+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 8pr1 | ||||||||||||
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タイトル | Cytoplasmic dynein-B heavy chain bound to IC-LC tower | ||||||||||||
要素 |
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キーワード | MOTOR PROTEIN (モータータンパク質) / Dynein (ダイニン) / AAA-Atpase / LC8 / TCTEX1 | ||||||||||||
機能・相同性 | 機能・相同性情報 intracellular transport of viral protein in host cell / 分泌 / positive regulation of non-motile cilium assembly / transport along microtubule / intraciliary retrograde transport / visual behavior / dynein light chain binding / mitocytosis / dynein heavy chain binding / positive regulation of intracellular transport ...intracellular transport of viral protein in host cell / 分泌 / positive regulation of non-motile cilium assembly / transport along microtubule / intraciliary retrograde transport / visual behavior / dynein light chain binding / mitocytosis / dynein heavy chain binding / positive regulation of intracellular transport / regulation of metaphase plate congression / motile cilium assembly / establishment of spindle localization / Activation of BIM and translocation to mitochondria / positive regulation of spindle assembly / ciliary tip / Intraflagellar transport / negative regulation of nitric oxide biosynthetic process / negative regulation of phosphorylation / P-body assembly / dynein complex / regulation of G protein-coupled receptor signaling pathway / COPI-independent Golgi-to-ER retrograde traffic / microtubule-dependent intracellular transport of viral material towards nucleus / minus-end-directed microtubule motor activity / cytoplasmic dynein complex / retrograde axonal transport / dynein light intermediate chain binding / 宿主 / enzyme inhibitor activity / nuclear migration / centrosome localization / microtubule motor activity / オートファジー / dynein intermediate chain binding / microtubule-based movement / spermatid development / positive regulation of insulin secretion involved in cellular response to glucose stimulus / establishment of mitotic spindle orientation / tertiary granule membrane / ficolin-1-rich granule membrane / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / cytoplasmic microtubule / COPI-mediated anterograde transport / cytoplasmic microtubule organization / stress granule assembly / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / regulation of mitotic spindle organization / axon cytoplasm / Loss of Nlp from mitotic centrosomes / Loss of proteins required for interphase microtubule organization from the centrosome / Recruitment of mitotic centrosome proteins and complexes / Resolution of Sister Chromatid Cohesion / Recruitment of NuMA to mitotic centrosomes / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / Anchoring of the basal body to the plasma membrane / substantia nigra development / MHC class II antigen presentation / nitric-oxide synthase regulator activity / AURKA Activation by TPX2 / mitotic spindle organization / cellular response to nerve growth factor stimulus / regulation of mitochondrial membrane potential / filopodium / RHO GTPases Activate Formins / 繊毛 / 紡錘体 / 動原体 / microtubule cytoskeleton organization / spindle / Aggrephagy / negative regulation of neurogenesis / HCMV Early Events / Separation of Sister Chromatids / azurophil granule lumen / Regulation of PLK1 Activity at G2/M Transition / late endosome / nervous system development / positive regulation of cold-induced thermogenesis / 細胞皮質 / scaffold protein binding / secretory granule lumen / vesicle / ficolin-1-rich granule lumen / 微小管 / 細胞骨格 / symbiont entry into host cell / 細胞分裂 / protein domain specific binding / 中心体 / apoptotic process / Neutrophil degranulation / protein-containing complex binding / ゴルジ体 / enzyme binding / ATP hydrolysis activity / ミトコンドリア / RNA binding / extracellular exosome 類似検索 - 分子機能 | ||||||||||||
生物種 | Homo sapiens (ヒト) | ||||||||||||
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: 8.2 Å | ||||||||||||
データ登録者 | Singh, K. / Lau, C.K. / Manigrasso, G. / Gassmann, R. / Carter, A.P. | ||||||||||||
資金援助 | 英国, European Union, 3件
