InterPro : IPR010979

Name  Ribosomal protein S13-like, H2TH Short Name  Ribosomal_S13-like_H2TH
Type  Domain Description  Ribosomal protein S13 is one of the proteins from the small ribosomal subunit []. In Escherichia coli, S13 is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. S13 contains thee helices and a beta-hairpin in the core of the protein, which form a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension.This H2TH motif can be found in other proteins as well. In the DNA repair protein, MutM (formamidopyrimidine DNA glycosylase; Fpg), the middle domain contains the H2TH motif. MutM is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidatively damaged bases (N-glycosylase activity) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity) []. Other repair enzymes, such as E. coli Endonuclease VIII that excises oxidized pyrimidines from DNA, also contain a DNA-binding H2TH motif within the middle domain. The H2TH domains of these repair proteins are only peripherally involved in binding DNA; their primary function may be simply to position the N-terminal lobe and C-terminal zinc finger domain of the glycosylases for interactions with DNA.The middle domain of topoisomerase IV-B subunit contains a H2TH motif that is structurally related to the DNA repair proteins. Although the H2TH domain appears to be retained in all archaeal and plant type IIB topoisomerases identified to date, it has no known function and has not been observed in other topoisomerase families [].
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Sequence Features

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Proteins

InterPro protein domain ID --> Contigs

 

Other

1 Child Features

Id Name Short Name Type
IPR015886 DNA glycosylase/AP lyase, H2TH DNA-binding DNA_glyclase/AP_lyase_DNA-bd Domain

1 Contains

Id Name Short Name Type
IPR018269 Ribosomal protein S13, conserved site Ribosomal_S13_CS Conserved_site

2 Found In

Id Name Short Name Type
IPR005734 DNA topoisomerase VI, subunit B TopoVI_B Family
IPR020629 Formamidopyrimidine-DNA glycosylase Formamido-pyr_DNA_Glyclase Family

0 Parent Features

3 Publications

First Author Title Year Journal Volume Pages
Sugahara M Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8. 2000 EMBO J 19 3857-69
Ogle JM Selection of tRNA by the ribosome requires a transition from an open to a closed form. 2002 Cell 111 721-32
Corbett KD Structure of the topoisomerase VI-B subunit: implications for type II topoisomerase mechanism and evolution. 2003 EMBO J 22 151-63



To cite PlanMine, please refer to the following publication:

Rozanski, A., Moon, H., Brandl, H., Martín-Durán, J. M., Grohme, M., Hüttner, K., Bartscherer, K., Henry, I., & Rink, J. C.
PlanMine 3.0—improvements to a mineable resource of flatworm biology and biodiversity
Nucleic Acids Research, gky1070. doi:10.1093/nar/gky1070 (2018)