- EMDB-11267: E2 core of the fungal Pyruvate dehydrogenase complex with flexibl... -
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基本情報
登録情報
データベース: EMDB / ID: EMD-11267
タイトル
E2 core of the fungal Pyruvate dehydrogenase complex with flexible/oversym. periphery, structured core and S4X-structured interior.
マップデータ
Fungal PDC (N. crassa). Endogenous preparation-E1 E2 E3 PX. Enforced symmetry: T. Periphery is flexible/oversym. Core is structured. Interior is structured in arrangement X / S4X.
試料
複合体: endogenous pyruvate dehydrogenase complex form Neurospora crassa
ジャーナル: Nat Commun / 年: 2020 タイトル: Arrangement and symmetry of the fungal E3BP-containing core of the pyruvate dehydrogenase complex. 著者: B O Forsberg / S Aibara / R J Howard / N Mortezaei / E Lindahl / 要旨: The pyruvate dehydrogenase complex (PDC) is a multienzyme complex central to aerobic respiration, connecting glycolysis to mitochondrial oxidation of pyruvate. Similar to the E3-binding protein (E3BP) ...The pyruvate dehydrogenase complex (PDC) is a multienzyme complex central to aerobic respiration, connecting glycolysis to mitochondrial oxidation of pyruvate. Similar to the E3-binding protein (E3BP) of mammalian PDC, PX selectively recruits E3 to the fungal PDC, but its divergent sequence suggests a distinct structural mechanism. Here, we report reconstructions of PDC from the filamentous fungus Neurospora crassa by cryo-electron microscopy, where we find protein X (PX) interior to the PDC core as opposed to substituting E2 core subunits as in mammals. Steric occlusion limits PX binding, resulting in predominantly tetrahedral symmetry, explaining previous observations in Saccharomyces cerevisiae. The PX-binding site is conserved in (and specific to) fungi, and complements possible C-terminal binding motifs in PX that are absent in mammalian E3BP. Consideration of multiple symmetries thus reveals a differential structural basis for E3BP-like function in fungal PDC.
EMPIAR-10489 (タイトル: Native Pyruvate Dehydrogenase Complex from Neurospora crassa Data size: 305.5 Data #1: Aligned and dose-weighted micrographs of native N. crassa Pyruvate dehydrogenase [micrographs - single frame])
ダウンロード / ファイル: emd_11267.map.gz / 形式: CCP4 / 大きさ: 125 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
Fungal PDC (N. crassa). Endogenous preparation-E1 E2 E3 PX. Enforced symmetry: T. Periphery is flexible/oversym. Core is structured. Interior is structured in arrangement X / S4X.
ボクセルのサイズ
X=Y=Z: 1.25 Å
密度
表面レベル
登録者による: 0.0235 / ムービー #1: 0.0235
最小 - 最大
-0.098044135 - 0.215307
平均 (標準偏差)
0.0016172924 (±0.01322224)
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
320
320
320
Spacing
320
320
320
セル
A=B=C: 400.0 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
1.25
1.25
1.25
M x/y/z
320
320
320
origin x/y/z
0.000
0.000
0.000
length x/y/z
400.000
400.000
400.000
α/β/γ
90.000
90.000
90.000
start NX/NY/NZ
108
134
0
NX/NY/NZ
135
84
349
MAP C/R/S
1
2
3
start NC/NR/NS
0
0
0
NC/NR/NS
320
320
320
D min/max/mean
-0.098
0.215
0.002
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添付データ
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ハーフマップ: Half-map 2. Fungal PDC (N. crassa). Endogenous preparation-E1...
Half-map 2. Fungal PDC (N. crassa). Endogenous preparation-E1 E2 E3 PX. Enforced symmetry: T. Periphery is flexible/oversym. Core is structured. Interior is structured in arrangement X / S4X.
Half-map 1. Fungal PDC (N. crassa). Endogenous preparation-E1 E2 E3 PX. Enforced symmetry: T. Periphery is flexible/oversym. Core is structured. Interior is structured in arrangement X / S4X.