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-基本情報
登録情報 | データベース: SASBDB / ID: SASDBT8 |
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試料 | Probable ATP-dependent RNA helicase DDX58 (Delta-CARDs RIG-I) plus 8mer hairpin dsRNA (SEC-peak2)
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機能・相同性 | 機能・相同性情報 regulation of type III interferon production / RIG-I signaling pathway / positive regulation of myeloid dendritic cell cytokine production / OAS antiviral response / detection of virus / NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 / positive regulation of response to cytokine stimulus / positive regulation of granulocyte macrophage colony-stimulating factor production / pattern recognition receptor activity / TRAF6 mediated IRF7 activation ...regulation of type III interferon production / RIG-I signaling pathway / positive regulation of myeloid dendritic cell cytokine production / OAS antiviral response / detection of virus / NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 / positive regulation of response to cytokine stimulus / positive regulation of granulocyte macrophage colony-stimulating factor production / pattern recognition receptor activity / TRAF6 mediated IRF7 activation / response to exogenous dsRNA / cellular response to exogenous dsRNA / cytoplasmic pattern recognition receptor signaling pathway / positive regulation of interferon-alpha production / antiviral innate immune response / TRAF6 mediated NF-kB activation / bicellular tight junction / regulation of cell migration / positive regulation of defense response to virus by host / positive regulation of interferon-beta production / Negative regulators of DDX58/IFIH1 signaling / positive regulation of interleukin-8 production / response to virus / DDX58/IFIH1-mediated induction of interferon-alpha/beta / ISG15 antiviral mechanism / ruffle membrane / positive regulation of interleukin-6 production / SARS-CoV-1 activates/modulates innate immune responses / positive regulation of DNA-binding transcription factor activity / Ovarian tumor domain proteases / マイクロフィラメント / positive regulation of tumor necrosis factor production / double-stranded RNA binding / 遺伝子発現 / TRAF3-dependent IRF activation pathway / double-stranded DNA binding / defense response to virus / RNA helicase activity / single-stranded RNA binding / Ub-specific processing proteases / ヘリカーゼ / ribonucleoprotein complex / 自然免疫系 / ubiquitin protein ligase binding / positive regulation of gene expression / GTP binding / SARS-CoV-2 activates/modulates innate and adaptive immune responses / ATP hydrolysis activity / positive regulation of transcription by RNA polymerase II / zinc ion binding / ATP binding / identical protein binding / 細胞質基質 / 細胞質 類似検索 - 分子機能 |
生物種 | Homo sapiens (ヒト) |
引用 | ジャーナル: Nucleic Acids Res / 年: 2018 タイトル: Combined roles of ATP and small hairpin RNA in the activation of RIG-I revealed by solution-based analysis. 著者: Neelam Shah / Simone A Beckham / Jacqueline A Wilce / Matthew C J Wilce / 要旨: RIG-I (retinoic acid inducible gene-I) is a cytosolic innate immune protein that senses viral dsRNA with a 5'-triphosphate overhang. Upon interaction with dsRNA a de-repression of the RIG-I CARD ...RIG-I (retinoic acid inducible gene-I) is a cytosolic innate immune protein that senses viral dsRNA with a 5'-triphosphate overhang. Upon interaction with dsRNA a de-repression of the RIG-I CARD domains takes place that ultimately leads to the production of type I interferons and