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Protein

Bifunctional transcriptional activator/DNA repair enzyme Ada

Gene

ada

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Is involved in the adaptive response to alkylation damage in DNA caused by alkylating agents. Repairs O6-methylguanine and 04-methylthymine residues in alkylated DNA by a direct and irreversible transfer of the methyl group from the base to one of its own cysteine residues (Cys-321). Also specifically repairs the Sp diastereomer of DNA methylphosphotriester lesions by the same mechanism, although the methyl transfer occurs onto a different cysteine residue (Cys-38). Cannot demethylate the other diastereomer, Rp-methylphosphotriester.1 Publication
The methylation of Ada by methylphosphotriesters in DNA leads to its activation as a transcriptional regulator that activates the transcription of its own gene, ada, and other alkylation resistance genes, alkA, alkB and aidB.1 Publication

Catalytic activityi

DNA (containing Sp-methylphosphotriester) + protein L-cysteine = DNA (without Sp-methylphosphotriester) + protein S-methyl-L-cysteine.1 Publication
DNA (containing 6-O-methylguanine) + protein L-cysteine = DNA (without 6-O-methylguanine) + protein S-methyl-L-cysteine.PROSITE-ProRule annotation1 Publication

Cofactori

Zn2+Note: Binds 1 zinc ion per subunit.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei34 – 341DNA1 Publication
Active sitei38 – 381Nucleophile; methyl group acceptor from methylphosphotriesterPROSITE-ProRule annotation1 Publication
Metal bindingi38 – 381Zinc
Metal bindingi42 – 421Zinc
Binding sitei43 – 431DNA1 Publication
Binding sitei45 – 451DNA1 Publication
Binding sitei67 – 671DNA1 Publication
Metal bindingi69 – 691Zinc
Metal bindingi72 – 721Zinc
Active sitei321 – 3211Nucleophile; methyl group acceptor from either O6-methylguanine or O4-methylthyminePROSITE-ProRule annotation1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi102 – 12120H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • DNA dealkylation involved in DNA repair Source: EcoliWiki
  • DNA demethylation Source: EcoliWiki
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Methyltransferase, Transferase

Keywords - Biological processi

DNA damage, DNA repair, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciEcoCyc:PD00230.
ECOL316407:JW2201-MONOMER.
MetaCyc:PD00230.

Names & Taxonomyi

Protein namesi
Recommended name:
Bifunctional transcriptional activator/DNA repair enzyme Ada
Alternative name(s):
Regulatory protein of adaptive response
Including the following 2 domains:
Methylphosphotriester-DNA--protein-cysteine S-methyltransferase (EC:2.1.1.n11)
Alternative name(s):
Methylphosphotriester-DNA methyltransferase
Methylated-DNA--protein-cysteine methyltransferase (EC:2.1.1.63)
Alternative name(s):
O6-methylguanine-DNA alkyltransferase
Gene namesi
Name:ada
Ordered Locus Names:b2213, JW2201
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10029. ada.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 354354Bifunctional transcriptional activator/DNA repair enzyme AdaPRO_0000018747Add
BLAST

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei128 – 1292Cleavage
Sitei178 – 1792Cleavage

Proteomic databases

PaxDbiP06134.
PRIDEiP06134.

Expressioni

Inductioni

Up-regulated by methylated Ada itself in response to the exposure to alkylating agents.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
hdaP699313EBI-1119501,EBI-545453

Protein-protein interaction databases

BioGridi4261923. 99 interactions.
DIPiDIP-9055N.
IntActiP06134. 13 interactions.
MINTiMINT-1310041.
STRINGi511145.b2213.

Structurei

Secondary structure

1
354
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 63Combined sources
Helixi9 – 179Combined sources
Helixi21 – 233Combined sources
Turni24 – 263Combined sources
Beta strandi27 – 315Combined sources
Turni32 – 343Combined sources
Beta strandi36 – 383Combined sources
Helixi49 – 513Combined sources
Beta strandi52 – 576Combined sources
Helixi58 – 636Combined sources
Beta strandi67 – 693Combined sources
Turni70 – 723Combined sources
Beta strandi76 – 783Combined sources
Helixi79 – 9315Combined sources
Beta strandi96 – 983Combined sources
Helixi102 – 1098Combined sources
Helixi113 – 12311Combined sources
Helixi128 – 13710Combined sources
Turni142 – 1443Combined sources
Beta strandi190 – 1967Combined sources
Beta strandi199 – 2057Combined sources
Beta strandi207 – 21711Combined sources
Helixi219 – 22911Combined sources
Helixi240 – 25415Combined sources
Beta strandi255 – 2573Combined sources
Helixi270 – 27910Combined sources
Helixi290 – 2967Combined sources
Helixi303 – 3119Combined sources
Helixi321 – 3233Combined sources
Helixi338 – 34811Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ADNNMR-A1-92[»]
1EYFNMR-A1-92[»]
1SFEX-ray2.10A175-354[»]
1U8BX-ray2.10A9-139[»]
1WPKNMR-A1-146[»]
1ZGWNMR-A1-139[»]
ProteinModelPortaliP06134.
SMRiP06134. Positions 1-146, 187-351.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP06134.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini85 – 18399HTH araC/xylS-typePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 171171Methylphosphotriester-DNA--protein-cysteine methyltransferaseAdd
BLAST
Regioni181 – 354174Methylated-DNA--protein-cysteine methyltransferaseAdd
BLAST

