SASDCL6: Lys63-linked dimer ubiquitin (Polyubiquitin-C, ubiquitin)

基本情報

登録情報

データベース: SASBDB / ID: SASDCL6

試料

Lys63-linked dimer ubiquitin

• Polyubiquitin-C (protein), ubiquitin, Homo sapiens

機能・相同性

分子機能:

Maturation of protein E / Maturation of protein E / ER Quality Control Compartment (ERQC) / Myoclonic epilepsy of Lafora / FLT3 signaling by CBL mutants / Prevention of phagosomal-lysosomal fusion / IRAK2 mediated activation of TAK1 complex / Alpha-protein kinase 1 signaling pathway / Glycogen synthesis / IRAK1 recruits IKK complex / IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation / Endosomal Sorting Complex Required For Transport (ESCRT) / Membrane binding and targetting of GAG proteins / Negative regulation of FLT3 / Regulation of TBK1, IKKε (IKBKE)-mediated activation of IRF3, IRF7 / PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1 / Regulation of TBK1, IKKε-mediated activation of IRF3, IRF7 upon TLR3 ligation / Constitutive Signaling by NOTCH1 HD Domain Mutants / IRAK2 mediated activation of TAK1 complex upon TLR7/8 or 9 stimulation / NOTCH2 Activation and Transmission of Signal to the Nucleus / TICAM1,TRAF6-dependent induction of TAK1 complex / TICAM1-dependent activation of IRF3/IRF7 / APC/C:Cdc20 mediated degradation of Cyclin B / Downregulation of ERBB4 signaling / Regulation of FZD by ubiquitination / APC-Cdc20 mediated degradation of Nek2A / p75NTR recruits signalling complexes / InlA-mediated entry of Listeria monocytogenes into host cells / TRAF6 mediated IRF7 activation in TLR7/8 or 9 signaling / TRAF6-mediated induction of TAK1 complex within TLR4 complex / Regulation of pyruvate metabolism / NF-kB is activated and signals survival / Regulation of innate immune responses to cytosolic DNA / Pexophagy / Downregulation of ERBB2:ERBB3 signaling / NRIF signals cell death from the nucleus / VLDLR internalisation and degradation / Regulation of PTEN localization / Regulation of BACH1 activity / Activated NOTCH1 Transmits Signal to the Nucleus / Synthesis of active ubiquitin: roles of E1 and E2 enzymes / MAP3K8 (TPL2)-dependent MAPK1/3 activation / Translesion synthesis by REV1 / TICAM1, RIP1-mediated IKK complex recruitment / InlB-mediated entry of Listeria monocytogenes into host cell / Translesion synthesis by POLK / Activation of IRF3, IRF7 mediated by TBK1, IKKε (IKBKE) / Downregulation of TGF-beta receptor signaling / JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1 / Josephin domain DUBs / Translesion synthesis by POLI / Gap-filling DNA repair synthesis and ligation in GG-NER / IKK complex recruitment mediated by RIP1 / Regulation of activated PAK-2p34 by proteasome mediated degradation / PINK1-PRKN Mediated Mitophagy / TGF-beta receptor signaling in EMT (epithelial to mesenchymal transition) / TNFR1-induced NF-kappa-B signaling pathway / Autodegradation of Cdh1 by Cdh1:APC/C / TCF dependent signaling in response to WNT / APC/C:Cdc20 mediated degradation of Securin / Regulation of NF-kappa B signaling / N-glycan trimming in the ER and Calnexin/Calreticulin cycle / Asymmetric localization of PCP proteins / activated TAK1 mediates p38 MAPK activation / Ubiquitin-dependent degradation of Cyclin D / SCF-beta-TrCP mediated degradation of Emi1 / NIK-->noncanonical NF-kB signaling / TNFR2 non-canonical NF-kB pathway / AUF1 (hnRNP D0) binds and destabilizes mRNA / Regulation of signaling by CBL / Negative regulators of DDX58/IFIH1 signaling / NOTCH3 Activation and Transmission of Signal to the Nucleus / Deactivation of the beta-catenin transactivating complex / Vpu mediated degradation of CD4 / Assembly of the pre-replicative complex / Ubiquitin-Mediated Degradation of Phosphorylated Cdc25A / Negative regulation of FGFR3 signaling / Degradation of DVL / Fanconi Anemia Pathway / Peroxisomal protein import / Dectin-1 mediated noncanonical NF-kB signaling / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / Negative regulation of FGFR2 signaling / Stabilization of p53 / Negative regulation of FGFR4 signaling / Downregulation of SMAD2/3:SMAD4 transcriptional activity / Negative regulation of FGFR1 signaling / Degradation of AXIN / Regulation of TNFR1 signaling / Hh mutants are degraded by ERAD / EGFR downregulation / Activation of NF-kappaB in B cells / Termination of translesion DNA synthesis / Degradation of GLI1 by the proteasome / SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription / G2/M Checkpoints / Iron uptake and transport / Hedgehog ligand biogenesis / Assembly Of The HIV Virion / GSK3B and BTRC:CUL1-mediated-degradation of NFE2L2

