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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 5osg | |||||||||
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タイトル | Structure of KSRP in context of Leishmania donovani 80S | |||||||||
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![]() | RIBOSOME / Kinetoplastids / cryo-EM / KSRP | |||||||||
機能・相同性 | ![]() ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / RNA binding 類似検索 - 分子機能 | |||||||||
生物種 | ![]() | |||||||||
手法 | 電子顕微鏡法 / 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 2.9 Å | |||||||||
![]() | Brito Querido, J. / Mancera-Martinez, E. / Vicens, Q. / Bochler, A. / Chicher, J. / Simonetti, A. / Hashem, Y. | |||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: The cryo-EM Structure of a Novel 40S Kinetoplastid-Specific Ribosomal Protein. 著者: Jailson Brito Querido / Eder Mancera-Martínez / Quentin Vicens / Anthony Bochler / Johana Chicher / Angelita Simonetti / Yaser Hashem / ![]() 要旨: Kinetoplastids are potentially lethal protozoan pathogens affecting more than 20 million people worldwide. There is a critical need for more specific targets for the development of safer anti- ...Kinetoplastids are potentially lethal protozoan pathogens affecting more than 20 million people worldwide. There is a critical need for more specific targets for the development of safer anti-kinetoplastid therapeutic molecules that can replace the scarce and highly cytotoxic current drugs. The kinetoplastid ribosome represents a potential therapeutic target due to its relative structural divergence when compared with its human counterpart. However, several kinetoplastid-specific ribosomal features remain uncharacterized. Here, we present the near-atomic cryoelectron microscopy structure of a novel bona fide kinetoplastid-specific ribosomal (r-) protein (KSRP) bound to the ribosome. KSRP is an essential protein located at the solvent face of the 40S subunit, where it binds and stabilizes kinetoplastid-specific domains of rRNA, suggesting its role in ribosome integrity. KSRP also interacts with the r-protein eS6 at a region that is only conserved in kinetoplastids. The kinetoplastid-specific ribosomal environment of KSRP provides a promising target for the design of safer anti-kinetoplastidian drugs. #1: ![]() タイトル: Structures and stabilization of kinetoplastid-specific split rRNAs revealed by comparing leishmanial and human ribosomes. 著者: Xing Zhang / Mason Lai / Winston Chang / Iris Yu / Ke Ding / Jan Mrazek / Hwee L Ng / Otto O Yang / Dmitri A Maslov / Z Hong Zhou / ![]() ![]() 要旨: The recent success in ribosome structure determination by cryoEM has opened the door to defining structural differences between ribosomes of pathogenic organisms and humans and to understand ribosome- ...The recent success in ribosome structure determination by cryoEM has opened the door to defining structural differences between ribosomes of pathogenic organisms and humans and to understand ribosome-targeting antibiotics. Here, by direct electron-counting cryoEM, we have determined the structures of the Leishmania donovani and human ribosomes at 2.9 Å and 3.6 Å, respectively. Our structure of the leishmanial ribosome elucidates the organization of the six fragments of its large subunit rRNA (as opposed to a single 28S rRNA in most eukaryotes, including humans) and reveals atomic details of a unique 20 amino acid extension of the uL13 protein that pins down the ends of three of the rRNA fragments. The structure also fashions many large rRNA expansion segments. Direct comparison of our human and leishmanial ribosome structures at the decoding A-site sheds light on how the bacterial ribosome-targeting drug paromomycin selectively inhibits the eukaryotic L. donovani, but not human, ribosome. | |||||||||
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構造の表示
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構造ビューア | 分子: ![]() ![]() |
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PDBx/mmCIF形式 | ![]() | 138.6 KB | 表示 | ![]() |
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PDB形式 | ![]() | 74.3 KB | 表示 | ![]() |
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-検証レポート
文書・要旨 | ![]() | 973.8 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 1004.3 KB | 表示 | |
XML形式データ | ![]() | 18.9 KB | 表示 | |
CIF形式データ | ![]() | 26.9 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
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集合体
登録構造単位 | ![]()
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要素
#1: タンパク質 | 分子量: 25254.348 Da / 分子数: 1 / 由来タイプ: 組換発現 由来: (組換発現) ![]() 遺伝子: LDBPK_320790 発現宿主: ![]() 参照: UniProt: E9BNI3 |
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#2: RNA鎖 | 分子量: 710272.000 Da / 分子数: 1 / 由来タイプ: 組換発現 由来: (組換発現) ![]() 発現宿主: ![]() 参照: GenBank: 9504 |
#3: タンパク質 | 分子量: 28370.227 Da / 分子数: 1 / 由来タイプ: 組換発現 由来: (組換発現) ![]() 遺伝子: RPS6, L3640.11, Lmj_1130, LmjF21.1780, LmjF_21_1780 発現宿主: ![]() 参照: UniProt: Q9NE83 |
-実験情報
-実験
実験 | 手法: 電子顕微鏡法 |
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EM実験 | 試料の集合状態: PARTICLE / 3次元再構成法: 単粒子再構成法 |
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試料調製
構成要素 | 名称: 80S ribosome / タイプ: RIBOSOME / Entity ID: all / 由来: NATURAL |
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由来(天然) | 生物種: ![]() |
緩衝液 | pH: 7.6 |
試料 | 包埋: NO / シャドウイング: NO / 染色: NO / 凍結: YES |
急速凍結 | 凍結剤: ETHANE / 湿度: 100 % |
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電子顕微鏡撮影
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
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顕微鏡 | モデル: FEI TITAN KRIOS |
電子銃 | 電子線源: ![]() |
電子レンズ | モード: BRIGHT FIELD |
撮影 | 電子線照射量: 20 e/Å2 フィルム・検出器のモデル: GATAN K2 BASE (4k x 4k) |
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解析
CTF補正 | タイプ: PHASE FLIPPING AND AMPLITUDE CORRECTION |
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3次元再構成 | 解像度: 2.9 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 213108 / 対称性のタイプ: POINT |