1tdz Summary


Crystal Structure Complex Between the Lactococcus Lactis FPG (Mutm) and a FAPY-dG Containing DNA

The structure was published by Coste, F., Ober, M., Carell, T., Boiteux, S., Zelwer, C., and Castaing, B., in 2004 in a paper entitled "Structural basis for the recognition of the FapydG lesion (2,6-diamino-4-hydroxy-5-formamidopyrimidine) by formamidopyrimidine-DNA glycosylase" (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 1.8 Å and deposited in 2004.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 3 biomacromolecules, namely 5'-D(*CP*TP*CP*TP*TP*TP*(FOX)P*TP*TP*TP*CP*TP*CP*G)-3', 5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3', and formamidopyrimidine-DNA glycosylase.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule most likely forms heterotrimers.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):

Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A formamidopyrimidine-DNA glycosylase P42371 (1-273) (FPG_LACLC)search Lactococcus lactis subsp. cremorissearch 99% 272 97%

This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
P42371 (1 - 273) formamidopyrimidine-DNA glycosylase Lactococcus lactis

Chain Structural classification (SCOP) Sequence family (Pfam)
A (P42371) Middle domain of MutM-like DNA repair proteinssearch, N-terminal domain of MutM-like DNA repair proteinssearch, C-terminal, Zn-finger domain of MutM-like DNA repair proteinssearch PF01149: Formamidopyrimidine-DNA glycosylase N-terminal domainsearch, PF06827: Zinc finger found in FPG and IleRSsearch, PF06831: Formamidopyrimidine-DNA glycosylase H2TH domainsearch

Chain ID Molecular function (GO) Biological process (GO)
A (P42371) DNA-(apurinic or apyrimidinic site) lyase activitysearch catalytic activitysearch zinc ion bindingsearch DNA bindingsearch oxidized purine nucleobase lesion DNA N-glycosylase activitysearch hydrolase activity, acting on glycosyl bondssearch hydrolase activitysearch metal ion bindingsearch damaged DNA bindingsearch nucleic acid bindingsearch hydrolase activity, hydrolyzing N-glycosyl compoundssearch lyase activitysearch DNA repairsearch nucleotide-excision repairsearch metabolic processsearch cellular response to DNA damage stimulussearch DNA catabolic process, endonucleolyticsearch base-excision repairsearch

Chain InterPro annotation
A DNA glycosylase/AP lyasesearch Zinc finger, DNA glycosylase/AP lyase-typesearch Zinc finger, DNA glycosylase/AP lyase/isoleucyl tRNA synthetasesearch Ribosomal protein S13-like, H2THsearch DNA glycosylase/AP lyase, catalytic domainsearch DNA glycosylase/AP lyase, H2TH DNA-bindingsearch DNA glycosylase/AP lyase, zinc finger domain, DNA-binding sitesearch Formamidopyrimidine-DNA glycosylasesearch