SASDCZ9: Glyceraldehyde-3-phosphate dehydrogenase from C. reinhardtii

基本情報

• 登録情報: データベース: SASBDB / ID: SASDCZ9

試料

Glyceraldehyde-3-phosphate dehydrogenase from C. reinhardtii

• Glyceraldehyde-3-phosphate dehydrogenase (protein), GAPDH, Chlamydomonas reinhardtii

機能・相同性

分子機能:

酸化還元酵素; アルデヒドまたはケトンに対し酸化酵素として働く; NAD又はNADPを用いる / glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity / glucose metabolic process / NAD binding / NADP binding

ドメイン・相同性:

Glyceraldehyde-3-phosphate dehydrogenase, type I / Glyceraldehyde 3-phosphate dehydrogenase, active site / Glyceraldehyde 3-phosphate dehydrogenase active site. / Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain / Glyceraldehyde 3-phosphate dehydrogenase, NAD(P) binding domain / Glyceraldehyde 3-phosphate dehydrogenase, catalytic domain / Glyceraldehyde/Erythrose phosphate dehydrogenase family / Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain / Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain / NAD(P)-binding domain superfamily

構成要素:

Glyceraldehyde-3-phosphate dehydrogenase

• 生物種: Chlamydomonas reinhardtii (クラミドモナス)
• 引用: ジャーナル: J Mol Biol / 年: 2018; タイトル: Cryptic Disorder Out of Disorder: Encounter between Conditionally Disordered CP12 and Glyceraldehyde-3-Phosphate Dehydrogenase.; 著者: Hélène Launay / Patrick Barré / Carine Puppo / Yizhi Zhang / Stéphanie Maneville / Brigitte Gontero / Véronique Receveur-Bréchot / ; 要旨: Among intrinsically disordered proteins, conditionally disordered proteins undergo dramatic structural disorder rearrangements upon environmental changes and/or post-translational modifications that directly modulate their function. Quantifying the dynamics of these fluctuating proteins is extremely challenging but paramount to understanding the regulation of their function. The chloroplast protein CP12 is a model of such proteins and acts as a redox switch by formation/disruption of its two disulfide bridges. It regulates the Calvin cycle by forming, in oxidized conditions, a supramolecular complex with glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and then phosphoribulokinase. In this complex, both enzymes are inactive. The highly dynamic nature of CP12 has so far hindered structural characterization explaining its mode of action. Thanks to a synergistic combination of small-angle X-ray scattering, nuclear magnetic resonance and circular dichroism that drove the molecular modeling of structural ensembles, we deciphered the structural behavior of Chlamydomonas reinhardtii oxidized CP12 alone and in the presence of GAPDH. Contrary to sequence-based structural predictions, the N-terminal region is unstable, oscillates at the ms timescale between helical and random conformations, and is connected through a disordered linker to its C-terminus, which forms a stable helical turn. Upon binding to GAPDH, oxidized CP12 undergoes an induced unfolding of its N-terminus. This phenomenon called cryptic disorder contributes to decrease the entropy cost and explains CP12 unusual high affinity for its partners.

登録者

• Veronique Receveur-Brechot (Aix Marseille Univ, CNRS, BIP UMR7281, Marseille, France)

モデル

• モデル #1699: ; タイプ: atomic / ダミー原子の半径: 1.90 A / カイ2乗値: 8.543929; Omokage検索でこの集合体の類似形状データを探す (詳細)
• モデル #1700: ; タイプ: atomic / ダミー原子の半径: 1.90 A / カイ2乗値: 8.415801; Omokage検索でこの集合体の類似形状データを探す (詳細)

試料

• 試料: 名称: Glyceraldehyde-3-phosphate dehydrogenase from C. reinhardtii; 試料濃度: 23 mg/ml
• バッファ: 名称: 30 mM Tris, 4 mM EDTA, 100 µM NAD, 5 mM free cysteine; pH: 7.9

要素 #911

名称: GAPDH / タイプ: protein / 記述: Glyceraldehyde-3-phosphate dehydrogenase / 分子量: 36.881 / 分子数: 4 / 由来: Chlamydomonas reinhardtii / 参照: UniProt: A8HP84
配列:

EKKIRVAING FGRIGRNFLR CWHGRQNTLL DVVAINDSGG VKQASHLLKY DSTLGTFAAD VKIVDDSHIS VDGKQIKIVS SRDPLQLPWK EMNIDLVIEG TGVFIDKVGA GKHIQAGASK VLITAPAKDK DIPTFVVGVN EGDYKHEYPI ISNASCTTNC LAPFVKVLEQ KFGIVKGTMT TTHSYTGDQR LLDASHRDLR RARAAALNIV PTTTGAAKAV SLVLPSLKGK LNGIALRVPT PTVSVVDLVV QVEKKTFAEE VNAAFREAAN GPMKGVLHVE DAPLVSIDFK CTDQSTSIDA SLTMVMGDDM VKVVAWYDNE WGYSQRVVDL AEVTAKKWVA

実験情報

• ビーム: 設備名称: SOLEIL SWING / 地域: Saint-Aubin / 国: France / 線源: X-ray synchrotron / 波長: 0.1033 Å / スペクトロメータ・検出器間距離: 1.817 mm
• 検出器: 名称: AVIEX / タイプ: CCD

スキャン

タイトル: Glyceraldehyde-3-phosphate dehydrogenase from C. reinhardtii
測定日: 2011年2月7日 / 保管温度: 15 °C / セル温度: 20 °C / 照射時間: 1 sec. / フレーム数: 250 / 単位: 1/A /

	Min	Max
Q	0.0093	0.3842

距離分布関数 P(R)

ソフトウェア P(R): GNOM 4.6 / ポイント数: 466 /

	Min	Max
Q	0.009477	0.384
P(R) point	1	466
R	0	89.5

結果

カーブのタイプ: sec /

	実験値	Porod
分子量	148 kDa	-
体積	-	206.43 nm3

	P(R)	P(R) error	Guinier	Guinier error
前方散乱 I0	0.0002599	1.0E-8	0.000257	9.0E-7
慣性半径, Rg	3.24 nm	0.001	3.18 nm	0.02

	Min	Max	Error
D	-	8.95	0.05
Guinier point	1	35	-