMFPD YSRSRIKEWI LDQRVLVNGK VCDKPKEKVL
GGEQVAINAE IEEEARFEPQ DIPLDIVYED EDIIIINKPR DLVVHPGAGN PDGTVLNALL
HYYPPIADVP RAGIVHRLDK DTTGLMVVAK TVPAQTRLVE SLQRREITRE YEAVAIGHMT
AGGTVDEPIS RHPTKRTHMA VHPMGKPAVT HYRIMEHFRV HTRLRLRLET GRTHQIRVHM
AHITHPLVGD PVYGGRPRPP KGASEAFIST LRKFDRQALH ATMLRLYHPI SGIEMEWHAP
IPQDMVELIE VMRADFEEHK DEVDWL
Length

326

Mol. Wt

37.121 kDa

pI

6.8 (calculated)

Extinction coefficient

28,420 - 28,545 (calc based on 8 Y, 3 W, and 1 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

Initiator Methionine

1

Removed

UniProt:P33643

Domain

18..65

PF01479 S4 domain

PMID:19920124[8]

Domain

92..242

PF00849 RNA pseudouridylate synthase

PMID:19920124[8]

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

Structures

<beststructure> gene=rluD 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:16130515

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947087

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008532

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P33643

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12098

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12098

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947087

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002003

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2022

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 2.4 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 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 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 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 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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