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HhH-GPD superfamily base excision DNA repair protein
This family contains a diverse range of structurally related DNA repair proteins. The superfamily is called the HhH-GPD family after its hallmark Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate [2]. This includes endonuclease III, EC:4.2.99.18 and MutY an A/G-specific adenine glycosylase, both have a C terminal 4Fe-4S cluster. The family also includes 8-oxoguanine DNA glycosylases such as Swiss:P53397. The methyl-CPG binding protein MBD4 Swiss:Q9Z2D7 also contains a related domain [1] that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other members of the AlkA family. [1]. 10499592. The thymine glycosylase MBD4 can bind to the product of. deamination at methylated CpG sites.. Hendrich B, Hardeland U, Ng HH, Jiricny J, Bird A;. Nature 1999;401:301-304.. [2]. 10706276. Structural basis for recognition and repair of the endogenous. mutagen 8-oxoguanine in DNA.. Bruner SD, Norman DP, Verdine GL;. Nature 2000;403:859-866. (from Pfam)
endonuclease III
endonuclease III is a DNA repair enzyme that has both DNA N-glycosylase and AP-lyase activities
This equivalog HMM identifes nth members of the PF00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
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