+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-17187 | |||||||||
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タイトル | 48-nm repeat of the native axonemal doublet microtubule from bovine sperm | |||||||||
マップデータ | ||||||||||
試料 |
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キーワード | microtubule (微小管) / cilia (繊毛) / sperm / axoneme / STRUCTURAL PROTEIN (タンパク質) | |||||||||
機能・相同性 | 機能・相同性情報 outer acrosomal membrane / epithelial cilium movement involved in determination of left/right asymmetry / regulation of brood size / establishment of left/right asymmetry / 9+0 motile cilium / regulation of calcineurin-NFAT signaling cascade / sperm axoneme assembly / inner dynein arm assembly / cilium-dependent cell motility / protein polyglutamylation ...outer acrosomal membrane / epithelial cilium movement involved in determination of left/right asymmetry / regulation of brood size / establishment of left/right asymmetry / 9+0 motile cilium / regulation of calcineurin-NFAT signaling cascade / sperm axoneme assembly / inner dynein arm assembly / cilium-dependent cell motility / protein polyglutamylation / positive regulation of feeding behavior / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Cilium Assembly / Intraflagellar transport / Carboxyterminal post-translational modifications of tubulin / Sealing of the nuclear envelope (NE) by ESCRT-III / Kinesins / cerebrospinal fluid circulation / Resolution of Sister Chromatid Cohesion / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / sperm principal piece / COPI-dependent Golgi-to-ER retrograde traffic / regulation of cilium beat frequency involved in ciliary motility / RHO GTPases activate IQGAPs / COPI-independent Golgi-to-ER retrograde traffic / MAP kinase tyrosine/serine/threonine phosphatase activity / COPI-mediated anterograde transport / RHO GTPases Activate Formins / cilium movement involved in cell motility / 9+2 motile cilium / regulation of store-operated calcium entry / cilium movement / 転移酵素; リンを含む基を移すもの / calcium ion sensor activity / acrosomal membrane / MHC class II antigen presentation / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / sperm DNA condensation / axoneme assembly / flagellated sperm motility / cilium organization / axonemal microtubule / Aggrephagy / gamma-tubulin ring complex / The role of GTSE1 in G2/M progression after G2 checkpoint / Separation of Sister Chromatids / Loss of Nlp from mitotic centrosomes / Recruitment of mitotic centrosome proteins and complexes / Loss of proteins required for interphase microtubule organization from the centrosome / Anchoring of the basal body to the plasma membrane / AURKA Activation by TPX2 / Recruitment of NuMA to mitotic centrosomes / manchette / Regulation of PLK1 Activity at G2/M Transition / Hedgehog 'off' state / negative regulation of TOR signaling / nucleotide-activated protein kinase complex / UTP biosynthetic process / CTP biosynthetic process / 繊毛 / positive regulation of cell motility / determination of left/right symmetry / GTP biosynthetic process / Neutrophil degranulation / 微小管形成中心 / nucleoside diphosphate kinase activity / ciliary base / myosin phosphatase activity / 細胞結合 / beta-tubulin binding / regulation of neuron projection development / AMP binding / regulation of cell division / spermatid development / cerebral cortex cell migration / axoneme / single fertilization / mitotic cytokinesis / cilium assembly / alpha-tubulin binding / sperm flagellum / cellular response to UV-C / phosphatase binding / cellular response to glucose starvation / 脱リン酸化 / sperm midpiece / Hsp70 protein binding / 3'-5' exonuclease activity / 中心小体 / mitotic spindle organization / acrosomal vesicle / ciliary basal body / meiotic cell cycle / protein tyrosine phosphatase activity / cell projection / G protein-coupled receptor binding / 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 / 繊毛 類似検索 - 分子機能 | |||||||||
