- EMDB-4863: Cryo-EM structure of the N-terminal DC repeat (NDC) of NDC-NDC ch... -
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基本情報
登録情報
データベース: EMDB / ID: EMD-4863
タイトル
Cryo-EM structure of the N-terminal DC repeat (NDC) of NDC-NDC chimera (human sequence) bound to 14-protofilament GDP-microtubule
マップデータ
Cryo-EM structure of the N-terminal DC repeat (NDC) of NDC-NDC chimera (human sequence) bound to 14-protofilament GDP-microtubule
試料
複合体: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two alpha-subunits and two beta-subunits)
複合体: human doublecortin
タンパク質・ペプチド: Neuronal migration protein doublecortin
複合体: tubulin
タンパク質・ペプチド: Tubulin beta-2B chain
タンパク質・ペプチド: Tubulin alpha-1B chain
リガンド: GUANOSINE-5'-TRIPHOSPHATE
リガンド: MAGNESIUM ION
リガンド: GUANOSINE-5'-DIPHOSPHATE
キーワード
Microtubule-associated protein chimera / ubiquitin-like fold / microtubule stabilisation / CYTOSOLIC PROTEIN
機能・相同性
機能・相同性情報
axoneme assembly / Neurofascin interactions / positive regulation of axon guidance / microtubule associated complex / microtubule organizing center / microtubule-based process / central nervous system development / 加水分解酵素; 酸無水物に作用; GTPに作用・細胞または細胞小器官の運動に関与 / neuron migration / structural constituent of cytoskeleton ...axoneme assembly / Neurofascin interactions / positive regulation of axon guidance / microtubule associated complex / microtubule organizing center / microtubule-based process / central nervous system development / 加水分解酵素; 酸無水物に作用; GTPに作用・細胞または細胞小器官の運動に関与 / neuron migration / structural constituent of cytoskeleton / microtubule cytoskeleton organization / microtubule cytoskeleton / retina development in camera-type eye / nervous system development / mitotic cell cycle / microtubule binding / microtubule / cytoskeleton / intracellular signal transduction / neuron projection / protein heterodimerization activity / GTPase activity / GTP binding / protein kinase binding / metal ion binding / cytoplasm / cytosol 類似検索 - 分子機能
ジャーナル: EMBO Rep / 年: 2020 タイトル: Pseudo-repeats in doublecortin make distinct mechanistic contributions to microtubule regulation. 著者: Szymon W Manka / Carolyn A Moores / 要旨: Doublecortin (DCX) is a neuronal microtubule-associated protein (MAP) indispensable for brain development. Its flexibly linked doublecortin (DC) domains-NDC and CDC-mediate microtubule (MT) ...Doublecortin (DCX) is a neuronal microtubule-associated protein (MAP) indispensable for brain development. Its flexibly linked doublecortin (DC) domains-NDC and CDC-mediate microtubule (MT) nucleation and stabilization, but it is unclear how. Using high-resolution time-resolved cryo-EM, we mapped NDC and CDC interactions with tubulin at different MT polymerization stages and studied their functional effects on MT dynamics using TIRF microscopy. Although coupled, each DC repeat within DCX appears to have a distinct role in MT nucleation and stabilization: CDC is a conformationally plastic module that appears to facilitate MT nucleation and stabilize tubulin-tubulin contacts in the nascent MT lattice, while NDC appears to be favored along the mature lattice, providing MT stabilization. Our structures of MT-bound DC domains also explain in unprecedented detail the DCX mutation-related brain defects observed in the clinic. This modular composition of DCX reflects a common design principle among MAPs where pseudo-repeats of tubulin/MT binding elements chaperone or stabilize distinct conformational transitions to regulate distinct stages of MT dynamic instability.
#241 - 2020年1月 20年の分子を振り返って (Twenty Years of Molecules) 類似性 (19)
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マップ
ファイル
ダウンロード / ファイル: emd_4863.map.gz / 形式: CCP4 / 大きさ: 2 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
Cryo-EM structure of the N-terminal DC repeat (NDC) of NDC-NDC chimera (human sequence) bound to 14-protofilament GDP-microtubule
ボクセルのサイズ
X=Y=Z: 1.39 Å
密度
表面レベル
登録者による: 0.03 / ムービー #1: 0.03
最小 - 最大
-0.08062031 - 0.17560998
平均 (標準偏差)
0.005633883 (±0.018871019)
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
96
60
92
Spacing
60
96
92
セル
A: 83.4 Å / B: 133.44 Å / C: 127.88 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
1.39
1.39
1.39
M x/y/z
60
96
92
origin x/y/z
0.000
0.000
0.000
length x/y/z
83.400
133.440
127.880
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
60
96
92
D min/max/mean
-0.081
0.176
0.006
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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 : 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chim...
全体
名称: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two ...名称: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two alpha-subunits and two beta-subunits)
要素
複合体: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two alpha-subunits and two beta-subunits)
複合体: human doublecortin
タンパク質・ペプチド: Neuronal migration protein doublecortin
複合体: tubulin
タンパク質・ペプチド: Tubulin beta-2B chain
タンパク質・ペプチド: Tubulin alpha-1B chain
リガンド: GUANOSINE-5'-TRIPHOSPHATE
リガンド: MAGNESIUM ION
リガンド: GUANOSINE-5'-DIPHOSPHATE
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超分子 #1: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chim...
超分子
名称: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two ...名称: 5-component complex of N-terminal DC domain (NDC) of NDC-NDC chimera (human doublecortin sequence) bound to 14-protofilament GDP-microtubule lattice site composed of 4 tubulin subunits (two alpha-subunits and two beta-subunits) タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#3