selU: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

YbbB

Synonyms

tRNA 2-selenouridine synthase, selenophosphate-dependent[1], B0503[2][1], YbbB[2][1]

Product description

EG11768[2][3]

tRNA 2-selenouridine synthase, selenophosphate-dependent; replaces a sulfur atom in 2-thiouridine in tRNA with selenium; required for 5-methylaminomethyl-2-selenouridine synthesis[4]

EC number (for enzymes)


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Notes

Function

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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(s) Evidence Code with/from Aspect Notes Status
GO:0016785

transferase activity, transferring selenium-containing groups

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01622

F

Seeded from EcoCyc [5]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [5]

complete

GO:0008430

selenium binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0711

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0001887

selenium metabolic process

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01622

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0006399

tRNA metabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0002098

tRNA wobble uridine modification

PMID:14594807[7]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc [5]

complete

GO:0016786

selenotransferase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017582

F

Seeded from EcoCyc [5]

complete

GO:0043828

tRNA 2-selenouridine synthase activity

PMID:14594807[7]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc [5]

complete

GO:0001887

selenium metabolic process

GO_REF:0000020
GO_REF:0000002

IEA: Inferred from Electronic Annotation

HAMAP:MF_01622
InterPro:IPR017582

P

Seeded from EcoCyc

complete

GO:0002098

tRNA wobble uridine modification

PMID:14594807[7]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc

complete

GO:0008430

selenium binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR017582
SP_KW:KW-0711

F

Seeded from EcoCyc

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc

complete

GO:0009451

RNA modification

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0016785

transferase activity, transferring selenium-containing groups

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01622

F

Seeded from EcoCyc

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
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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 Notes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MQERHTEQDY RALLIADTPI IDVRAPIEFE HGAMPAAINL PLMNNDERAA VGTCYKQQGS
DAALALGHKL VAGEIRQQRM DAWRAACLQN PQGILCCARG GQRSHIVQSW LHAAGIDYPL
VEGGYKALRQ TAIQATIELA QKPIVLIGGC TGSGKTLLVQ QQPNGVDLEG LARHRGSAFG
RTLQPQLSQA SFENLLAAEM LKTDARQNLR LWVLEDESRM IGSNHLPECL RERMTQAAIA
VVEDPFEIRL ERLNEEYFLR MHHDFTHAYG DEQGWQEYCE YLHHGLSAIK RRLGLQRYNE
LAARLDAALT TQLTTGSTDG HLAWLVPLLE EYYDPMYRYQ LEKKAEKVVF RGEWAEVAEW VKAR
Length

364

Mol. Wt

41.11 kDa (calc) [2]

pI
Extinction coefficient

57870 - 58745 (calc based on 13 Y, 7 W, and 7 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
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<motif_map/>

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

Structures

<beststructure>ybbB 562</beststructure>

Models

View models at:

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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

EcoCyc (EcoliWiki Page)

EcoCyc:EG11768-MONOMER

UniProt (EcoliWiki Page)

UniProt:P33667

RefSeq (EcoliWiki Page)

RefSeq:NP_415036

ModBase (EcoliWiki Page)

ModBase:P33667


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Notes

Links

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Name URL Comments
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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 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 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 5.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.0 7.1 7.2 Wolfe, MD et al. (2004) Functional diversity of the rhodanese homology domain: the Escherichia coli ybbB gene encodes a selenophosphate-dependent tRNA 2-selenouridine synthase. J. Biol. Chem. 279 1801-9 PubMed


Categories

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