deoC: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

DeoC

Synonyms

2-deoxyribose-5-phosphate aldolase, NAD(P)-linked[1], B4381[2][1], Tlr[2][1], Dra[2][1], ThyR[2][1], DeoC[2][1] , dra, ECK4373, JW4344, thyR, tlr, b4381

Product description

DEOXYRIBOSE-P-ALD- 2-deoxy-D-ribose 5-phosphate aldolase (DERA); deoxyriboaldolase; binds selenium[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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013785

F

Seeded from EcoCyc (v14.0)

complete

GO:0004139

deoxyribose-phosphate aldolase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00592

F

Seeded from EcoCyc (v14.0)

complete

GO:0004139

deoxyribose-phosphate aldolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011343

F

Seeded from EcoCyc (v14.0)

complete

GO:0004139

deoxyribose-phosphate aldolase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.1.2.4

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726[4]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

PMID:5340684[5]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013785

P

Seeded from EcoCyc (v14.0)

complete

GO:0009264

deoxyribonucleotide catabolic process

PMID:5340684[5]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0009264

deoxyribonucleotide catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011343

P

Seeded from EcoCyc (v14.0)

complete

GO:0016052

carbohydrate catabolic process

PMID:6749498[6]

IDA: Inferred from Direct Assay

P

complete

GO:0016020

membrane

PMID:16858726[4]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

PMID:6749498[6]

IDA: Inferred from Direct Assay

F

complete

GO:0016052

carbohydrate catabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00592

P

Seeded from EcoCyc (v14.0)

complete

GO:0004139

deoxyribose-phosphate aldolase activity

PMID:6749498[6]

IDA: Inferred from Direct Assay

F

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071[7]

IEP: Inferred from Expression Pattern

P

complete

GO:0005829

cytosol

PMID:16397293[8]

ISS: Inferred from Sequence or Structural Similarity

PMID:16397293[8]


C

Riley et al. used a variety of methods to determine cell location, including examination of the literature and predictions of transmembrane helices and signal peptides.

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

gltX

PMID:16606699[9]

Experiment(s):EBI-1147944

Protein

nadE

PMID:16606699[9]

Experiment(s):EBI-1147944

Protein

pepD

PMID:16606699[9]

Experiment(s):EBI-1147944
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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

cytoplasm

From EcoCyc[10]


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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 

MTDLKASSLR ALKLMDLTTL NDDDTDEKVI ALCHQAKTPV GNTAAICIYP RFIPIARKTL
KEQGTPEIRI ATVTNFPHGN DDIDIALAET RAAIAYGADE VDVVFPYRAL MAGNEQVGFD
LVKACKEACA AANVLLKVII ETGELKDEAL IRKASEISIK AGADFIKTST GKVAVNATPE
SARIMMEVIR DMGVEKTVGF KPAGGVRTAE DAQKYLAIAD ELFGADWADA RHYRFGASSL
LASLLKALGH GDGKSASSY
Length

259

Mol. Wt

27.734 kDa

pI

5.5 (calculated)

Extinction coefficient

14,440 - 14,940 (calc based on 6 Y, 1 W, and 4 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

10..246

PF01791 DeoC/LacD family aldolase

PMID:19920124[11]

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

Structures

<beststructure> gene=deoC 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:16132198

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948902

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014371

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6L0

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10221

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10221

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948902

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000215

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0217

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 1.6 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. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  4. ↑ 4.0 4.1 Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  5. ↑ 5.0 5.1 Dale, B & Greenberg, GR (1967) Genetic mapping of a mutation in Escherichia coli showing reduced activity of thymidine phosphorylase. J. Bacteriol. 94 778-9 PubMed
  6. ↑ 6.0 6.1 6.2 Valentin-Hansen, P et al. (1982) The primary structure of Escherichia coli K12 2-deoxyribose 5-phosphate aldolase. Nucleotide sequence of the deoC gene and the amino acid sequence of the enzyme. Eur. J. Biochem. 125 561-6 PubMed
  7. ↑ Khil, PP & Camerini-Otero, RD (2002) Over 1000 genes are involved in the DNA damage response of Escherichia coli. Mol. Microbiol. 44 89-105 PubMed
  8. ↑ 8.0 8.1 Riley, M et al. (2006) Escherichia coli K-12: a cooperatively developed annotation snapshot--2005. Nucleic Acids Res. 34 1-9 PubMed
  9. ↑ 9.0 9.1 9.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  10. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  11. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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