+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-35230 | |||||||||
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タイトル | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | |||||||||
マップデータ | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | |||||||||
試料 |
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キーワード | microtubules (微小管) / axoneme / sperm / filament / STRUCTURAL PROTEIN (タンパク質) | |||||||||
機能・相同性 | 機能・相同性情報 male germ-line stem cell population maintenance / sperm flagellum assembly / axonemal A tubule inner sheath / manchette assembly / outer acrosomal membrane / axonemal B tubule inner sheath / regulation of brood size / establishment of left/right asymmetry / 9+0 motile cilium / protein localization to motile cilium ...male germ-line stem cell population maintenance / sperm flagellum assembly / axonemal A tubule inner sheath / manchette assembly / outer acrosomal membrane / axonemal B tubule inner sheath / regulation of brood size / establishment of left/right asymmetry / 9+0 motile cilium / protein localization to motile cilium / left/right pattern formation / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Cilium Assembly / Sealing of the nuclear envelope (NE) by ESCRT-III / epithelial cilium movement involved in determination of left/right asymmetry / regulation of calcineurin-NFAT signaling cascade / Intraflagellar transport / inner dynein arm assembly / Carboxyterminal post-translational modifications of tubulin / protein polyglutamylation / cilium-dependent cell motility / sperm axoneme assembly / positive regulation of feeding behavior / cerebrospinal fluid circulation / COPI-independent Golgi-to-ER retrograde traffic / regulation of cilium beat frequency involved in ciliary motility / sperm principal piece / MAP kinase tyrosine/serine/threonine phosphatase activity / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / cilium movement involved in cell motility / epithelial cilium movement involved in extracellular fluid movement / intraciliary transport / 9+2 motile cilium / regulation of store-operated calcium entry / PKR-mediated signaling / COPI-mediated anterograde transport / protein localization to organelle / Aggrephagy / 転移酵素; リンを含む基を移すもの / calcium ion sensor activity / ciliary transition zone / acrosomal membrane / Kinesins / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / Resolution of Sister Chromatid Cohesion / RHO GTPases activate IQGAPs / cilium movement / The role of GTSE1 in G2/M progression after G2 checkpoint / axoneme assembly / Recycling pathway of L1 / axonemal microtubule / cilium organization / left/right axis specification / flagellated sperm motility / COPI-dependent Golgi-to-ER retrograde traffic / gamma-tubulin ring complex / RHO GTPases Activate Formins / Separation of Sister Chromatids / Hedgehog 'off' state / Loss of Nlp from mitotic centrosomes / Recruitment of mitotic centrosome proteins and complexes / Loss of proteins required for interphase microtubule organization from the centrosome / Recruitment of NuMA to mitotic centrosomes / Anchoring of the basal body to the plasma membrane / AURKA Activation by TPX2 / Regulation of PLK1 Activity at G2/M Transition / manchette / positive regulation of cilium assembly / MHC class II antigen presentation / protein targeting to mitochondrion / CTP biosynthetic process / UTP biosynthetic process / 繊毛 / positive regulation of cell motility / protein targeting to membrane / determination of left/right symmetry / GTP biosynthetic process / 微小管形成中心 / nucleoside diphosphate kinase activity / tubulin complex / regulation of neuron projection development / ciliary base / 中間径フィラメント / myosin phosphatase activity / extrinsic component of membrane / 細胞結合 / protein-serine/threonine phosphatase / beta-tubulin binding / AMP binding / regulation of cell division / cytoplasmic microtubule / receptor clustering / phosphatase activity / axoneme / mitotic cytokinesis / centriolar satellite / cilium assembly / alpha-tubulin binding / spermatid development 類似検索 - 分子機能 | |||||||||
生物種 | Mus musculus (ハツカネズミ) | |||||||||
手法 | サブトモグラム平均法 / クライオ電子顕微鏡法 / 解像度: 6.5 Å | |||||||||
データ登録者 | Zhu Y / Yin GL / Tai LH / Sun F | |||||||||
資金援助 | 中国, 1件
