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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 1oix | ||||||
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タイトル | X-ray structure of the small G protein Rab11a in complex with GDP and Pi | ||||||
![]() | RAS-RELATED PROTEIN RAB-11A | ||||||
![]() | PROTEIN TRANSPORT / SMALL G PROTEIN / INTRACELLULAR TRAFFICKING / GTP-BINDING / LIPOPROTEIN / PRENYLATION | ||||||
機能・相同性 | ![]() Anchoring of the basal body to the plasma membrane / VxPx cargo-targeting to cilium / RAB geranylgeranylation / regulation of early endosome to recycling endosome transport / regulation of protein localization to centrosome / regulation of multivesicular body size / regulation of endocytic recycling / early endosome to recycling endosome transport / postsynaptic recycling endosome / establishment of protein localization to organelle ...Anchoring of the basal body to the plasma membrane / VxPx cargo-targeting to cilium / RAB geranylgeranylation / regulation of early endosome to recycling endosome transport / regulation of protein localization to centrosome / regulation of multivesicular body size / regulation of endocytic recycling / early endosome to recycling endosome transport / postsynaptic recycling endosome / establishment of protein localization to organelle / establishment of vesicle localization / positive regulation of mitotic cytokinetic process / plasma membrane to endosome transport / regulation of cilium assembly / exosomal secretion / melanosome transport / amyloid-beta clearance by transcytosis / kinetochore microtubule / astral microtubule organization / VxPx cargo-targeting to cilium / protein transmembrane transport / neurotransmitter receptor transport, endosome to postsynaptic membrane / exocytic vesicle / regulation of vesicle-mediated transport / RAB geranylgeranylation / myosin V binding / Golgi to plasma membrane protein transport / multivesicular body assembly / dynein light intermediate chain binding / protein localization to cilium / establishment of protein localization to membrane / protein localization to cell surface / TBC/RABGAPs / syntaxin binding / mitotic metaphase chromosome alignment / positive regulation of G2/M transition of mitotic cell cycle / positive regulation of epithelial cell migration / exocytosis / cleavage furrow / centriolar satellite / mitotic spindle assembly / positive regulation of axon extension / transport vesicle / vesicle-mediated transport / phagocytic vesicle / Anchoring of the basal body to the plasma membrane / centriole / multivesicular body / small monomeric GTPase / G protein activity / regulation of cytokinesis / trans-Golgi network membrane / protein localization to plasma membrane / Translocation of SLC2A4 (GLUT4) to the plasma membrane / trans-Golgi network / cytoplasmic vesicle membrane / recycling endosome / spindle pole / Vasopressin regulates renal water homeostasis via Aquaporins / recycling endosome membrane / endocytic vesicle membrane / neuron projection development / cytoplasmic vesicle / microtubule binding / vesicle / endosome / protein domain specific binding / Golgi membrane / axon / intracellular membrane-bounded organelle / GTPase activity / centrosome / glutamatergic synapse / GTP binding / perinuclear region of cytoplasm / Golgi apparatus / protein-containing complex / extracellular exosome / cytosol 類似検索 - 分子機能 | ||||||
生物種 | ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Pasqualato, S. / Senic-Matuglia, F. / Renault, L. / Goud, B. / Salamero, J. / Cherfils, J. | ||||||
![]() | ![]() タイトル: Crystallographic Evidence for Substrate-Assisted GTP Hydrolysis by a Small GTP Binding Protein 著者: Pasqualato, S. / Cherfils, J. #1: ![]() タイトル: The Structural Gdp/GTP Cycle of Rab11 Reveals a Novel Interface Involved in the Dynamics of Recycling Endosomes 著者: Pasqualato, S. / Senic-Matuglia, F. / Renault, L. / Goud, B. / Salamero, J. / Cherfils, J. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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ダウンロードとリンク
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ダウンロード
PDBx/mmCIF形式 | ![]() | 55.7 KB | 表示 | ![]() |
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PDB形式 | ![]() | 38.3 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
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-関連構造データ
関連構造データ | ![]() 1oiwS S: 精密化の開始モデル |
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類似構造データ |
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リンク
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集合体
登録構造単位 | ![]()
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単位格子 |
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Components on special symmetry positions |
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要素
-タンパク質 , 1種, 1分子 A
#1: タンパク質 | 分子量: 21525.260 Da / 分子数: 1 / 断片: RESIDUES 1-173 / 変異: YES / 由来タイプ: 組換発現 / 詳細: DELETION MUTANT LACKING THE 43 C-TERMINAL RESIDUES / 由来: (組換発現) ![]() ![]() ![]() |
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-非ポリマー , 5種, 167分子 ![](data/chem/img/GDP.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/HOH.gif)
#2: 化合物 | ChemComp-GDP / |
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#3: 化合物 | ChemComp-PO4 / |
#4: 化合物 | ChemComp-MG / |
#5: 化合物 | ChemComp-CL / |
#6: 水 | ChemComp-HOH / |
-詳細
構成要素の詳細 | ENGINEERED配列の詳細 | RESIDUES OF THE N-TERMINAL HIS6-TAG AND LINKER WERE DISORDERED AND NOT VISIBLE IN THE ELECTRON ...RESIDUES OF THE N-TERMINAL HIS6-TAG AND LINKER WERE DISORDERED | |
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-実験情報
-実験
実験 | 手法: ![]() |
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試料調製
結晶 | マシュー密度: 1.99 Å3/Da / 溶媒含有率: 38.19 % |
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結晶化 | pH: 6.5 詳細: 1.4 M NACL, 0.15 M NAH2PO4, 0.15 M KH2PO4,0.1 M NAMES PH6.5, pH 6.50 |
-データ収集
回折 | 平均測定温度: 100 K |
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放射光源 | 由来: ![]() ![]() ![]() |
検出器 | タイプ: ADSC CCD / 検出器: CCD / 日付: 2002年11月9日 |
放射 | プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
放射波長 | 波長: 0.934 Å / 相対比: 1 |
反射 | 解像度: 1.7→30 Å / Num. obs: 19517 / % possible obs: 99.2 % / Observed criterion σ(I): 0 / 冗長度: 12.6 % / Biso Wilson estimate: 17.1 Å2 / Rmerge(I) obs: 0.046 / Net I/σ(I): 13.2 |
反射 シェル | 解像度: 1.7→1.76 Å / Rmerge(I) obs: 0.279 / % possible all: 97.1 |
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解析
ソフトウェア |
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精密化 | 構造決定の手法: ![]() 開始モデル: PDB ENTRY 1OIW 解像度: 1.7→30 Å / Rfactor Rfree error: 0.006 / 交差検証法: THROUGHOUT / σ(F): 0 詳細: FINAL ROUND OF REFINEMENT WAS CARRIED OUT WITH REFMAC
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 44.052 Å2 / ksol: 0.373497 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 24.1 Å2
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Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 1.7→30 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 1.7→1.81 Å / Rfactor Rfree error: 0.016 / Total num. of bins used: 6
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Xplor file |
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