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P42371 (FPG_LACLC) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 105. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Formamidopyrimidine-DNA glycosylase

Short name=Fapy-DNA glycosylase
EC=3.2.2.23
Alternative name(s):
DNA-(apurinic or apyrimidinic site) lyase MutM
Short name=AP lyase MutM
EC=4.2.99.18
Gene names
Name:mutM
Synonyms:fpg
OrganismLactococcus lactis subsp. cremoris (Streptococcus cremoris)
Taxonomic identifier1359 [NCBI]
Taxonomic lineageBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeLactococcus

Protein attributes

Sequence length273 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8-oxoguanine (8-oxoG). Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Ref.1

Catalytic activity

Hydrolysis of DNA containing ring-opened 7-methylguanine residues, releasing 2,6-diamino-4-hydroxy-5-(N-methyl)formamidopyrimidine. HAMAP-Rule MF_00103

The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate. HAMAP-Rule MF_00103

Cofactor

Binds 1 zinc ion per subunit.

Subunit structure

Monomer.

Miscellaneous

The zinc finger is important for DNA binding.

Sequence similarities

Belongs to the FPG family.

Contains 1 FPG-type zinc finger.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed Ref.1
Chain2 – 273272Formamidopyrimidine-DNA glycosylase HAMAP-Rule MF_00103
PRO_0000170830

Regions

Zinc finger238 – 27235FPG-type HAMAP-Rule MF_00103
Region58 – 7619DNA binding HAMAP-Rule MF_00103
Region162 – 17211DNA binding HAMAP-Rule MF_00103

Sites

Active site21Schiff-base intermediate with DNA Probable
Active site31Proton donor Probable
Active site581Proton donor; for beta-elimination activity Probable
Active site2621Proton donor; for delta-elimination activity Probable
Binding site921DNA
Binding site1101DNA

Experimental info

Mutagenesis21P → G: Loss of activity.

Secondary structure

..................................................... 273
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P42371 [UniParc].

Last modified January 23, 2007. Version 3.
Checksum: EB16055C5E09840F

FASTA27331,310
        10         20         30         40         50         60 
MPELPEVETV RRELEKRIVG QKIISIEATY PRMVLTGFEQ LKKELTGKTI QGISRRGKYL 

        70         80         90        100        110        120 
IFEIGDDFRL ISHLRMEGKY RLATLDAPRE KHDHLTMKFA DGQLIYADVR KFGTWELIST 

       130        140        150        160        170        180 
DQVLPYFLKK KIGPEPTYDE DFDEKLFREK LRKSTKKIKP YLLEQTLVAG LGNIYVDEVL 

       190        200        210        220        230        240 
WLAKIHPEKE TNQLIESSIH LLHDSIIEIL QKAIKLGGSS IRTYSALGST GKMQNELQVY 

       250        260        270 
GKTGEKCSRC GAEIQKIKVA GRGTHFCPVC QQK 

« Hide

References

[1]"Repair of oxidative DNA damage in Gram-positive bacteria: the Lactococcus lactis Fpg protein."
Duwat P., de Oliveira R., Ehrlich S.D., Boiteux S.
Microbiology 141:411-417(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 2-22, FUNCTION.
Strain: NCDO 763 / ML3.
[2]"Use of degenerate primers for polymerase chain reaction cloning and sequencing of the Lactococcus lactis subsp. lactis recA gene."
Duwat P., Ehrlich S.D., Gruss A.
Appl. Environ. Microbiol. 58:2674-2678(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 194-273.
Strain: NCDO 763 / ML3.
[3]"Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA."
Serre L., Pereira de Jesus K., Boiteux S., Zelwer C., Castaing B.
EMBO J. 21:2854-2865(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 1-273 OF MUTANT GLY-2 IN COMPLEX WITH SUBSTRATE ANALOG.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X74298 Genomic DNA. Translation: CAA52351.1.
M88106 Genomic DNA. No translation available.
PIRS39200.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1KFVX-ray2.55A/B3-273[»]
1NNJX-ray1.90A3-273[»]
1PJIX-ray1.90A2-273[»]
1PJJX-ray1.90A3-273[»]
1PM5X-ray1.95A2-273[»]
1TDZX-ray1.80A1-273[»]
1XC8X-ray1.95A2-273[»]
2XZFX-ray1.80A2-273[»]
2XZUX-ray1.82A2-273[»]
3C58X-ray1.90A2-273[»]
ProteinModelPortalP42371.
SMRP42371. Positions 2-273.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

HAMAPMF_00103. Fapy_DNA_glycosyl.
InterProIPR015886. DNA_glyclase/AP_lyase_DNA-bd.
IPR015887. DNA_glyclase_Znf_dom_DNA_BS.
IPR000191. DNA_glycosylase/AP_lyase.
IPR012319. DNA_glycosylase/AP_lyase_cat.
IPR020629. Formamido-pyr_DNA_Glyclase.
IPR010979. Ribosomal_S13-like_H2TH.
IPR000214. Znf_DNA_glyclase/AP_lyase.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view]
PfamPF01149. Fapy_DNA_glyco. 1 hit.
PF06831. H2TH. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view]
SMARTSM00898. Fapy_DNA_glyco. 1 hit.
[Graphical view]
SUPFAMSSF46946. SSF46946. 1 hit.
SSF81624. SSF81624. 1 hit.
TIGRFAMsTIGR00577. fpg. 1 hit.
PROSITEPS51068. FPG_CAT. 1 hit.
PS01242. ZF_FPG_1. 1 hit.
PS51066. ZF_FPG_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP42371.

Entry information

Entry nameFPG_LACLC
AccessionPrimary (citable) accession number: P42371
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: January 23, 2007
Last modified: February 19, 2014
This is version 105 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references