pro-inflammatory cytokines. Here we investigate the RIG-I conformational rearrangement upon interaction with an activating 5'-triphosphate-10-base pair dsRNA hairpin loop (10bp) compared with a less active 5'-triphosphate-8-base pair dsRNA hairpin loop (8bp). We use size-exclusion chromatography-coupled small-angle X-ray scattering (SAXS) and limited tryptic digest experiments to show that that upon binding to 10 bp, but not 8 bp, RIG-I becomes extended and shows greater flexibility, reflecting the release of its CARDs. We also examined the effect of different ATP analogues on the conformational changes of RIG-I/dsRNA complexes. Of the analogues tested, the addition of ATP transition state analogue ADP-AlFx further assisted in the complete activation of RIG-I in complex with 10bp and also to some extent RIG-I bound to 8bp. Together these data provide solution-based evidence for the molecular mechanism of innate immune signaling by RIG-I as stimulated by short hairpin RNA and ATP. |
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-構造の表示
-ダウンロードとリンク
-Data source
SASBDBのページ | SASDBT8 |
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-関連構造データ
関連構造データ | C: 同じ文献を引用 (文献) |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-外部リンク
「今月の分子」の関連する項目 |
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-モデル
-試料
試料 | 名称: Probable ATP-dependent RNA helicase DDX58 (Delta-CARDs RIG-I) plus 8mer hairpin dsRNA (SEC-peak2) Entity id: 553 / 555 |
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バッファ | 名称: 25 mM HEPES, 150 mM NaCl, 2.5 mM MgCl2, 10% glycerol and 1mM DTT pH: 7.4 |
要素 #553 | 名称: 8bp / タイプ: RNA / 記述: 5´ppp 8mer hairpin dsRNA / 分子量: 6.484 / 分子数: 2 配列: GGCGCGGCUU CGGCCGCGCC |
要素 #555 | 名称: DC-RIG-I / タイプ: protein 記述: Probable ATP-dependent RNA helicase DDX58 (without CARDs) 分子量: 79.77 / 分子数: 2 / 由来: Homo sapiens / 参照: UniProt: O95786 配列: MHHHHHHAAA SPFKPRNYQL ELALPAMKGK NTIICAPTGC GKTFVSLLIC EHHLKKFPQG QKGKVVFFAN QIPVYEQQKS VFSKYFERHG YRVTGISGAT AENVPVEQIV ENNDIIILTP QILVNNLKKG TIPSLSIFTL MIFDECHNTS KQHPYNMIMF NYLDQKLGGS ...配列: MHHHHHHAAA SPFKPRNYQL ELALPAMKGK NTIICAPTGC GKTFVSLLIC EHHLKKFPQG QKGKVVFFAN QIPVYEQQKS VFSKYFERHG YRVTGISGAT AENVPVEQIV ENNDIIILTP QILVNNLKKG TIPSLSIFTL MIFDECHNTS KQHPYNMIMF NYLDQKLGGS SGPLPQVIGL TASVGVGDAK NTDEALDYIC KLCASLDASV IATVKHNLEE LEQVVYKPQK FFRKVESRIS DKFKYIIAQL MRDTESLAKR ICKDLENLSQ IQNREFGTQK YEQWIVTVQK ACMVFQMPDK DEESRICKAL FLYTSHLRKY NDALIISEHA RMKDALDYLK DFFSNVRAAG FDEIEQDLTQ RFEEKLQELE SVSRDPSNEN PKLEDLCFIL QEEYHLNPET ITILFVKTRA LVDALKNWIE GNPKLSFLKP GILTGRGKTN QNTGMTLPAQ KCILDAFKAS GDHNILIATS VADEGIDIAQ CNLVILYEYV GNVIKMIQTR GRGRARGSKC FLLTSNAGVI EKEQINMYKE KMMNDSILRL QTWDEAVFRE KILHIQTHEK FIRDSQEKPK PVPDKENKKL LCRKCKALAC YTADVRVIEE CHYTVLGDAF KECFVSRPHP KPKQFSSFEK RAKIFCARQN CSHDWGIHVK YKTFEIPVIK IESFVVEDIA TGVQTLYSKW KDFHFEKIPF DPAEMSK |
-実験情報
ビーム | 設備名称: Australian Synchrotron SAXS/WAXS / 地域: Melbourne / 国: Australia / 形状: Point / 線源: X-ray synchrotronシンクロトロン / 波長: 0.10332 Å / スペクトロメータ・検出器間距離: 1.6 mm | |||||||||||||||||||||||||||
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検出器 | 名称: Pilatus 1M | |||||||||||||||||||||||||||
スキャン | タイトル: Delta-CARDs RIG-I, 8mer hairpin dsRNA (SEC-peak2) 測定日: 2015年5月29日 / 保管温度: 4 °C / セル温度: 15 °C / 照射時間: 2 sec. / フレーム数: 15 / 単位: 1/A /
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距離分布関数 P(R) | ソフトウェア P(R): GNOM 5.0 / ポイント数: 363 /
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結果 | カーブのタイプ: merged /
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