dtd: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

Dtd

Synonyms

D-tyr-tRNA(Tyr) deacylase[1], B3887[2][1], Dtd[2][1], YihZ[2][1] , ECK3880, JW3858, yihZ, b3887

Product description

D-Tyr-tRNATyr deacylase[2][3];

Component of [[:Category:Complex:D-Tyr-tRNATyr deacylase|D-Tyr-tRNATyr deacylase]][3]

D-tyrosine tRNA deacylase; also removes other, e.g. D-Trp and D-Asp, toxic D-amino acids from tRNA; dimer[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:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00518

C

Seeded from EcoCyc (v14.0)

complete

GO:0009451

RNA modification

P

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003732

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:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016788

hydrolase activity, acting on ester bonds

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00518

F

Seeded from EcoCyc (v14.0)

complete

GO:0016788

hydrolase activity, acting on ester bonds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003732

F

Seeded from EcoCyc (v14.0)

complete

GO:0019478

D-amino acid catabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00518

P

Seeded from EcoCyc (v14.0)

complete

GO:0019478

D-amino acid catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003732

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

Subunits of [[:Category:Complex:D-Tyr-tRNATyr deacylase|D-Tyr-tRNATyr deacylase]]

could be indirect

Protein

cca

PMID:15690043[5]

Experiment(s):EBI-879990

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-885002

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-885002

Protein

yihI

PMID:15690043[5]

Experiment(s):EBI-885002

Protein

stpA

PMID:16606699[6]

Experiment(s):EBI-1146884

Protein

rplS

PMID:16606699[6]

Experiment(s):EBI-1146884

Protein

rplN

PMID:16606699[6]

Experiment(s):EBI-1146884

Protein

yihI

PMID:19402753[7]

LCMS(ID Probability):99.6

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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 

MIALIQRVTR ASVTVEGEVT GEIGAGLLVL LGVEKDDDEQ KANRLCERVL GYRIFSDAEG
KMNLNVQQAG GSVLVVSQFT LAADTERGMR PSFSKGASPD RAEALYDYFV ERCRQQEMNT
QTGRFAADMQ VSLVNDGPVT FWLQV
Length

145

Mol. Wt

15.949 kDa

pI

4.6 (calculated)

Extinction coefficient

9,970 - 10,220 (calc based on 3 Y, 1 W, and 2 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

2..145

PF02580 D-Tyr-tRNA(Tyr) deacylase

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=dtd 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:16131727

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948378

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012690

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6M4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11852

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11852

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948378

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001783

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1798

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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 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 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 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. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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