Domaini

Consists of two domains. The 20 kDa N-terminal domain repairs the Sp diastereomer of methylphosphotriesters and, in its methylated form, binds DNA in a sequence-specific manner. The 19 kDa C-terminal domain repairs the mutagenic lesions O6-methylguanine. Each domain retains its activity when separated form the other.1 Publication

Sequence similaritiesi

In the C-terminal section; belongs to the MGMT family.Curated
Contains 1 HTH araC/xylS-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4105K85. Bacteria.
COG0350. LUCA.
COG2169. LUCA.
HOGENOMiHOG000244139.
InParanoidiP06134.
KOiK10778.
OMAiRFAIGQC.
PhylomeDBiP06134.

Family and domain databases

CDDicd06445. ATase. 1 hit.
Gene3Di1.10.10.10. 1 hit.
1.10.10.60. 1 hit.
3.40.10.10. 1 hit.
InterProiIPR004026. Ada_DNA_repair_Zn-bd.
IPR016221. Bifunct_regulatory_prot_Ada.
IPR009057. Homeodomain-like.
IPR018060. HTH_AraC.
IPR018062. HTH_AraC-typ_CS.
IPR001497. MethylDNA_cys_MeTrfase_AS.
IPR014048. MethylDNA_cys_MeTrfase_DNA-bd.
IPR008332. MethylG_MeTrfase_N.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF02805. Ada_Zn_binding. 1 hit.
PF01035. DNA_binding_1. 1 hit.
PF12833. HTH_18. 1 hit.
PF02870. Methyltransf_1N. 1 hit.
[Graphical view]
PIRSFiPIRSF000409. Ada. 1 hit.
SMARTiSM00342. HTH_ARAC. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF46767. SSF46767. 1 hit.
SSF53155. SSF53155. 1 hit.
SSF57884. SSF57884. 1 hit.
TIGRFAMsiTIGR00589. ogt. 1 hit.
PROSITEiPS00041. HTH_ARAC_FAMILY_1. 2 hits.
PS01124. HTH_ARAC_FAMILY_2. 1 hit.
PS00374. MGMT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P06134-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKATCLTDD QRWQSVLARD PNADGEFVFA VRTTGIFCRP SCRARHALRE
60 70 80 90 100
NVSFYANASE ALAAGFRPCK RCQPEKANAQ QHRLDKITHA CRLLEQETPV
110 120 130 140 150
TLEALADQVA MSPFHLHRLF KATTGMTPKA WQQAWRARRL RESLAKGESV
160 170 180 190 200
TTSILNAGFP DSSSYYRKAD ETLGMTAKQF RHGGENLAVR YALADCELGR
210 220 230 240 250
CLVAESERGI CAILLGDDDA TLISELQQMF PAADNAPADL MFQQHVREVI
260 270 280 290 300
ASLNQRDTPL TLPLDIRGTA FQQQVWQALR TIPCGETVSY QQLANAIGKP
310 320 330 340 350
KAVRAVASAC AANKLAIIIP CHRVVRGDGT LSGYRWGVSR KAQLLRREAE

