+
データを開く
-
基本情報
登録情報 | データベース: PDB / ID: 8g2z | ||||||
---|---|---|---|---|---|---|---|
タイトル | 48-nm doublet microtubule from Tetrahymena thermophila strain CU428 | ||||||
![]() |
| ||||||
![]() | STRUCTURAL PROTEIN / Cilia / Axoneme / Doublet Microtubule / Microtubule Inner Protein | ||||||
機能・相同性 | ![]() cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / cilium organization / nucleoside-diphosphate kinase / CTP biosynthetic process / UTP biosynthetic process / motile cilium / positive regulation of cell motility ...cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / cilium organization / nucleoside-diphosphate kinase / CTP biosynthetic process / UTP biosynthetic process / motile cilium / positive regulation of cell motility / GTP biosynthetic process / regulation of neuron projection development / nucleoside diphosphate kinase activity / axoneme / mitotic cytokinesis / alpha-tubulin binding / cilium assembly / Hsp70 protein binding / mitotic spindle organization / acrosomal vesicle / ciliary basal body / meiotic cell cycle / cell projection / 加水分解酵素; 酸無水物に作用; GTPに作用・細胞または細胞小器官の運動に関与 / Hsp90 protein binding / structural constituent of cytoskeleton / mitotic spindle / cilium / microtubule cytoskeleton organization / mitotic cell cycle / microtubule / vesicle / cytoskeleton / hydrolase activity / calmodulin binding / neuron projection / phosphorylation / GTPase activity / centrosome / calcium ion binding / GTP binding / ATP binding / nucleus / metal ion binding / cytoplasm / cytosol 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: 4.1 Å | ||||||
![]() | Black, C.S. / Kubo, S. / Yang, S.K. / Bui, K.H. | ||||||
資金援助 | ![]()
| ||||||
![]() | ![]() タイトル: Native doublet microtubules from Tetrahymena thermophila reveal the importance of outer junction proteins. 著者: Shintaroh Kubo / Corbin S Black / Ewa Joachimiak / Shun Kai Yang / Thibault Legal / Katya Peri / Ahmad Abdelzaher Zaki Khalifa / Avrin Ghanaeian / Caitlyn L McCafferty / Melissa Valente- ...著者: Shintaroh Kubo / Corbin S Black / Ewa Joachimiak / Shun Kai Yang / Thibault Legal / Katya Peri / Ahmad Abdelzaher Zaki Khalifa / Avrin Ghanaeian / Caitlyn L McCafferty / Melissa Valente-Paterno / Chelsea De Bellis / Phuong M Huynh / Zhe Fan / Edward M Marcotte / Dorota Wloga / Khanh Huy Bui / ![]() ![]() ![]() 要旨: Cilia are ubiquitous eukaryotic organelles responsible for cellular motility and sensory functions. The ciliary axoneme is a microtubule-based cytoskeleton consisting of two central singlets and nine ...Cilia are ubiquitous eukaryotic organelles responsible for cellular motility and sensory functions. The ciliary axoneme is a microtubule-based cytoskeleton consisting of two central singlets and nine outer doublet microtubules. Cryo-electron microscopy-based studies have revealed a complex network inside the lumen of both tubules composed of microtubule-inner proteins (MIPs). However, the functions of most MIPs remain unknown. Here, we present single-particle cryo-EM-based analyses of the Tetrahymena thermophila native doublet microtubule and identify 42 MIPs. These data shed light on the evolutionarily conserved and diversified roles of MIPs. In addition, we identified MIPs potentially responsible for the assembly and stability of the doublet outer junction. Knockout of the evolutionarily conserved outer junction component CFAP77 moderately diminishes Tetrahymena swimming speed and beat frequency, indicating the important role of CFAP77 and outer junction stability in cilia beating generation and/or regulation. | ||||||
履歴 |
|
-
構造の表示
構造ビューア | 分子: ![]() ![]() |
---|
-
ダウンロードとリンク
-
ダウンロード
PDBx/mmCIF形式 | ![]() | 27.7 MB | 表示 | ![]() |
---|---|---|---|---|
PDB形式 | ![]() | 表示 | ![]() | |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 23.3 MB | 表示 | ![]() |
---|---|---|---|---|
文書・詳細版 | ![]() | 26.5 MB | 表示 | |
XML形式データ | ![]() | 3.1 MB | 表示 | |
CIF形式データ | ![]() | 5.2 MB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
関連構造データ | ![]() 29685MC ![]() 8g3dC M: このデータのモデリングに利用したマップデータ C: 同じ文献を引用 ( |
---|---|
類似構造データ | 類似検索 - 機能・相同性 ![]() |
-
リンク
-
集合体
登録構造単位 | ![]()
|
---|---|
1 |
|
-
要素
+タンパク質 , 44種, 425分子 0A1A2A3A0B0C1C0D1D2D0E1E2E3E0F0G1G0H1H0N1N2N0Q1Q2Q3Q4Q5Q6Q0T...
