scholarly journals Correction to: A survey of TIR domain sequence and structure divergence

2022 ◽  
Author(s):  
Vladimir Y. Toshchakov ◽  
Andrew F. Neuwald
Keyword(s):  
Tir Domain ◽  
Domain Sequence

scholarly journals A survey of TIR domain sequence and structure divergence

2020 ◽  
Vol 72 (3) ◽  
pp. 181-203 ◽  
Author(s):  
Vladimir Y. Toshchakov ◽  
Andrew F. Neuwald
Keyword(s):  
Tir Domain ◽  
Domain Sequence

scholarly journals Genome-wide discovery of G-quadruplexes in barley

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
H. Busra Cagirici ◽  
Hikmet Budak ◽  
Taner Z. Sen
Keyword(s):  
Transcription Initiation ◽  
Large Window ◽  
First Intron ◽  
Domain Sequence ◽  
Genome Wide ◽  
Square Planar ◽  
Peak Points ◽  
Molecular Functions ◽  
Nucleic Acid Structures ◽  
Provided Examples

AbstractG-quadruplexes (G4s) are four-stranded nucleic acid structures with closely spaced guanine bases forming square planar G-quartets. Aberrant formation of G4 structures has been associated with genomic instability. However, most plant species are lacking comprehensive studies of G4 motifs. In this study, genome-wide identification of G4 motifs in barley was performed, followed by a comparison of genomic distribution and molecular functions to other monocot species, such as wheat, maize, and rice. Similar to the reports on human and some plants like wheat, G4 motifs peaked around the 5′ untranslated region (5′ UTR), the first coding domain sequence, and the first intron start sites on antisense strands. Our comparative analyses in human, Arabidopsis, maize, rice, and sorghum demonstrated that the peak points could be erroneously merged into a single peak when large window sizes are used. We also showed that the G4 distributions around genic regions are relatively similar in the species studied, except in the case of Arabidopsis. G4 containing genes in monocots showed conserved molecular functions for transcription initiation and hydrolase activity. Additionally, we provided examples of imperfect G4 motifs.

Poxvirus A46 protein binds to TIR domain-containing Mal/TIRAP via an α-helical sub-domain

2011 ◽  
Vol 48 (15-16) ◽  
pp. 2144-2150 ◽  
Author(s):  
Shun-ichiro Oda ◽  
Edward Franklin ◽  
Amir R. Khan
Keyword(s):  
Tir Domain

scholarly journals Towards the structure of the TIR-domain signalosome

2017 ◽  
Vol 43 ◽  
pp. 122-130 ◽  
Author(s):  
Surekha Nimma ◽  
Thomas Ve ◽  
Simon J. Williams ◽  
Bostjan Kobe
Keyword(s):  
Tir Domain

scholarly journals A TIR domain receptor–associated protein (TIRAP) variant SNP (rs8177374) confers protection against premature birth

2012 ◽  
Vol 33 (5) ◽  
pp. 341-346 ◽  
Author(s):  
V R Karody ◽  
M Le ◽  
S Nelson ◽  
K Meskin ◽  
S Klemm ◽  
...  
Keyword(s):  
Premature Birth ◽  
Receptor Associated Protein ◽  
Tir Domain

Bursaphelenchus chengi sp. n. (Nematoda: Parasitaphelenchidae) isolated at Nanjing, China, in packaging wood from Taiwan

Nematology ◽  
2008 ◽  
Vol 10 (3) ◽  
pp. 335-346 ◽  
Author(s):  
Hongmei Li ◽  
Phap Quang Trinh ◽  
Lieven Waeyenberge ◽  
Maurice Moens
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Body Size ◽  
Posterior Margin ◽  
Petri Dish ◽  
Packaging Materials ◽  
Lateral Field ◽  
Female Tail ◽  
Domain Sequence ◽  
Lateral Lines