生物種 | Bos taurus (ウシ) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.6 Å | |||||||||
データ登録者 | Leung MR / Zeng J / Zhang R / Zeev-Ben-Mordehai T | |||||||||
資金援助 | オランダ, 1件
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引用 | ジャーナル: Cell / 年: 2023 タイトル: Structural specializations of the sperm tail. 著者: Miguel Ricardo Leung / Jianwei Zeng / Xiangli Wang / Marc C Roelofs / Wei Huang / Riccardo Zenezini Chiozzi / Johannes F Hevler / Albert J R Heck / Susan K Dutcher / Alan Brown / Rui Zhang / ...著者: Miguel Ricardo Leung / Jianwei Zeng / Xiangli Wang / Marc C Roelofs / Wei Huang / Riccardo Zenezini Chiozzi / Johannes F Hevler / Albert J R Heck / Susan K Dutcher / Alan Brown / Rui Zhang / Tzviya Zeev-Ben-Mordehai / 要旨: Sperm motility is crucial to reproductive success in sexually reproducing organisms. Impaired sperm movement causes male infertility, which is increasing globally. Sperm are powered by a microtubule- ...Sperm motility is crucial to reproductive success in sexually reproducing organisms. Impaired sperm movement causes male infertility, which is increasing globally. Sperm are powered by a microtubule-based molecular machine-the axoneme-but it is unclear how axonemal microtubules are ornamented to support motility in diverse fertilization environments. Here, we present high-resolution structures of native axonemal doublet microtubules (DMTs) from sea urchin and bovine sperm, representing external and internal fertilizers. We identify >60 proteins decorating sperm DMTs; at least 15 are sperm associated and 16 are linked to infertility. By comparing DMTs across species and cell types, we define core microtubule inner proteins (MIPs) and analyze evolution of the tektin bundle. We identify conserved axonemal microtubule-associated proteins (MAPs) with unique tubulin-binding modes. Additionally, we identify a testis-specific serine/threonine kinase that links DMTs to outer dense fibers in mammalian sperm. Our study provides structural foundations for understanding sperm evolution, motility, and dysfunction at a molecular level. | |||||||||
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_17187.map.gz | 277.9 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-17187-v30.xml emd-17187.xml | 103.5 KB 103.5 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_17187.png | 94 KB | ||
Filedesc metadata | emd-17187.cif.gz | 22.7 KB | ||
その他 | emd_17187_additional_1.map.gz emd_17187_half_map_1.map.gz emd_17187_half_map_2.map.gz | 179 MB 1010.4 MB 1009.6 MB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-17187 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-17187 | HTTPS FTP |
-関連構造データ
関連構造データ | 8otzMC 8ou0C 8snbC 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_17187.map.gz / 形式: CCP4 / 大きさ: 1.1 GB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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ボクセルのサイズ | X=Y=Z: 1.041 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
-追加マップ: #1
ファイル | emd_17187_additional_1.map | ||||||||||||
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投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: #2
ファイル | emd_17187_half_map_1.map | ||||||||||||
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投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: #1
ファイル | emd_17187_half_map_2.map | ||||||||||||
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投影像・断面図 |
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密度ヒストグラム |
-試料の構成要素
+全体 : 48-nm repeat of the native axonemal doublet microtubule from bovi...
+超分子 #1: 48-nm repeat of the native axonemal doublet microtubule from bovi...
