ジャーナル: Protein Cell / 年: 2016 タイトル: Structural dynamics of the yeast Shwachman-Diamond syndrome protein (Sdo1) on the ribosome and its implication in the 60S subunit maturation. 著者: Chengying Ma / Kaige Yan / Dan Tan / Ningning Li / Yixiao Zhang / Yi Yuan / Zhifei Li / Meng-Qiu Dong / Jianlin Lei / Ning Gao / 要旨: The human Shwachman-Diamond syndrome (SDS) is an autosomal recessive disease caused by mutations in a highly conserved ribosome assembly factor SBDS. The functional role of SBDS is to cooperate with ...The human Shwachman-Diamond syndrome (SDS) is an autosomal recessive disease caused by mutations in a highly conserved ribosome assembly factor SBDS. The functional role of SBDS is to cooperate with another assembly factor, elongation factor 1-like (Efl1), to promote the release of eukaryotic initiation factor 6 (eIF6) from the late-stage cytoplasmic 60S precursors. In the present work, we characterized, both biochemically and structurally, the interaction between the 60S subunit and SBDS protein (Sdo1p) from yeast. Our data show that Sdo1p interacts tightly with the mature 60S subunit in vitro through its domain I and II, and is capable of bridging two 60S subunits to form a stable 2:2 dimer. Structural analysis indicates that Sdo1p bind to the ribosomal P-site, in the proximity of uL16 and uL5, and with direct contact to H69 and H38. The dynamic nature of Sdo1p on the 60S subunit, together with its strategic binding position, suggests a surveillance role of Sdo1p in monitoring the conformational maturation of the ribosomal P-site. Altogether, our data support a conformational signal-relay cascade during late-stage 60S maturation, involving uL16, Sdo1p, and Efl1p, which interrogates the functional P-site to control the departure of the anti-association factor eIF6.
ダウンロード / ファイル: emd_3280.map.gz / 形式: CCP4 / 大きさ: 21.7 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
Reconstruction of 60S-Sdo1p complex.
ボクセルのサイズ
X=Y=Z: 2.76 Å
密度
表面レベル
登録者による: 0.025 / ムービー #1: 0.025
最小 - 最大
-0.03258364 - 0.11587372
平均 (標準偏差)
-0.00059538 (±0.01439751)
対称性
空間群: 1
詳細
EMDB XML:
マップ形状
Axis order
X
Y
Z
Origin
0
0
0
サイズ
180
180
180
Spacing
180
180
180
セル
A=B=C: 496.8 Å α=β=γ: 90.0 °
CCP4マップ ヘッダ情報:
mode
Image stored as Reals
Å/pix. X/Y/Z
2.76
2.76
2.76
M x/y/z
180
180
180
origin x/y/z
0.000
0.000
0.000
length x/y/z
496.800
496.800
496.800
α/β/γ
90.000
90.000
90.000
MAP C/R/S
1
2
3
start NC/NR/NS
0
0
0
NC/NR/NS
180
180
180
D min/max/mean
-0.033
0.116
-0.001
-
添付データ
-
試料の構成要素
-
全体 : The dimeric structure of the yeast 60S ribosomal subunits bound w...
全体
名称: The dimeric structure of the yeast 60S ribosomal subunits bound with Sdo1p
要素
試料: The dimeric structure of the yeast 60S ribosomal subunits bound with Sdo1p
複合体: Sdo1p bound 60S subunit
タンパク質・ペプチド: Sdo1p
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超分子 #1000: The dimeric structure of the yeast 60S ribosomal subunits bound w...
超分子
名称: The dimeric structure of the yeast 60S ribosomal subunits bound with Sdo1p タイプ: sample / ID: 1000 / 集合状態: two Sdo1p binding to two 60S subunit / Number unique components: 2