alkA: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

AlkA

Synonyms

3-methyl-adenine DNA glycosylase II[1], B2068[2][1], AidA[2][1], AlkA[2][1] , aidA, ECK2062, JW2053, b2068

Product description

3-methyl-adenine DNA glycosylase II, inducible[2][3]

3-methyl-adenine DNA glycosylase II, inducible; repairs by single-and double-strand excision of 3-methyl adenine[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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012294

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011257

F

Seeded from EcoCyc (v14.0)

complete

GO:0003905

alkylbase DNA N-glycosylase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000035

F

Seeded from EcoCyc (v14.0)

complete

GO:0006284

base-excision repair

PMID:7982966[5]

IDA: Inferred from Direct Assay

P

complete

GO:0003905

alkylbase DNA N-glycosylase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.2.2.21

F

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

PMID:7982966[5]

IDA: Inferred from Direct Assay

P

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000035

P

Seeded from EcoCyc (v14.0)

complete

GO:0003905

alkylbase DNA N-glycosylase activity

PMID:3536857[6]

IDA: Inferred from Direct Assay

F

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011257

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:3536857[6]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006281

DNA repair

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0234

P

Seeded from EcoCyc (v14.0)

complete

GO:0006307

DNA dealkylation involved in DNA repair

PMID:3536857[6]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006284

base-excision repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003265

P

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

PMID:7982966[5]

IDA: Inferred from Direct Assay

C

complete

GO:0006974

response to DNA damage stimulus

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc (v14.0)

complete

GO:0003905

alkylbase DNA N-glycosylase activity

PMID:7982966[5]

IDA: Inferred from Direct Assay

F

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

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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

aceF

PMID:15690043[7]

Experiment(s):EBI-882436

Protein

xthA

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rplE

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rpsI

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rplD

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rpsD

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rplA

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

yhaJ

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

betI

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

matC

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

slyD

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rplF

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

udk

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rpsC

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

rplQ

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

phnN

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

nadE

PMID:16606699[8]

Experiment(s):EBI-1141837

Protein

adiA

PMID:19402753[9]

MALDI(Z-score):28.892711

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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 

MYTLNWQPPY DWSWMLGFLA ARAVSSVETV ADSYYARSLA VGEYRGVVTA IPDIARHTLH
INLSAGLEPV AAECLAKMSR LFDLQCNPQI VNGALGRLGA ARPGLRLPGC VDAFEQGVRA
ILGQLVSVAM AAKLTARVAQ LYGERLDDFP EYICFPTPQR LAAADPQALK ALGMPLKRAE
ALIHLANAAL EGTLPMTIPG DVEQAMKTLQ TFPGIGRWTA NYFALRGWQA KDVFLPDDYL
IKQRFPGMTP AQIRRYAERW KPWRSYALLH IWYTEGWQPD EA
Length

282

Mol. Wt

31.393 kDa

pI

8.3 (calculated)

Extinction coefficient

67,380 - 67,880 (calc based on 12 Y, 9 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

118..263

PF00730 HhH-GPD superfamily base excision DNA repair protein

PMID:19920124[10]

Domain

1..112

PF06029 AlkA N-terminal domain

PMID:19920124[10]

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

Structures

<beststructure> gene=alkA 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:16130008

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947371

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006848

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P04395

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11222

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11222

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947371

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001200

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1204

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 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. ↑ 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 Bjelland, S et al. (1994) DNA glycosylase activities for thymine residues oxidized in the methyl group are functions of the AlkA enzyme in Escherichia coli. J. Biol. Chem. 269 30489-95 PubMed
  6. ↑ 6.0 6.1 6.2 Kaasen, I et al. (1986) Amplified expression of the tag+ and alkA+ genes in Escherichia coli: identification of gene products and effects on alkylation resistance. J. Bacteriol. 168 642-7 PubMed
  7. ↑ Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 8.13 8.14 8.15 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  9. ↑ Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  10. ↑ 10.0 10.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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