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引用 | ジャーナル: Cell Discov / 年: 2023 タイトル: In-cell structural insight into the stability of sperm microtubule doublet. 著者: Linhua Tai / Guoliang Yin / Xiaojun Huang / Fei Sun / Yun Zhu / 要旨: The propulsion for mammalian sperm swimming is generated by flagella beating. Microtubule doublets (DMTs) along with microtubule inner proteins (MIPs) are essential structural blocks of flagella. ...The propulsion for mammalian sperm swimming is generated by flagella beating. Microtubule doublets (DMTs) along with microtubule inner proteins (MIPs) are essential structural blocks of flagella. However, the intricate molecular architecture of intact sperm DMT remains elusive. Here, by in situ cryo-electron tomography, we solved the in-cell structure of mouse sperm DMT at 4.5-7.5 Å resolutions, and built its model with 36 kinds of MIPs in 48 nm periodicity. We identified multiple copies of Tektin5 that reinforce Tektin bundle, and multiple MIPs with different periodicities that anchor the Tektin bundle to tubulin wall. This architecture contributes to a superior stability of A-tubule than B-tubule of DMT, which was revealed by structural comparison of DMTs from the intact and deformed axonemes. Our work provides an overall molecular picture of intact sperm DMT in 48 nm periodicity that is essential to understand the molecular mechanism of sperm motility as well as the related ciliopathies. | |||||||||
履歴 |
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-構造の表示
添付画像 |
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-ダウンロードとリンク
-EMDBアーカイブ
マップデータ | emd_35230.map.gz | 56.3 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-35230-v30.xml emd-35230.xml | 57.4 KB 57.4 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_35230.png | 165.9 KB | ||
Filedesc metadata | emd-35230.cif.gz | 16.6 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-35230 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-35230 | HTTPS FTP |
-関連構造データ
関連構造データ | 8i7rMC 8i7oC C: 同じ文献を引用 (文献) M: このマップから作成された原子モデル |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-リンク
EMDBのページ | EMDB (EBI/PDBe) / EMDataResource |
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「今月の分子」の関連する項目 |
-マップ
ファイル | ダウンロード / ファイル: emd_35230.map.gz / 形式: CCP4 / 大きさ: 125 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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注釈 | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | ||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.76 Å | ||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||
詳細 | EMDB XML:
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-添付データ
-試料の構成要素
+全体 : mouse sperm
+超分子 #1: mouse sperm
+分子 #1: Meiosis-specific nuclear structural protein 1
+分子 #2: Tektin-1
+分子 #3: Tubulin beta-4B chain
+分子 #4: Detyrosinated tubulin alpha-3 chain
+分子 #5: Tektin-2
+分子 #6: Nucleoside diphosphate kinase 7
+分子 #7: Tektin-3
+分子 #8: Tektin-4
+分子 #9: EF-hand domain-containing family member B
+分子 #10: Tektin bundle-interacting protein 1
+分子 #11: Tektin-5
+分子 #12: Cilia- and flagella-associated protein 53
+分子 #13: EF-hand domain-containing protein 1
+分子 #14: EF-hand domain-containing family member C2
+分子 #15: Protein FAM166A
+分子 #16: Cilia- and flagella-associated protein 95
+分子 #17: Protein FAM166C
+分子 #18: Cilia- and flagella-associated protein 107
+分子 #19: Dual specificity phosphatase 21
+分子 #20: Cilia- and flagella-associated protein 161
+分子 #21: Coiled-coil domain-containing protein 105
+分子 #22: Enkurin
+分子 #23: Piercer of microtubule wall 1 protein
+分子 #24: Testis-expressed protein 43
+分子 #25: Piercer of microtubule wall 2 protein
+分子 #26: Cilia- and flagella-associated protein 276
+分子 #27: RIB43A-like with coiled-coils protein 2
+分子 #28: Protein Flattop
+分子 #29: Cilia- and flagella-associated protein 52
+分子 #30: EF-hand calcium-binding domain-containing protein 6
+分子 #31: Cilia and flagella-associated protein 77
+分子 #32: Sperm-associated antigen 8
+分子 #33: Cilia- and flagella-associated protein 45
+分子 #34: Cilia- and flagella-associated protein 20
+分子 #35: Parkin coregulated gene protein homolog
+分子 #36: Cilia- and flagella-associated protein 210
+分子 #37: Sperm acrosome-associated protein 9
+分子 #38: Cilia- and flagella-associated protein 141
+分子 #39: GUANOSINE-5'-TRIPHOSPHATE
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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解析 | サブトモグラム平均法 |
試料の集合状態 | cell |
-試料調製
緩衝液 | pH: 7 |
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凍結 | 凍結剤: ETHANE |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 照射モード: SPOT SCAN / 撮影モード: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / 最大 デフォーカス(公称値): 5.0 µm / 最小 デフォーカス(公称値): 1.0 µm |
撮影 | フィルム・検出器のモデル: GATAN K2 QUANTUM (4k x 4k) 検出モード: SUPER-RESOLUTION / 平均電子線量: 3.0 e/Å2 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
抽出 | トモグラム数: 689 / 使用した粒子像数: 17450 |
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最終 角度割当 | タイプ: MAXIMUM LIKELIHOOD |
最終 再構成 | 想定した対称性 - 点群: C1 (非対称) / 解像度のタイプ: BY AUTHOR / 解像度: 6.5 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用したサブトモグラム数: 17450 |