Ira defluvii on a Proteobacteria tree forms a clade with Leptothrix cholodnii.Ricinus communis (Plantae) groups with Methylotenera mobilis PDDEXK_ PDDEXK_PF PFPfam PfamUnknown.In Fusobacteria DUF proteins are surrounded by mobile elements.This feature is much less pronounced in other bacteria.Unknown.Initially claimed to bind RNA and abundant in Apicomplexans, present in proteins involved in mitochondrial anxiety sensing and plant immunity .Positioned with bleomycin resistance (Glyoxalase) and Aceltyltransf_ (GNAT).In P.aeruginosa biofilms a YaeQ mutant has decreased expression of genes encoding NADH dehydrogenase activity and cobalamin biosynthetic process and increased expression of secretion and pathogenesis genes (e.g.exoY, pscU and exsC).This mutant has biofilmexclusive tobramycin fitness positive aspects.Tobramycin is an aminoglycoside antibiotic.YaeQ compensates or does not the hemolysin transcription elongation protein RfaH function.Putative transposase Unknown {} Bacteria Prokaryota VirusesPhylogeny not resolved Numerous transfers, mixed clades for Bacteria and Archaea or distinct Bacterial divisions (continued)Table .ContinuedPfam, COGKOG,PDB structureNo.Name Reference tofold assignmentBiological functionTaxonomyHGTsVirusesBacteriaArchaea PDDEXK_PFPfamUnknown DUF New New Putative transposase {} Unknown PFNewUnknown{} {} {} Bacteria DUFPFEukaryota Detailed distribution {} ProkaryotaRicinus communis (Plantae) is present inside a Proteobacteria clade.Parabacteroides merdae a human gut bacterium discovered also in wounds types a clade PubMed ID:http://www.ncbi.nlm.nih.gov/pubmed/21569804 with a bacteria from termite hindguts Treponema primitia Populus balsamifera subsp.trichocarpa (Plantae) sequence types a clade having a nonpathogenic metal resistant bacterium Ralstonia metallidurans Phylogeny not nicely resolveda Eukaryota Prokaryota Bacteria DUFPF Replic_Relax PFNew Dam(+)-Viroallosecurinine Protocol replacing protein PF{}Bacteria (Bacillus Clostridium Actinobacteria) BacteriaMethanoplanus petrolearius (Euryarchaeota) and an uncultured archaeon locate inside a Bacteria (BacterioidetesActinobacteria) clade.Numerous transfers Streptococcus (Lactobacillales) locates within an Actinobacteria clade.Paenibacillus (Bacillales) sequence is identified in an Actinobacteria clade Patchy distribution possibly on account of numerous transfers Archaea (Thermococcales) No HGT observed TBPinteracting proteinczrPlasmid replication and {} plasmid DNA relaxation DNA adenine {} methyltransferase replacing protein (DRP), a restriction endonuclease A family members of proteins, that interact with TATAbinding protein (TBP) .Nucleic Acids Investigation, , Vol No.Groups involve closely associated households and structures that share somewhat high sequence similarity detectable with PSIBLAST and RPSBLAST.a The tree was not rooted resulting from dubious position in the rooting sequence.The curly brackets inside the taxonomy columns indicate the number of sequences if kingdom is represented only by some sequences.Nucleic Acids Research, , Vol No.of PD(DE)XK proteins and supply a solid background for rational hypotheses about structurally unstudied households.Within the subsequent section we describe several elements of structural alterations that blur a normally recognized image of your restriction endonucleaselike proteins.Core variability The structural core of PD(DE)XK phosphodiesterase fold consists of only six key components 4 bstrands and two ahelices (Figure A).We think that this minimalism contributes to structural diversity in the superfamily.The first plus the second core bstrands can e.