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Protein

DNA base-flipping protein

Gene

atl

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Involved in DNA damage recognition. Binds DNA containing O(6)-methylguanine and larger O(6)-alkylguanine adducts, and to double-stranded DNA that contains an AP (apurinic/apyrimidinic) site (PubMed:16027108, PubMed:18084297, PubMed:19269902, PubMed:20921378). Binds to the damaged base and flips the base out of the DNA duplex into an extrahelical conformation, which allows processing by repair proteins (PubMed:18084297). Works in partnership with the nucleotide excision repair (NER) pathway to enhance the repair of the O(6)-alkylguanine adducts larger than the methyl adduct (PubMed:19269902, PubMed:20921378). Also prevents methyl-directed mismatch repair (MMR)-mediated attack of the O(6)-alkylguanine:T mispairs for the larger alkyl groups (PubMed:20921378).4 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei52 – 521Required for phosphate rotation/nucleotide flippingBy similarity
Sitei66 – 661Arg finger, required for nucleotide flippingBy similarity

GO - Molecular functioni

  • catalytic activity Source: InterPro
  • damaged DNA binding Source: EcoCyc
  • enzyme binding Source: EcoCyc

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

DNA damage

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:G6251-MONOMER.
ECOL316407:JW0444-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA base-flipping protein1 Publication
Alternative name(s):
Alkyltransferase-like protein ATL1 Publication
Gene namesi
Name:atl1 Publication
Synonyms:ybaZ1 Publication
Ordered Locus Names:b0454, JW0444
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13254. ybaZ.

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi83 – 831W → C: Does not confer alkyltransferase activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 129129DNA base-flipping proteinPRO_0000139390Add
BLAST

Proteomic databases

PaxDbiP0AFP2.

Interactioni

Subunit structurei

Interacts with HelD and UvrA.2 Publications

GO - Molecular functioni

  • enzyme binding Source: EcoCyc

Protein-protein interaction databases

BioGridi4259845. 66 interactions.
DIPiDIP-48135N.
IntActiP0AFP2. 13 interactions.
MINTiMINT-1239891.
STRINGi511145.b0454.

Structurei

3D structure databases

ProteinModelPortaliP0AFP2.
SMRiP0AFP2. Positions 31-127.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the MGMT family. ATL subfamily.Curated

Phylogenomic databases

eggNOGiENOG41080UX. Bacteria.
COG3695. LUCA.
HOGENOMiHOG000244138.
InParanoidiP0AFP2.
KOiK07443.
OMAiAVIHQIP.
OrthoDBiEOG6ND0QK.
PhylomeDBiP0AFP2.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR014048. MethylDNA_cys_MeTrfase_DNA-bd.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01035. DNA_binding_1. 1 hit.
[Graphical view]
SUPFAMiSSF46767. SSF46767. 1 hit.
TIGRFAMsiTIGR00589. ogt. 1 hit.

Sequencei

Sequence statusi: Complete.

P0AFP2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLVSCAMRLH SGVFPDYAEK LPQEEKMEKE DSFPQRVWQI VAAIPEGYVT
60 70 80 90 100
TYGDVAKLAG SPRAARQVGG VLKRLPEGST LPWHRVVNRH GTISLTGPDL
110 120
QRQRQALLAE GVMVSGSGQI DLQRYRWNY
Length:129
Mass (Da):14,450
Last modified:December 20, 2005 - v1
Checksum:i584382A5657919CA
GO

Sequence cautioni

The sequence AAB40210.1 differs from that shown. Reason: Frameshift at position 64. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U82664 Genomic DNA. Translation: AAB40210.1. Frameshift.
U00096 Genomic DNA. Translation: AAC73557.1.
AP009048 Genomic DNA. Translation: BAE76234.1.
PIRiF64775.
RefSeqiNP_414988.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC73557; AAC73557; b0454.
BAE76234; BAE76234; BAE76234.
GeneIDi945094.
KEGGiecj:JW0444.
eco:b0454.
PATRICi32116063. VBIEscCol129921_0473.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U82664 Genomic DNA. Translation: AAB40210.1. Frameshift.
U00096 Genomic DNA. Translation: AAC73557.1.
AP009048 Genomic DNA. Translation: BAE76234.1.
PIRiF64775.
RefSeqiNP_414988.1. NC_000913.3.

3D structure databases

ProteinModelPortaliP0AFP2.
SMRiP0AFP2. Positions 31-127.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259845. 66 interactions.
DIPiDIP-48135N.
IntActiP0AFP2. 13 interactions.
MINTiMINT-1239891.
STRINGi511145.b0454.

Proteomic databases

PaxDbiP0AFP2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73557; AAC73557; b0454.
BAE76234; BAE76234; BAE76234.
GeneIDi945094.
KEGGiecj:JW0444.
eco:b0454.
PATRICi32116063. VBIEscCol129921_0473.

Organism-specific databases

EchoBASEiEB3043.
EcoGeneiEG13254. ybaZ.

Phylogenomic databases

eggNOGiENOG41080UX. Bacteria.
COG3695. LUCA.
HOGENOMiHOG000244138.
InParanoidiP0AFP2.
KOiK07443.
OMAiAVIHQIP.
OrthoDBiEOG6ND0QK.
PhylomeDBiP0AFP2.

Enzyme and pathway databases

BioCyciEcoCyc:G6251-MONOMER.
ECOL316407:JW0444-MONOMER.

Miscellaneous databases

PROiP0AFP2.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR014048. MethylDNA_cys_MeTrfase_DNA-bd.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01035. DNA_binding_1. 1 hit.
[Graphical view]
SUPFAMiSSF46767. SSF46767. 1 hit.
TIGRFAMsiTIGR00589. ogt. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence of minutes 4-25 of Escherichia coli."
    Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W.
    Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. "Inhibition of O6-methylguanine-DNA methyltransferase by an alkyltransferase-like protein from Escherichia coli."
    Pearson S.J., Ferguson J., Santibanez-Koref M., Margison G.P.
    Nucleic Acids Res. 33:3837-3844(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DNA-BINDING, MUTAGENESIS OF TRP-83.
  5. "A proteome chip approach reveals new DNA damage recognition activities in Escherichia coli."
    Chen C.S., Korobkova E., Chen H., Zhu J., Jian X., Tao S.C., He C., Zhu H.
    Nat. Methods 5:69-74(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DNA-BINDING, INTERACTION WITH HELD.
    Strain: K12.
  6. "The alkyltransferase-like ybaZ gene product enhances nucleotide excision repair of O(6)-alkylguanine adducts in E. coli."
    Mazon G., Philippin G., Cadet J., Gasparutto D., Fuchs R.P.
    DNA Repair 8:697-703(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DNA-BINDING, INTERACTION WITH UVRA.
    Strain: K12 / AB1157.
  7. "Alkyltransferase-like protein (eATL) prevents mismatch repair-mediated toxicity induced by O6-alkylguanine adducts in Escherichia coli."
    Mazon G., Philippin G., Cadet J., Gasparutto D., Modesti M., Fuchs R.P.
    Proc. Natl. Acad. Sci. U.S.A. 107:18050-18055(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiATL_ECOLI
AccessioniPrimary (citable) accession number: P0AFP2
Secondary accession number(s): P75707, P77119, Q2MBX2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: April 13, 2016
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Does not have alkyltransferase activity. A tryptophan residue replaces the cysteine at the known active site of MGMT.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. 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.