-Parkin co-regulated protein ... , 2種, 6分子 0S1S2S3S4S5S
#11: タンパク質 | 分子量: 36304.816 Da / 分子数: 4 / 由来タイプ: 天然 / 由来: (天然) ![]() ![]() #35: タンパク質 | 分子量: 28413.180 Da / 分子数: 2 / 由来タイプ: 天然 / 由来: (天然) ![]() ![]() |
---|
-非ポリマー , 3種, 483分子 ![](data/chem/img/GTP.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/GDP.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/GDP.gif)
#47: 化合物 | ChemComp-GTP / #48: 化合物 | ChemComp-MG / #49: 化合物 | ChemComp-GDP / |
---|
-詳細
研究の焦点であるリガンドがあるか | Y |
---|---|
配列の詳細 | The identities of those residues that could be observed in chains 5I, 5J, 5K, 8L, 8N, 8P and 8R ...The identities of those residues that could be observed in chains 5I, 5J, 5K, 8L, 8N, 8P and 8R could not be determined. All of the residues in chains 5I, 5J, 5K, 8L, 8N and 8P were modeled as unknown residues (UNK). The residues in chain 8R were modeled as a mixture of UNK, ALA and TYR residues. The actual sequence of OJ3 (chains 5I, 5J, and 5K) is: MADKSSQVKT |
-実験情報
-実験
実験 | 手法: 電子顕微鏡法 |
---|---|
EM実験 | 試料の集合状態: CELL / 3次元再構成法: 単粒子再構成法 |
-
試料調製
構成要素 | 名称: 48-nm repeat unit of microtubule doublet from Tetrahymena thermophila strain CU428 タイプ: ORGANELLE OR CELLULAR COMPONENT 詳細: Single Particle Analysis of the 48-nm repeating unit of the axoneme from intact cilia purified from Tetrahymena strain CU428 Entity ID: #46, #45, #38, #21, #16, #27, #15, #26, #24, #28, #17, #9, #18, #29, #33, #8, #14, #22, #20, #13, #23, #19, #10, #25, #34, #4, #7, #3, #32, #41, #39-#40, #2, #30, #6, #35, #11, #36, #12, ...Entity ID: #46, #45, #38, #21, #16, #27, #15, #26, #24, #28, #17, #9, #18, #29, #33, #8, #14, #22, #20, #13, #23, #19, #10, #25, #34, #4, #7, #3, #32, #41, #39-#40, #2, #30, #6, #35, #11, #36, #12, #31, #1, #5, #37, #42-#44 由来: NATURAL |
---|---|
分子量 | 値: 7.6 MDa / 実験値: YES |
由来(天然) | 生物種: ![]() ![]() |
緩衝液 | pH: 7.4 |
試料 | 濃度: 2.2 mg/ml / 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 |
-
電子顕微鏡撮影
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
---|---|
顕微鏡 | モデル: TFS KRIOS |
電子銃 | 電子線源: ![]() |
電子レンズ | モード: BRIGHT FIELD / 最大 デフォーカス(公称値): 3000 nm / 最小 デフォーカス(公称値): 1000 nm |
撮影 | 電子線照射量: 45 e/Å2 / フィルム・検出器のモデル: GATAN K3 (6k x 4k) |
-
解析
ソフトウェア |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CTF補正 | タイプ: NONE | ||||||||||||||||||||||||
対称性 | 点対称性: C1 (非対称) | ||||||||||||||||||||||||
3次元再構成 | 解像度: 4.1 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 148365 / 対称性のタイプ: POINT | ||||||||||||||||||||||||
EM volume selection | Num. of tomograms: 32 / Num. of volumes extracted: 2608 | ||||||||||||||||||||||||
精密化 | 交差検証法: NONE 立体化学のターゲット値: GeoStd + Monomer Library + CDL v1.2 | ||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 191.39 Å2 | ||||||||||||||||||||||||
拘束条件 |
|