Abstract Bursaphelenchus chengi sp. n. is described and illustrated. Dauer juveniles were isolated from imported wood packaging materials from Taiwan to Nanjing Port, China. Bursaphelenchus chengi sp. n. was reared and maintained on Petri dish cultures of the fungus Botrytis cinerea. The new species is characterised by the medium body size in both sexes, the presence of only two incisures in the lateral field and the robust and strongly curved spicules. The spicule lamina is angular distally, the rostrum digitate and the condylus rounded. The tail is arcuate with a pointed terminus. The bursa is usually truncate with the posterior margin indented in some specimens or rounded with a fine axial point. Females have a small vulval flap formed by a short extension of the cuticle of the anterior lip, and a conical tail that gradually tapers to an almost straight or slightly recurved, pointed or rounded terminus. Because of the presence of two lateral lines, similar spicule shape, tapering female tail and the presence of a small vulval flap, B. chengi sp. n. should be grouped in the abietinus-group sensu Braasch. together with B. abietinus, B. antoniae, B. hellenicus, B. hylobianum and B. rainulfi. ITS-RFLP profiles support the proposal of the new species, and phylogenetic analysis of the 28S rDNA D2/D3 domain sequence places it close to B. antoniae and other species of the abietinus-group.

scholarly journals Modulation of microtubule dynamics by a TIR domain protein from the intracellular pathogen Brucella melitensis

2011 ◽  
Vol 439 (1) ◽  
pp. 79-83 ◽  
Author(s):  
Girish K. Radhakrishnan ◽  
Jerome S. Harms ◽  
Gary A. Splitter
Keyword(s):  
Brucella Melitensis ◽  
Interleukin 1 ◽  
Nuclear Factor Κb ◽  
Microtubule Dynamics ◽  
Innate Immune Responses ◽  
Tir Domain ◽  
Microtubule Stabilization ◽  
Loop Region ◽  
Microtubule Formation ◽  
Domain Protein

TIR (Toll/interleukin-1 receptor) domain-containing proteins play a crucial role in innate immunity in eukaryotes. Brucella is a highly infectious intracellular bacterium that encodes a TIR domain protein (TcpB) to subvert host innate immune responses to establish a beneficial niche for pathogenesis. TcpB inhibits NF-κB (nuclear factor κB) activation and pro-inflammatory cytokine secretions mediated by TLR (Toll-like receptor) 2 and TLR4. In the present study, we have demonstrated that TcpB modulates microtubule dynamics by acting as a stabilization factor. TcpB increased the rate of nucleation as well as the polymerization phases of microtubule formation in a similar manner to paclitaxel. TcpB could efficiently inhibit nocodazole- or cold-induced microtubule disassembly. Microtubule stabilization by TcpB is attributed to the BB-loop region of the TIR domain, and a point mutation affected the microtubule stabilization as well as the TLR-suppression properties of TcpB.

scholarly journals Suppression of TLR Signaling by Targeting TIR domain-Containing Proteins

2012 ◽  
Vol 13 (8) ◽  
pp. 776-788 ◽  
Author(s):  
Ota Fekonja ◽  
Monika Avbelj ◽  
Roman Jerala
Keyword(s):  
Tlr Signaling ◽  
Tir Domain

Toll-Interleukin 1 Receptor (TIR) Domain-Containing Adapter Protein

2012 ◽  
pp. 1884-1884
Author(s):  
João Gonçalves ◽  
Helena Soares ◽  
Norman L. Eberhardt ◽  
Sarah C. R. Lummis ◽  
David R. Soto-Pantoja ◽  
...  
Keyword(s):  
Interleukin 1 ◽  
Adapter Protein ◽  
Tir Domain

TIR-Domain-Containing Adapter Molecule 2

2012 ◽  
pp. 1866-1866
Author(s):  
João Gonçalves ◽  
Helena Soares ◽  
Norman L. Eberhardt ◽  
Sarah C. R. Lummis ◽  
David R. Soto-Pantoja ◽  
...  
Keyword(s):  
Tir Domain ◽  
Adapter Molecule
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