Protein Domain : IPR015886

Type:  Domain Name:  DNA glycosylase/AP lyase, H2TH DNA-binding
Description:  This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Most damage to bases in DNA is repaired by the base excision repair pathway []. These enzymes are primarily from bacteria, and have both DNA glycosylase activity () and AP lyase activity (). Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei).Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; ) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; ). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving 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. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines [, ].Endonuclease VIII (Nei) has the same enzyme activities as Fpg above (, ), but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [].These protein contains three structural domains: an N-terminal catalytic core domain, a central helix-two turn-helix (H2TH) module and a C-terminal zinc finger []. The N-terminal catalytic domain and the C-terminal zinc finger straddle the DNA with the long axis of the protein oriented roughly orthogonal to the helical axis of the DNA. Residues that contact DNA are located in the catalytic domain and in a beta-hairpin loop formed by the zinc finger [].This entry represents the central domain containing the DNA-binding helix-two turn-helix domain []. Short Name:  DNA_glyclase/AP_lyase_DNA-bd

0 Child Features

0 Contains

1 Cross References

Identifier
PF06831

1 Found In

DB identifier Type Name
IPR020629 Family Formamidopyrimidine-DNA glycosylase

5 GO Annotations

GO Term Gene Name
GO:0003684 IPR015886
GO:0003906 IPR015886
GO:0008270 IPR015886
GO:0016799 IPR015886
GO:0006289 IPR015886

5 Ontology Annotations

GO Term Gene Name
GO:0003684 IPR015886
GO:0003906 IPR015886
GO:0008270 IPR015886
GO:0016799 IPR015886
GO:0006289 IPR015886

1 Parent Features

DB identifier Type Name
IPR010979 Domain Ribosomal protein S13-like, H2TH

3256 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
75016 D8QNL5 PAC:15409644 Selaginella moellendorffii 268  
evm.model.supercontig_167.9 PAC:16410497 Carica papaya 267  
29841.m002895 B9RVA4 PAC:16810608 Ricinus communis 403  
50483.m000020 B9TPV6 PAC:16828272 Ricinus communis 223  
Cucsa.096060.2 PAC:16957978 Cucumis sativus 310  
Cucsa.096060.1 A0A0A0KWY6 PAC:16957977 Cucumis sativus 402  
orange1.1g024924m A0A067DI67 PAC:18116736 Citrus sinensis 260  
orange1.1g015345m A0A067DE50 PAC:18116733 Citrus sinensis 408  
orange1.1g022931m A0A067DRM4 PAC:18116735 Citrus sinensis 290  
orange1.1g022922m A0A067DRM4 PAC:18116734 Citrus sinensis 290  
AT1G52500.2 O80358 PAC:19649590 Arabidopsis thaliana 390  
AT1G52500.1 O80358 PAC:19649591 Arabidopsis thaliana 274  
Thhalv10011553m V4KG95 PAC:20184860 Eutrema salsugineum 397  
Ciclev10025737m V4SP53 PAC:20799684 Citrus clementina 408  
Lus10035876 PAC:23141204 Linum usitatissimum 400  
Potri.003G031100.1 U5GP93 PAC:27000161 Populus trichocarpa 407  
Potri.003G031100.2 A0A2K2B0U0 PAC:27000162 Populus trichocarpa 406  
Gorai.011G089400.1 A0A0D2UR55 PAC:26807973 Gossypium raimondii 464  
Gorai.011G089400.2 A0A0D2T4U5 PAC:26807974 Gossypium raimondii 413  
Gorai.011G089400.4 A0A0D2UQ25 PAC:26807975 Gossypium raimondii 327  
Gorai.011G089400.5 A0A0D2VK44 PAC:26807977 Gossypium raimondii 265  
Gorai.011G089400.3 A0A0D2RJ46 PAC:26807976 Gossypium raimondii 301  
46879 I0Z1U9 PAC:27387145 Coccomyxa subellipsoidea C-169 373  
19100 I0YNK0 PAC:27394707 Coccomyxa subellipsoidea C-169 220  
43803 C1MHI9 PAC:27345771 Micromonas pusilla CCMP1545 330  
52550 C1N4G7 PAC:27339981 Micromonas pusilla CCMP1545 477  
60143 C1EAP1 PAC:27404480 Micromonas sp RCC299 292  
58355 C1E5L2 PAC:27395688 Micromonas sp RCC299 447  
4352 A4S5E3 PAC:27416965 Ostreococcus lucimarinus 277  
Thecc1EG027275t2 A0A061G903 PAC:27440950 Theobroma cacao 409  

7 Publications

First Author Title Year Journal Volume Pages PubMed ID
            8473347
            7704272
            10921868
            15232006
            11912217
            15588838
            12055620