ドメイン・相同性:

: / Ubiquitin domain signature. / Ubiquitin conserved site / Ubiquitin domain / Ubiquitin family / Ubiquitin homologues / Ubiquitin domain profile. / Ubiquitin-like domain / Ubiquitin-like domain superfamily

構成要素:

Polyubiquitin-C

• 生物種: Homo sapiens (ヒト)
• 引用: ジャーナル: Elife / 年: 2015; タイトル: Lys63-linked ubiquitin chain adopts multiple conformational states for specific target recognition.; 著者: Zhu Liu / Zhou Gong / Wen-Xue Jiang / Ju Yang / Wen-Kai Zhu / Da-Chuan Guo / Wei-Ping Zhang / Mai-Li Liu / Chun Tang / ; 要旨: A polyubiquitin comprises multiple covalently linked ubiquitins and recognizes myriad targets. Free or bound to ligands, polyubiquitins are found in different arrangements of ubiquitin subunits. To understand the structural basis for polyubiquitin quaternary plasticity and to explore the target recognition mechanism, we characterize the conformational space of Lys63-linked diubiquitin (K63-Ub2). Refining against inter-subunit paramagnetic NMR data, we show that free K63-Ub2 exists as a dynamic ensemble comprising multiple closed and open quaternary states. The quaternary dynamics enables K63-Ub2 to be specifically recognized in a variety of signaling pathways. When binding to a target protein, one of the preexisting quaternary states is selected and stabilized. A point mutation that shifts the equilibrium between the different states modulates the binding affinities towards K63-Ub2 ligands. This conformational selection mechanism at the quaternary level may be used by polyubiquitins of different lengths and linkages for target recognition.

登録者

• Zhu [e-mail] (Wuhan Institute of Physics and Mathematics of the Chinese Academy of Sciences)

モデル

試料

• 試料: 名称: Lys63-linked dimer ubiquitin / 試料濃度: 5.1 mg/ml
• バッファ: 名称: 100mM NaCl, 10mM sodium acetate / pH: 6

要素 #757

名称: ubiquitin / タイプ: protein / 記述: Polyubiquitin-C / 分子量: 8.565 / 分子数: 2 / 由来: Homo sapiens / 参照: UniProt: P0CG48
配列:

MQIFVKTLTG KTITLEVEPS DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN IQKESTLHLV LRLRGG

実験情報

• ビーム: 設備名称: Shanghai Synchrotron Radiation Facility (SSRF) BL19U2; 地域: Shanghai / 国: China / 線源: X-ray synchrotron / 波長: 0.1033 Å / スペクトロメータ・検出器間距離: 2.126 mm
• 検出器: 名称: Pilatus 1M

スキャン

タイトル: Lys63-linked dimer ubiquitin / 測定日: 2016年3月24日 / 保管温度: 4 °C / セル温度: 25 °C / 照射時間: 1 sec. / フレーム数: 20 / 単位: 1/A /

	Min	Max
Q	0.0123	0.4699

距離分布関数 P(R)

ソフトウェア P(R): GNOM 5.0 / ポイント数: 410 /

	Min	Max
Q	0.0270648	0.228209
P(R) point	1	410
R	0	65

結果

カーブのタイプ: single_conc /

	実験値	Porod
分子量	14 kDa	14 kDa
体積	-	23.8 nm3

	P(R)	P(R) error	Guinier	Guinier error
前方散乱 I0	69	0.07	69.0664	0.01
慣性半径, Rg	2.115 nm	0.024	2.084 nm	0.01

	Min	Max
D	-	6.5
Guinier point	31	101