+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 / cilia / sperm / axoneme / STRUCTURAL PROTEIN | |||||||||
機能・相同性 | 機能・相同性情報 sperm flagellum assembly / outer acrosomal membrane / regulation of brood size / establishment of left/right asymmetry / manchette assembly / axonemal B tubule inner sheath / axonemal A tubule inner sheath / protein polyglutamylation / sperm axoneme assembly / positive regulation of feeding behavior ...sperm flagellum assembly / outer acrosomal membrane / regulation of brood size / establishment of left/right asymmetry / manchette assembly / axonemal B tubule inner sheath / axonemal A tubule inner sheath / protein polyglutamylation / sperm axoneme assembly / 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 / Resolution of Sister Chromatid Cohesion / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / cilium-dependent cell motility / COPI-dependent Golgi-to-ER retrograde traffic / COPI-independent Golgi-to-ER retrograde traffic / MAP kinase tyrosine/serine/threonine phosphatase activity / COPI-mediated anterograde transport / RHO GTPases activate IQGAPs / regulation of cilium beat frequency involved in ciliary motility / RHO GTPases Activate Formins / cilium movement involved in cell motility / 転移酵素; リンを含む基を移すもの / acrosomal membrane / ciliary transition zone / cilium movement / MHC class II antigen presentation / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / axoneme assembly / axonemal microtubule / Aggrephagy / sperm DNA condensation / flagellated sperm motility / cilium organization / The role of GTSE1 in G2/M progression after G2 checkpoint / Separation of Sister Chromatids / gamma-tubulin ring complex / 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 / nucleotide-activated protein kinase complex / Regulation of PLK1 Activity at G2/M Transition / Hedgehog 'off' state / UTP biosynthetic process / CTP biosynthetic process / motile cilium / negative regulation of TOR signaling / positive regulation of cell motility / determination of left/right symmetry / GTP biosynthetic process / microtubule organizing center / Neutrophil degranulation / nucleoside diphosphate kinase activity / ciliary base / myosin phosphatase activity / dephosphorylation / regulation of neuron projection development / beta-tubulin binding / axoneme / mitotic cytokinesis / spermatid development / centriolar satellite / cilium assembly / cellular response to UV-C / single fertilization / sperm flagellum / alpha-tubulin binding / phosphatase binding / cellular response to glucose starvation / sperm midpiece / 3'-5' exonuclease activity / centriole / Hsp70 protein binding / acrosomal vesicle / mitotic spindle organization / ciliary basal body / protein tyrosine phosphatase activity / meiotic cell cycle / cell projection / G protein-coupled receptor binding / Hsp90 protein binding / mitotic spindle / cilium / structural constituent of cytoskeleton / spindle / spindle pole / microtubule cytoskeleton organization / SH3 domain binding / calcium-dependent protein binding / calcium ion transport 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 |
-検証レポート
文書・要旨 | emd_17187_validation.pdf.gz | 1 MB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_17187_full_validation.pdf.gz | 1 MB | 表示 | |
XML形式データ | emd_17187_validation.xml.gz | 22.4 KB | 表示 | |
CIF形式データ | emd_17187_validation.cif.gz | 26.8 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-17187 ftp://ftp.pdbj.org/pub/emdb/validation_reports/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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投影像・断面図 | 画像のコントロール
画像は Spider により作成 | ||||||||||||||||||||||||||||||||||||
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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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 |
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 FIELD / 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 |
実験機器 | モデル: Talos Arctica / 画像提供: FEI Company |