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IPR010979 is a Small ribosomal subunit protein uS13-like, H2TH.
<p>This superfamily represents the H2TH motif found in the small ribosomal subunit protein uS13.</p> <p>Small ribosomal subunit protein uS13 was previously known as Ribosomal protein S13 [[cite:PUB00014009], [cite:PUB00080279]]. 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 β-hairpin in the core of the protein, which form a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension.</p> <p>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) [[cite:PUB00014010]]. 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.</p> <p>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 [[cite:PUB00014011]].</p>
This description is obtained from EB-eye REST.
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | Nucleic acid binding | Interacting selectively and non-covalently with any nucleic acid. |
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | 30S ribosomal protein S13 [Medicago truncatula] gi|357461657|ref|XP_003601110.1| | 14 | ||
| – | PREDICTED: formamidopyrimidine-DNA glycosylase-like isoform X2 [Cicer arietinum] gi|502080701|ref|XP_004486650.1| | 18 | ||
| – | PREDICTED: formamidopyrimidine-DNA glycosylase-like isoform X1 [Cicer arietinum] gi|502080698|ref|XP_004486649.1| | 18 | ||
| – | PREDICTED: 40S ribosomal protein S18-like [Cicer arietinum] gi|502118906|ref|XP_004496437.1| | 7 | ||
| – | PREDICTED: 40S ribosomal protein S18-like [Cicer arietinum] gi|502118906|ref|XP_004496437.1| | 14 | ||
| – | PREDICTED: 40S ribosomal protein S18-like [Glycine max] gi|356499364|ref|XP_003518511.1| | 14 | ||
| – | 30S ribosomal protein S13; TAIR: AT5G14320.1 Ribosomal protein S13/S18 family; Swiss-Prot: sp|P42732|RR13_ARATH 30S ribosomal protein S13, chloroplastic; TrEMBL-Plants: tr|I3SUX8|I3SUX8_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0253300 | 15 | ||
| – | Formamidopyrimidine-DNA glycosylase; TAIR: AT1G52500.2 MUTM homolog-1; Swiss-Prot: sp|O80358|FPG_ARATH Formamidopyrimidine-DNA glycosylase; TrEMBL-Plants: tr|A0A151SPP2|A0A151SPP2_CAJCA Formamidopyrimidine-DNA glycosylase; Found in the gene: LotjaGi3g1v0007500 | 19 | ||
| – | Formamidopyrimidine-DNA glycosylase; TAIR: AT1G52500.2 MUTM homolog-1; Swiss-Prot: sp|O80358|FPG_ARATH Formamidopyrimidine-DNA glycosylase; TrEMBL-Plants: tr|G7II90|G7II90_MEDTR Formamidopyrimidine-DNA glycosylase; Found in the gene: LotjaGi3g1v0007500 | 19 | ||
| – | Formamidopyrimidine-DNA glycosylase; TAIR: AT1G52500.1 MUTM homolog-1; Swiss-Prot: sp|O80358|FPG_ARATH Formamidopyrimidine-DNA glycosylase; TrEMBL-Plants: tr|A0A151SPP2|A0A151SPP2_CAJCA Formamidopyrimidine-DNA glycosylase; Found in the gene: LotjaGi3g1v0007500 | 18 | ||
| – | DNA topoisomerase 6 subunit B; TAIR: AT3G20780.1 topoisomerase 6 subunit B; Swiss-Prot: sp|Q9C5V6|TOP6B_ARATH DNA topoisomerase 6 subunit B; TrEMBL-Plants: tr|I1M541|I1M541_SOYBN DNA topoisomerase 6 subunit B; Found in the gene: LotjaGi3g1v0293000 | 21 | ||
| – | 30S ribosomal protein S13, putative; TAIR: AT1G77750.1 Ribosomal protein S13/S18 family; Swiss-Prot: sp|Q8LPW2|RT13_SOYBN Small ribosomal subunit protein S13, mitochondrial; TrEMBL-Plants: tr|G7JF11|G7JF11_MEDTR Ribosomal protein S13P/S18e; Found in the gene: LotjaGi3g1v0544900 | 11 | ||
| – | 30S ribosomal protein S13; TAIR: AT1G22780.1 Ribosomal protein S13/S18 family; Swiss-Prot: sp|P34788|RS18_ARATH 40S ribosomal protein S18; TrEMBL-Plants: tr|I3SSR0|I3SSR0_LOTJA Uncharacterized protein; Found in the gene: LotjaGi5g1v0287800 | 14 | ||
| – | 30S ribosomal protein S13; TAIR: AT1G22780.1 Ribosomal protein S13/S18 family; Swiss-Prot: sp|P34788|RS18_ARATH 40S ribosomal protein S18; TrEMBL-Plants: tr|I3SSR0|I3SSR0_LOTJA Uncharacterized protein; Found in the gene: LotjaGi5g1v0290300 | 14 | ||
| – | 30S ribosomal protein S13; TAIR: AT1G22780.1 Ribosomal protein S13/S18 family; Swiss-Prot: sp|P34788|RS18_ARATH 40S ribosomal protein S18; TrEMBL-Plants: tr|I3SSR0|I3SSR0_LOTJA Uncharacterized protein; Found in the gene: LotjaGi5g1v0290300 | 14 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| SSF46946 | SUPERFAMILY | 1 | 6.67 |