- EMDB-2512: Cryo-EM of the Sec61-complex bound to an 80S-RNC engaged with an ... -
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IDまたはキーワード:
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基本情報
登録情報
データベース: EMDB / ID: EMD-2512
タイトル
Cryo-EM of the Sec61-complex bound to an 80S-RNC engaged with an membrane-inserting LepM chain
マップデータ
Reconstruction of Sec61 bound to a ribosome translating am inserting polypeptide (LepM)
試料
試料: Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating the membrane-inserting LepM-polypeptide
複合体: 80S Ribosome
タンパク質・ペプチド: Sec61-complex
キーワード
Co-translational protein translocation
機能・相同性
機能・相同性情報
Insertion of tail-anchored proteins into the endoplasmic reticulum membrane / membrane docking / endoplasmic reticulum Sec complex / pronephric nephron development / cotranslational protein targeting to membrane / Ssh1 translocon complex / Sec61 translocon complex / protein targeting to ER / protein-transporting ATPase activity / protein insertion into ER membrane ...Insertion of tail-anchored proteins into the endoplasmic reticulum membrane / membrane docking / endoplasmic reticulum Sec complex / pronephric nephron development / cotranslational protein targeting to membrane / Ssh1 translocon complex / Sec61 translocon complex / protein targeting to ER / protein-transporting ATPase activity / protein insertion into ER membrane / signal sequence binding / SRP-dependent cotranslational protein targeting to membrane, translocation / post-translational protein targeting to membrane, translocation / protein transmembrane transporter activity / phospholipid binding / ribosome binding / endoplasmic reticulum membrane / endoplasmic reticulum / membrane 類似検索 - 分子機能
Protein transport Sec61-beta/Sbh / Protein transport protein SecG/Sec61-beta/Sbh / Sec61beta family / Protein translocase SEC61 complex, gamma subunit / Protein translocase SecE domain superfamily / Translocon Sec61/SecY, plug domain / Plug domain of Sec61p / Protein secE/sec61-gamma signature. / Protein secY signature 1. / Protein secY signature 2. ...Protein transport Sec61-beta/Sbh / Protein transport protein SecG/Sec61-beta/Sbh / Sec61beta family / Protein translocase SEC61 complex, gamma subunit / Protein translocase SecE domain superfamily / Translocon Sec61/SecY, plug domain / Plug domain of Sec61p / Protein secE/sec61-gamma signature. / Protein secY signature 1. / Protein secY signature 2. / SecE/Sec61-gamma subunits of protein translocation complex / Protein translocase complex, SecE/Sec61-gamma subunit / SecY/SEC61-alpha family / SecY domain superfamily / SecY conserved site / SecY 類似検索 - ドメイン・相同性
Protein transport protein Sec61 subunit alpha isoform 1 / Protein transport protein Sec61 subunit gamma / Protein transport protein Sec61 subunit beta 類似検索 - 構成要素
ジャーナル: Nature / 年: 2014 タイトル: Structures of the Sec61 complex engaged in nascent peptide translocation or membrane insertion. 著者: Marko Gogala / Thomas Becker / Birgitta Beatrix / Jean-Paul Armache / Clara Barrio-Garcia / Otto Berninghausen / Roland Beckmann / 要旨: The biogenesis of secretory as well as transmembrane proteins requires the activity of the universally conserved protein-conducting channel (PCC), the Sec61 complex (SecY complex in bacteria). In ...The biogenesis of secretory as well as transmembrane proteins requires the activity of the universally conserved protein-conducting channel (PCC), the Sec61 complex (SecY complex in bacteria). In eukaryotic cells the PCC is located in the membrane of the endoplasmic reticulum where it can bind to translating ribosomes for co-translational protein transport. The Sec complex consists of three subunits (Sec61α, β and γ) and provides an aqueous environment for the translocation of hydrophilic peptides as well as a lateral opening in the Sec61α subunit that has been proposed to act as a gate for the membrane partitioning of hydrophobic domains. A plug helix and a so-called pore ring are believed to seal the PCC against ion flow and are proposed to rearrange for accommodation of translocating peptides. Several crystal and cryo-electron microscopy structures revealed different conformations of closed and partially open Sec61 and SecY complexes. However, in none of these samples has the translocation state been unambiguously defined biochemically. Here we present cryo-electron microscopy structures of ribosome-bound Sec61 complexes engaged in translocation or membrane insertion of nascent peptides. Our data show that a hydrophilic peptide can translocate through the Sec complex with an essentially closed lateral gate and an only slightly rearranged central channel. Membrane insertion of a hydrophobic domain seems to occur with the Sec complex opening the proposed lateral gate while rearranging the plug to maintain an ion permeability barrier. Taken together, we provide a structural model for the basic activities of the Sec61 complex as a protein-conducting channel.
ダウンロード / ファイル: emd_2512.map.gz / 形式: CCP4 / 大きさ: 185.7 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
Reconstruction of Sec61 bound to a ribosome translating am inserting polypeptide (LepM)
ボクセルのサイズ
X=Y=Z: 1.2374 Å
密度
表面レベル
登録者による: 0.1 / ムービー #1: 0.1
最小 - 最大
-0.35129607 - 0.7926681
平均 (標準偏差)
0.00147863 (±0.05871441)
対称性
空間群: 1
詳細
EMDB XML:
マップ形状
Axis order
Y
X
Z
Origin
-184
-184
-183
サイズ
368
368
368
Spacing
368
368
368
セル
A=B=C: 455.36322 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
1.2373994565217
1.2373994565217
1.2373994565217
M x/y/z
368
368
368
origin x/y/z
0.000
0.000
0.000
length x/y/z
455.363
455.363
455.363
α/β/γ
90.000
90.000
90.000
start NX/NY/NZ
-184
-184
-183
NX/NY/NZ
368
368
368
MAP C/R/S
2
1
3
start NC/NR/NS
-184
-184
-183
NC/NR/NS
368
368
368
D min/max/mean
-0.351
0.793
0.001
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添付データ
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試料の構成要素
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全体 : Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating ...
全体
名称: Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating the membrane-inserting LepM-polypeptide
要素
試料: Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating the membrane-inserting LepM-polypeptide
複合体: 80S Ribosome
タンパク質・ペプチド: Sec61-complex
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超分子 #1000: Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating ...
超分子
名称: Canis familiaris Sec61 bound to a wheat germ 80S-RNC translating the membrane-inserting LepM-polypeptide タイプ: sample / ID: 1000 / 集合状態: One Sec61 binds to one 80S ribosome / Number unique components: 2
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超分子 #1: 80S Ribosome
超分子
名称: 80S Ribosome / タイプ: complex / ID: 1 / 組換発現: No / Ribosome-details: ribosome-eukaryote: ALL
由来(天然)
生物種: Triticum aestivum (コムギ) / 別称: wheat germ
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分子 #1: Sec61-complex
分子
名称: Sec61-complex / タイプ: protein_or_peptide / ID: 1 / Name.synonym: Dog pancreas Sec61-complex / 詳細: Data-subset resulted from computational sorting / コピー数: 1 / 集合状態: Monomer / 組換発現: No