EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Tertiary folds of the SL5 RNA from the 5' proximal region of SARS-CoV-2 and related coronaviruses.
ジャーナル・号・ページ	Proc Natl Acad Sci U S A, Vol. 121, Issue 10, Page e2320493121, Year 2024
掲載日	2024年3月5日
著者	Rachael C Kretsch / Lily Xu / Ivan N Zheludev / Xueting Zhou / Rui Huang / Grace Nye / Shanshan Li / Kaiming Zhang / Wah Chiu / Rhiju Das /
PubMed 要旨	Coronavirus genomes sequester their start codons within stem-loop 5 (SL5), a structured, 5' genomic RNA element. In most alpha- and betacoronaviruses, the secondary structure of SL5 is predicted to ...Coronavirus genomes sequester their start codons within stem-loop 5 (SL5), a structured, 5' genomic RNA element. In most alpha- and betacoronaviruses, the secondary structure of SL5 is predicted to contain a four-way junction of helical stems, some of which are capped with UUYYGU hexaloops. Here, using cryogenic electron microscopy (cryo-EM) and computational modeling with biochemically determined secondary structures, we present three-dimensional structures of SL5 from six coronaviruses. The SL5 domain of betacoronavirus severe-acute-respiratory-syndrome-related coronavirus 2 (SARS-CoV-2), resolved at 4.7 Å resolution, exhibits a T-shaped structure, with its UUYYGU hexaloops at opposing ends of a coaxial stack, the T's "arms." Further analysis of SL5 domains from SARS-CoV-1 and MERS (7.1 and 6.4 to 6.9 Å resolution, respectively) indicate that the junction geometry and inter-hexaloop distances are conserved features across these human-infecting betacoronaviruses. The MERS SL5 domain displays an additional tertiary interaction, which is also observed in the non-human-infecting betacoronavirus BtCoV-HKU5 (5.9 to 8.0 Å resolution). SL5s from human-infecting alphacoronaviruses, HCoV-229E and HCoV-NL63 (6.5 and 8.4 to 9.0 Å resolution, respectively), exhibit the same coaxial stacks, including the UUYYGU-capped arms, but with a phylogenetically distinct crossing angle, an X-shape. As such, all SL5 domains studied herein fold into stable tertiary structures with cross-genus similarities and notable differences, with implications for potential protein-binding modes and therapeutic targets.
リンク	Proc Natl Acad Sci U S A / PubMed:38427602 / PubMed Central
手法	EM (単粒子)
解像度	4.7 - 9.1 Å
構造データ	42801 8uye EMDB-42801, PDB-8uye: BtCoV-HKU5 5' proximal stem-loop 5, conformation 1 手法: EM (単粒子) / 解像度: 5.9 Å EMDB-42802: BtCoV-HKU5 5' proximal stem-loop 5, conformation 3 手法: EM (単粒子) / 解像度: 8.0 Å 42805 8uyg EMDB-42805, PDB-8uyg: BtCoV-HKU5 5' proximal stem-loop 5, conformation 2 手法: EM (単粒子) / 解像度: 6.4 Å 42808 8uyj EMDB-42808, PDB-8uyj: BtCoV-HKU5 5' proximal stem-loop 5, conformation 4 手法: EM (単粒子) / 解像度: 7.3 Å 42809 8uyk EMDB-42809, PDB-8uyk: MERS 5' proximal stem-loop 5, conformation 1 手法: EM (単粒子) / 解像度: 6.9 Å 42810 8uyl EMDB-42810, PDB-8uyl: MERS 5' proximal stem-loop 5, conformation 2 手法: EM (単粒子) / 解像度: 6.4 Å 42811 8uym EMDB-42811, PDB-8uym: MERS 5' proximal stem-loop 5, conformation 3 手法: EM (単粒子) / 解像度: 6.4 Å 42816 8uyp EMDB-42816, PDB-8uyp: SARS-CoV-1 5' proximal stem-loop 5 手法: EM (単粒子) / 解像度: 7.1 Å 42818 8uys EMDB-42818, PDB-8uys: SARS-CoV-2 5' proximal stem-loop 5 手法: EM (単粒子) / 解像度: 4.7 Å EMDB-42819: SARS-CoV-2 5' proximal stem-loop 5 and 6 with SL5c extended 手法: EM (単粒子) / 解像度: 9.1 Å EMDB-42820: SARS-CoV-2 5' proximal stem-loop 5 and 6 with SL5b extended 手法: EM (単粒子) / 解像度: 7.4 Å EMDB-42821: SARS-CoV-2 5' proximal stem-loop 5 and 6 手法: EM (単粒子) / 解像度: 7.8 Å
由来	pipistrellus bat coronavirus hku5 (ウイルス) middle east respiratory syndrome-related coronavirus (MERSコロナウイルス) sars coronavirus tor2 (SARSコロナウイルス) severe acute respiratory syndrome coronavirus 2 (SARSコロナウイルス2)
キーワード	RNA (リボ核酸) / SL5 / coronavirus (オルトコロナウイルス亜科) / 5' UTR (5' 非翻訳領域)