Protein Domain : IPR006171

Type:  Domain Name:  Toprim domain
Description:  The Toprim (topoisomerase-primase) domain is a structurally conserved domain of ~100 amino acids that is found in bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, type IA and type II topoisomerases, bacterial and archaeal nucleases of the OLD family and bacterial DNA repair proteins of the RecR/M family. The Toprim domain can be found alone or in combination with several other domains, such as the ASM domain, the superfamily 2 helicase domain, the superfamily 3 helicase domain, the DnaB interaction domain, the C4 'little finger' domain, the CHC2 zinc finger, the ATPase domain of the HSP90-gyrase-histidine kinase superfamily, the S5 domain, the SET domain, the helix-hairpin-helix (HhH) DNA-binding domain, the mobilisation (MOB) domain or the ATPase domain of the ABC transporter/SMC superfamily. The Toprim domain is a catalytic domain involved in DNA strand breakage and rejoining [].The Toprim domain has two conserved motifs, one of which centres at a conserved glutamate and the other one at two conserved aspartates (DxD). Both motifs are preceded by conserved hydrophobic regions predicted to form beta-strands. The glutamate residue is probably involved in catalysis, whereas the DxD motif is involved in the co-ordination of Mg(2++) that is required for the activity of all Toprim-containing enzymes. The Toprim domain has a compact alpha/beta fold, with four conserved strands and three helices; with the exception of the second helix and the C-terminal strands, each of these elements contains positions that are highly conserved. The Toprim domain contains three regions that can accommodate variable sized inserts, which are particularly prominent in the topoisomerases [, , ]. Short Name:  Toprim_domain
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0 Child Features

1 Contains

DB identifier Type Name
IPR018522 Conserved_site DNA topoisomerase, type IIA, conserved site

5 Cross Referencess

Identifier
PF01751
PF13662
PS50880
SM00493
G3DSA:3.40.50.140

8 Found Ins

DB identifier Type Name
IPR000380 Family DNA topoisomerase, type IA
IPR013760 Domain DNA topoisomerase, type IIA-like domain
IPR013759 Domain DNA topoisomerase, type IIA, central domain
IPR011557 Family DNA gyrase, subunit B
IPR000565 Family DNA topoisomerase, type IIA, subunit B
IPR005740 Family DNA topoisomerase 4 subunit B, Gram-positive
IPR000093 Family DNA recombination protein RecR
IPR020607 Family DNA primase DnaG, archaea

0 GO Annotation

0 Ontology Annotations

0 Parent Features

3256 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
411187 D8RGU8 PAC:15406368 Selaginella moellendorffii 289  
94303 D8RIM2 PAC:15423298 Selaginella moellendorffii 794  
98330 D8RNR7 PAC:15412854 Selaginella moellendorffii 1151  
405784 D8QZP6 PAC:15415567 Selaginella moellendorffii 723  
168492 D8R567 PAC:15422213 Selaginella moellendorffii 871  
123748 D8SSL3 PAC:15403346 Selaginella moellendorffii 795  
427376 D8SZD7 PAC:15410381 Selaginella moellendorffii 249  
127267 D8SXJ0 PAC:15411383 Selaginella moellendorffii 1151  
164801 D8QRG1 PAC:15413535 Selaginella moellendorffii 618  
evm.model.supercontig_157.4 PAC:16409827 Carica papaya 867  
evm.model.supercontig_246.5 PAC:16414636 Carica papaya 619  
evm.model.supercontig_37.4 PAC:16418711 Carica papaya 460  
evm.model.supercontig_489.1 PAC:16421000 Carica papaya 450  
evm.model.supercontig_5.163 PAC:16421266 Carica papaya 416  
29733.m000744 B9S845 PAC:16807078 Ricinus communis 732  
29864.m001478 B9RVN3 PAC:16811789 Ricinus communis 1212  
30075.m001134 B9SAY5 PAC:16816987 Ricinus communis 306  
30075.m001135 B9SAY6 PAC:16816988 Ricinus communis 700  
30149.m000235 B9SN22 PAC:16820644 Ricinus communis 833  
30183.m001296 B9RRL8 PAC:16822981 Ricinus communis 865  
32465.m000025 B9TGB2 PAC:16825437 Ricinus communis 142  
28226.m000877 B9SPT5 PAC:16800410 Ricinus communis 1071  
Cucsa.337050.1 PAC:16978549 Cucumis sativus 603  
Cucsa.167420.1 PAC:16966273 Cucumis sativus 302  
Cucsa.167410.1 PAC:16966272 Cucumis sativus 462  
Cucsa.167370.1 PAC:16966268 Cucumis sativus 465  
Cucsa.249000.2 PAC:16971531 Cucumis sativus 1303  
Cucsa.249000.3 PAC:16971532 Cucumis sativus 1239  
Cucsa.249000.1 PAC:16971530 Cucumis sativus 1499  
Cucsa.251840.1 A0A0A0L9C7 PAC:16971857 Cucumis sativus 867  

3 Publications

First Author Title Year Journal Volume Pages PubMed ID
            9722641
            19596812
            16077031