+
データを開く
-
基本情報
登録情報 | データベース: PDB / ID: 2y3v | ||||||
---|---|---|---|---|---|---|---|
タイトル | N-terminal head domain of Danio rerio SAS-6 | ||||||
![]() | SPINDLE ASSEMBLY ABNORMAL PROTEIN 6 HOMOLOG | ||||||
![]() | STRUCTURAL PROTEIN / CYTOSKELETON / BASAL BODY / CENTRIOLE / CARTWHEEL / CARTWHEEL HUB | ||||||
機能・相同性 | ![]() positive regulation of mitotic spindle organization / deuterosome / procentriole replication complex / positive regulation of centriole replication / nuclear division / positive regulation of spindle assembly / embryonic cleavage / centriole replication / centrosome duplication / positive regulation of G1/S transition of mitotic cell cycle ...positive regulation of mitotic spindle organization / deuterosome / procentriole replication complex / positive regulation of centriole replication / nuclear division / positive regulation of spindle assembly / embryonic cleavage / centriole replication / centrosome duplication / positive regulation of G1/S transition of mitotic cell cycle / centriole / mitotic spindle organization / spermatogenesis / centrosome / cytoplasm 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | van Breugel, M. | ||||||
![]() | ![]() タイトル: Structures of SAS-6 suggest its organization in centrioles. 著者: van Breugel, M. / Hirono, M. / Andreeva, A. / Yanagisawa, H.A. / Yamaguchi, S. / Nakazawa, Y. / Morgner, N. / Petrovich, M. / Ebong, I.O. / Robinson, C.V. / Johnson, C.M. / Veprintsev, D. / Zuber, B. | ||||||
履歴 |
| ||||||
Remark 700 | SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW ... SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. THE SHEETS PRESENTED AS "CA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. THE SHEETS PRESENTED AS "DA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. |
-
構造の表示
構造ビューア | 分子: ![]() ![]() |
---|
-
ダウンロードとリンク
-
ダウンロード
PDBx/mmCIF形式 | ![]() | 141.9 KB | 表示 | ![]() |
---|---|---|---|---|
PDB形式 | ![]() | 113.6 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 451.7 KB | 表示 | ![]() |
---|---|---|---|---|
文書・詳細版 | ![]() | 459.1 KB | 表示 | |
XML形式データ | ![]() | 27.6 KB | 表示 | |
CIF形式データ | ![]() | 39.4 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
-
リンク
-
集合体
登録構造単位 | ![]()
| ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||||||||||
2 | ![]()
| ||||||||||||||||
3 | ![]()
| ||||||||||||||||
4 | ![]()
| ||||||||||||||||
単位格子 |
| ||||||||||||||||
非結晶学的対称性 (NCS) | NCS oper:
|
-
要素
#1: タンパク質 | 分子量: 18273.865 Da / 分子数: 4 / 断片: HEAD DOMAIN, RESIDUES 1-156 / 由来タイプ: 組換発現 由来: (組換発現) ![]() ![]() 解説: CDNA FROM ZEBRAFISH / プラスミド: PET28 DERIVATIVE / 発現宿主: ![]() ![]() #2: 水 | ChemComp-HOH / | 配列の詳細 | THE N-TERMINAL THREE RESIDUES (GPH) STEM FROM THE EXPRESSION VECTOR. THE S102N MUTATION PROBABLY ...THE N-TERMINAL THREE RESIDUES (GPH) STEM FROM THE EXPRESSION | |
---|
-実験情報
-実験
実験 | 手法: ![]() |
---|
-
試料調製
結晶 | マシュー密度: 2.9 Å3/Da / 溶媒含有率: 57.66 % 解説: THE SELENOMETHIONINE DERIVATIVE STRUCTURE WAS SOLVED BY MAD USING A DERIVATIVE OF A L57M,L90M MUTANT. AN INITIAL MODEL WAS BUILT USING THE EXPERIMENTAL ELECTRON DENSITY MAP AND THEN USED FOR ...解説: THE SELENOMETHIONINE DERIVATIVE STRUCTURE WAS SOLVED BY MAD USING A DERIVATIVE OF A L57M,L90M MUTANT. AN INITIAL MODEL WAS BUILT USING THE EXPERIMENTAL ELECTRON DENSITY MAP AND THEN USED FOR MOLECULAR REPLACEMENT AGAINST THE NATIVE DATASET. |
---|---|
結晶化 | pH: 8.5 / 詳細: 0.1 M TRIS PH 8.5, 25% PEG 3350. |
-データ収集
回折 | 平均測定温度: 77 K |
---|---|
放射光源 | 由来: ![]() ![]() ![]() |
検出器 | タイプ: ADSC QUANTUM 315r / 検出器: CCD / 日付: 2009年12月12日 |
放射 | モノクロメーター: LIQUID NITROGEN COOLED CHANNEL-CUT SILICON MONOCHROMATOR 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: 0.979 Å / 相対比: 1 |
反射 | 解像度: 1.92→54.8 Å / Num. obs: 63745 / % possible obs: 99.4 % / Observed criterion σ(I): 0 / 冗長度: 12.3 % / Rmerge(I) obs: 0.13 / Net I/σ(I): 12.4 |
反射 シェル | 解像度: 1.92→2.02 Å / 冗長度: 11.9 % / Rmerge(I) obs: 1.5 / Mean I/σ(I) obs: 1.8 / % possible all: 98.6 |
-
解析
ソフトウェア |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
精密化 | 構造決定の手法: ![]() 開始モデル: SE-MET DERIVATIVE 解像度: 1.92→54.799 Å / SU ML: 0.28 / σ(F): 0 / 位相誤差: 26.81 / 立体化学のターゲット値: ML 詳細: RESIDUES A-2, C-2, AND C145 TO C156, D-2 TO D0, AND D155-D156, ARE DISORDERED. LOOP REGION C112 TO C120 SHOWED POOR ELECTRON DENSITY.
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | 減衰半径: 0.83 Å / VDWプローブ半径: 1.1 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL / Bsol: 40.852 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 39.18 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化ステップ | サイクル: LAST / 解像度: 1.92→54.799 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS精密化 シェル |
|