NEER
Length:354
Mass (Da):39,324
Last modified:February 1, 1994 - v2
Checksum:i4163E585C768C2F4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti134 – 1341A → R in AAA23412 (PubMed:2987251).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti75 – 751E → D in strain: B.
Natural varianti79 – 802AQ → PR in strain: B.
Natural varianti318 – 3181I → V in strain: B.
Natural varianti330 – 3301T → S in strain: B.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M10211 Genomic DNA. Translation: AAA23412.1.
M10315 Genomic DNA. Translation: AAA23413.1.
U00008 Genomic DNA. Translation: AAA16408.1.
U00096 Genomic DNA. Translation: AAC75273.1.
AP009048 Genomic DNA. Translation: BAA15996.1.
J02607 Genomic DNA. Translation: AAA23415.1.
M13155 Genomic DNA. Translation: AAA23418.1.
M13828 Genomic DNA. Translation: AAA23417.1.
PIRiC64991. XYECO2.
RefSeqiNP_416717.1. NC_000913.3.
WP_000710375.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75273; AAC75273; b2213.
BAA15996; BAA15996; BAA15996.
GeneIDi946710.
KEGGiecj:JW2201.
eco:b2213.
PATRICi32119785. VBIEscCol129921_2302.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M10211 Genomic DNA. Translation: AAA23412.1.
M10315 Genomic DNA. Translation: AAA23413.1.
U00008 Genomic DNA. Translation: AAA16408.1.
U00096 Genomic DNA. Translation: AAC75273.1.
AP009048 Genomic DNA. Translation: BAA15996.1.
J02607 Genomic DNA. Translation: AAA23415.1.
M13155 Genomic DNA. Translation: AAA23418.1.
M13828 Genomic DNA. Translation: AAA23417.1.
PIRiC64991. XYECO2.
RefSeqiNP_416717.1. NC_000913.3.
WP_000710375.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ADNNMR-A1-92[»]
1EYFNMR-A1-92[»]
1SFEX-ray2.10A175-354[»]
1U8BX-ray2.10A9-139[»]
1WPKNMR-A1-146[»]
1ZGWNMR-A1-139[»]
ProteinModelPortaliP06134.
SMRiP06134. Positions 1-146, 187-351.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261923. 99 interactions.
DIPiDIP-9055N.
IntActiP06134. 13 interactions.
MINTiMINT-1310041.
STRINGi511145.b2213.

Proteomic databases

PaxDbiP06134.
PRIDEiP06134.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75273; AAC75273; b2213.
BAA15996; BAA15996; BAA15996.
GeneIDi946710.
KEGGiecj:JW2201.
eco:b2213.
PATRICi32119785. VBIEscCol129921_2302.

Organism-specific databases

EchoBASEiEB0028.
EcoGeneiEG10029. ada.

Phylogenomic databases

eggNOGiENOG4105K85. Bacteria.
COG0350. LUCA.
COG2169. LUCA.
HOGENOMiHOG000244139.
InParanoidiP06134.
KOiK10778.
OMAiRFAIGQC.
PhylomeDBiP06134.

Enzyme and pathway databases

BioCyciEcoCyc:PD00230.
ECOL316407:JW2201-MONOMER.
MetaCyc:PD00230.

Miscellaneous databases

EvolutionaryTraceiP06134.
PROiP06134.

Family and domain databases

CDDicd06445. ATase. 1 hit.
Gene3Di1.10.10.10. 1 hit.
1.10.10.60. 1 hit.
3.40.10.10. 1 hit.
InterProiIPR004026. Ada_DNA_repair_Zn-bd.
IPR016221. Bifunct_regulatory_prot_Ada.
IPR009057. Homeodomain-like.
IPR018060. HTH_AraC.
IPR018062. HTH_AraC-typ_CS.
IPR001497. MethylDNA_cys_MeTrfase_AS.
IPR014048. MethylDNA_cys_MeTrfase_DNA-bd.
IPR008332. MethylG_MeTrfase_N.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF02805. Ada_Zn_binding. 1 hit.
PF01035. DNA_binding_1. 1 hit.
PF12833. HTH_18. 1 hit.
PF02870. Methyltransf_1N. 1 hit.
[Graphical view]
PIRSFiPIRSF000409. Ada. 1 hit.
SMARTiSM00342. HTH_ARAC. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF46767. SSF46767. 1 hit.
SSF53155. SSF53155. 1 hit.
SSF57884. SSF57884. 1 hit.
TIGRFAMsiTIGR00589. ogt. 1 hit.
PROSITEiPS00041. HTH_ARAC_FAMILY_1. 2 hits.
PS01124. HTH_ARAC_FAMILY_2. 1 hit.
PS00374. MGMT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiADA_ECOLI
AccessioniPrimary (citable) accession number: P06134
Secondary accession number(s): Q47032
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 1, 1988
Last sequence update: February 1, 1994
Last modified: September 7, 2016
This is version 174 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

This enzyme catalyzes only one turnover and therefore is not strictly catalytic. According to one definition, an enzyme is a biocatalyst that acts repeatedly and over many reaction cycles.

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Multifunctional enzyme, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.