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引用 | ジャーナル: Science / 年: 2024 タイトル: Molecular mechanism of dynein-dynactin complex assembly by LIS1. 著者: Kashish Singh / Clinton K Lau / Giulia Manigrasso / José B Gama / Reto Gassmann / Andrew P Carter / 要旨: Cytoplasmic dynein is a microtubule motor vital for cellular organization and division. It functions as a ~4-megadalton complex containing its cofactor dynactin and a cargo-specific coiled-coil ...Cytoplasmic dynein is a microtubule motor vital for cellular organization and division. It functions as a ~4-megadalton complex containing its cofactor dynactin and a cargo-specific coiled-coil adaptor. However, how dynein and dynactin recognize diverse adaptors, how they interact with each other during complex formation, and the role of critical regulators such as lissencephaly-1 (LIS1) protein (LIS1) remain unclear. In this study, we determined the cryo-electron microscopy structure of dynein-dynactin on microtubules with LIS1 and the lysosomal adaptor JIP3. This structure reveals the molecular basis of interactions occurring during dynein activation. We show how JIP3 activates dynein despite its atypical architecture. Unexpectedly, LIS1 binds dynactin's p150 subunit, tethering it along the length of dynein. Our data suggest that LIS1 and p150 constrain dynein-dynactin to ensure efficient complex formation. | ||||||||||||
履歴 |
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-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 8pr1.cif.gz | 652.2 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb8pr1.ent.gz | 表示 | PDB形式 | |
PDBx/mmJSON形式 | 8pr1.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/pr/8pr1 ftp://data.pdbj.org/pub/pdb/validation_reports/pr/8pr1 | HTTPS FTP |
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-関連構造データ
関連構造データ | 17831MC 8pqvC 8pqwC 8pqyC 8pqzC 8pr0C 8pr2C 8pr3C 8pr4C 8pr5C 8ptkC 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 (文献) |
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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
-集合体
登録構造単位 |
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-要素
-Dynein light chain ... , 3種, 6分子 DEKLts
#1: タンパク質 | 分子量: 10381.899 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: DYNLL1, DLC1, DNCL1, DNCLC1, HDLC1 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: P63167 #3: タンパク質 | 分子量: 12461.996 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: DYNLT1 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: P63172 #6: タンパク質 | 分子量: 10934.576 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: DYNLRB1, BITH, DNCL2A, DNLC2A, ROBLD1, HSPC162 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: Q9NP97 |
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-Cytoplasmic dynein 1 ... , 3種, 6分子 IJAGFH
#2: タンパク質 | 分子量: 68442.141 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: DYNC1I2, DNCI2, DNCIC2 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: Q13409 #4: タンパク質 | 分子量: 533055.125 Da / 分子数: 2 / Mutation: R1567E, K1610E / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) 遺伝子: DYNC1H1, DHC1, DNCH1, DNCL, DNECL, DYHC, KIAA0325 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: Q14204 #5: タンパク質 | 分子量: 54173.156 Da / 分子数: 2 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: DYNC1LI2, DNCLI2, LIC2 発現宿主: Spodoptera frugiperda (ツマジロクサヨトウ) 参照: UniProt: O43237 |
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-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 |
-試料調製
構成要素 | 名称: Cytoplasmic dynein-A heavy chain bound to dynactin p150 and IC-LC tower タイプ: COMPLEX / Entity ID: #1-#5 / 由来: RECOMBINANT |
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由来(天然) | 生物種: Homo sapiens (ヒト) |
由来(組換発現) | 生物種: Spodoptera frugiperda (ツマジロクサヨトウ) |
緩衝液 | pH: 7.2 |
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 |
-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: FIELD EMISSION GUN / 加速電圧: 300 kV / 照射モード: FLOOD BEAM |
電子レンズ | モード: BRIGHT FIELDBright-field microscopy / 最大 デフォーカス(公称値): 4000 nm / 最小 デフォーカス(公称値): 500 nm |
撮影 | 電子線照射量: 53 e/Å2 フィルム・検出器のモデル: GATAN K3 BIOQUANTUM (6k x 4k) |
-解析
EMソフトウェア |
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CTF補正 | タイプ: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||
3次元再構成 | 解像度: 8.2 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 42405 / 対称性のタイプ: POINT | ||||||||||||
原子モデル構築 | PDB-ID: 7Z8G Accession code: 7Z8G / Source name: PDB / タイプ: experimental model |