+分子 #1: Cilia- and flagella-associated protein 95
+分子 #2: Sperm acrosome associated 9
+分子 #3: Testis specific serine kinase 6
+分子 #4: EF-hand domain-containing protein
+分子 #5: ATP6V1F neighbor
+分子 #6: Outer dense fiber of sperm tails 3 like 1
+分子 #7: Outer dense fiber of sperm tails 3
+分子 #8: Tubulin alpha-3 chain
+分子 #9: Tubulin beta-4B chain
+分子 #10: Protein Flattop
+分子 #11: Cilia- and flagella-associated protein 53
+分子 #12: Nucleoside diphosphate kinase 7
+分子 #13: EF-hand domain-containing family member C2
+分子 #14: Family with sequence similarity 166 member A
+分子 #15: Protein FAM166C
+分子 #16: Outer dense fiber of sperm tails 3B
+分子 #17: Spermatid-specific manchette-related protein 1
+分子 #18: Enkurin
+分子 #19: Coiled-coil domain-containing protein 105
+分子 #20: Protein phosphatase 1 regulatory subunit 32
+分子 #21: RIB43A-like with coiled-coils protein 2
+分子 #22: Cilia- and flagella-associated protein 107
+分子 #23: Piercer of microtubule wall 1 protein
+分子 #24: Piercer of microtubule wall 2 protein
+分子 #25: Stabilizer of axonemal microtubules 1
+分子 #26: Stabilizer of axonemal microtubules 3
+分子 #27: Meiosis-specific nuclear structural protein 1
+分子 #28: Tektin-3
+分子 #29: Tektin-5
+分子 #30: Sperm-associated antigen 8
+分子 #31: Spermatogenesis-associated protein 48
+分子 #32: Tektin-1
+分子 #33: Tektin-2
+分子 #34: Uncharacterized protein C1orf100 homolog
+分子 #35: TEPP protein
+分子 #36: Uncharacterized protein MGC137036
+分子 #37: Testis expressed 33
+分子 #38: Testis-expressed sequence 37 protein
+分子 #39: Testis-expressed protein 43
+分子 #40: Testis expressed 49
+分子 #41: Theg spermatid protein like
+分子 #42: EF-hand domain-containing family member B
+分子 #43: Tektin bundle interacting protein 1
+分子 #44: Tektin-4
+分子 #45: Chromosome 7 open reading frame 31
+分子 #46: Cilia- and flagella- associated protein 210
+分子 #47: EF-hand domain-containing protein 1
+分子 #48: Uncharacterized protein C10orf82 homolog
+分子 #49: Cilia- and flagella-associated protein 144
+分子 #50: Chromosome 20 C5orf49 homolog
+分子 #51: Chromosome 19 C17orf98 homolog
+分子 #52: Chromosome 13 C20orf85 homolog
+分子 #53: Cilia- and flagella-associated protein 68
+分子 #54: Cilia and flagella associated protein 77
+分子 #55: UPF0602 protein C4orf47 homolog
+分子 #56: Cilia- and flagella-associated protein 20
+分子 #57: Parkin coregulated gene protein
+分子 #58: CFAP97 domain containing 1
+分子 #59: Cilia- and flagella-associated protein 45
+分子 #60: Cilia- and flagella-associated protein 52
+分子 #61: Cilia- and flagella-associated protein 141
+分子 #62: Cilia- and flagella-associated protein 161
+分子 #63: Dual specificity phosphatase 21
+分子 #64: Uncharacterized protein C4orf45 homolog
+分子 #65: Cilia- and flagella-associated protein 276
+分子 #66: EF-hand calcium-binding domain-containing protein 3
+分子 #67: GUANOSINE-5'-TRIPHOSPHATE
+分子 #68: MAGNESIUM ION
+分子 #69: GUANOSINE-5'-DIPHOSPHATE
-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 | 単粒子再構成法 |
試料の集合状態 | filament |
-試料調製
緩衝液 | pH: 7.9 |
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グリッド | モデル: Quantifoil / 材質: COPPER / メッシュ: 200 / 支持フィルム - 材質: CARBON / 支持フィルム - トポロジー: HOLEY / 前処理 - タイプ: GLOW DISCHARGE |
凍結 | 凍結剤: ETHANE-PROPANE / 装置: HOMEMADE PLUNGER |
-電子顕微鏡法
顕微鏡 | FEI TALOS ARCTICA |
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電子線 | 加速電圧: 200 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELDBright-field microscopy / 最大 デフォーカス(公称値): 2.5 µm / 最小 デフォーカス(公称値): 0.5 µm |
試料ステージ | ホルダー冷却材: NITROGEN |
撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / 平均電子線量: 50.0 e/Å2 |
実験機器 | モデル: Talos Arctica / 画像提供: FEI Company |
-画像解析
粒子像選択 | 選択した数: 532665 |
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初期モデル | モデルのタイプ: EMDB MAP EMDB ID: |
初期 角度割当 | タイプ: MAXIMUM LIKELIHOOD / ソフトウェア - 名称: RELION (ver. 3.1) |
最終 角度割当 | タイプ: MAXIMUM LIKELIHOOD / ソフトウェア - 名称: RELION (ver. 3.1) |
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: 3.6 Å / 解像度の算出法: FSC 0.143 CUT-OFF / ソフトウェア - 名称: RELION (ver. 3.1) / 使用した粒子像数: 34083 |