登録情報 データベース : EMDB / ID : EMD-20035 構造の表示 ダウンロードとリンクタイトル Cryo-EM structure of mouse RAG1/2 NFC complex (DNA2) マップデータmouse RAG1/2 NFC complex 詳細 試料複合体 : RAG1/2 Nick-forming complex (DNA2)タンパク質・ペプチド : V(D)J recombination-activating protein 1タンパク質・ペプチド : V(D)J recombination-activating protein 2DNA : DNA (46-MER)DNA : DNA (46-MER)DNA : DNA (57-MER)DNA : DNA (57-MER)タンパク質・ペプチド : High mobility group protein B1 残り3件を表示 表示を減らすリガンド : ZINC IONリガンド : CALCIUM ION 詳細 キーワード V(D)J recombination / DNA Transposition / RAG / SCID / RECOMBINATION / RECOMBINATION-DNA complex機能・相同性 機能・相同性情報分子機能 ドメイン・相同性 構成要素
non-sequence-specific DNA binding, bending / DNA-binding transcription factor binding => GO:0140297 / regulation of restriction endodeoxyribonuclease activity / heterochromatin formation => GO:0031507 / regulation of tolerance induction / positive regulation of mismatch repair / negative regulation of apoptotic cell clearance / negative regulation of RNA polymerase II transcription preinitiation complex assembly / DNA geometric change / mature B cell differentiation involved in immune response ... non-sequence-specific DNA binding, bending / DNA-binding transcription factor binding => GO:0140297 / regulation of restriction endodeoxyribonuclease activity / heterochromatin formation => GO:0031507 / regulation of tolerance induction / positive regulation of mismatch repair / negative regulation of apoptotic cell clearance / negative regulation of RNA polymerase II transcription preinitiation complex assembly / DNA geometric change / mature B cell differentiation involved in immune response / T-helper 1 cell activation / C-X-C chemokine binding / T-helper 1 cell differentiation / positive regulation of dendritic cell differentiation / DNA recombinase complex / negative regulation of CD4-positive, alpha-beta T cell differentiation / B cell homeostatic proliferation / DN2 thymocyte differentiation / negative regulation of T cell differentiation in thymus / endodeoxyribonuclease complex / neutrophil clearance / double-stranded DNA endonuclease activity / pre-B cell allelic exclusion / positive regulation of interleukin-1 production / positive regulation of organ growth / regulation of behavioral fear response / alphav-beta3 integrin-HMGB1 complex / bubble DNA binding / V(D)J recombination / negative regulation of T cell apoptotic process / phosphatidylinositol-3,4-bisphosphate binding / inflammatory response to antigenic stimulus / negative regulation of thymocyte apoptotic process / positive regulation of chemokine (C-X-C motif) ligand 2 production / positive regulation of monocyte chemotaxis / supercoiled DNA binding / phosphatidylinositol-3,5-bisphosphate binding / positive regulation of T cell differentiation / DNA binding, bending / positive regulation of vascular endothelial cell proliferation / regulation of T cell differentiation / organ growth / T cell lineage commitment / B cell lineage commitment / positive regulation of activated T cell proliferation / phosphatidylserine binding / T cell homeostasis / phosphatidylinositol-3,4,5-trisphosphate binding / positive regulation of cysteine-type endopeptidase activity involved in apoptotic process / positive regulation of interleukin-10 production / negative regulation of blood vessel endothelial cell migration / negative regulation of type II interferon production / endoplasmic reticulum-Golgi intermediate compartment / T cell differentiation / positive regulation of blood vessel endothelial cell migration / positive regulation of DNA binding / protein autoubiquitination / positive regulation of autophagy / DNA polymerase binding / four-way junction DNA binding / condensed chromosome / methylated histone binding / phosphatidylinositol-4,5-bisphosphate binding / positive regulation of interleukin-12 production / activation of innate immune response / transcription repressor complex / phosphatidylinositol binding / B cell differentiation / thymus development / positive regulation of interleukin-8 production / lipopolysaccharide binding / positive regulation of JNK cascade / RING-type E3 ubiquitin transferase / visual learning / autophagy / ubiquitin-protein transferase activity / chemotaxis / positive regulation of interleukin-6 production / positive regulation of tumor necrosis factor production / ubiquitin protein ligase activity / integrin binding / chromatin organization / histone binding / positive regulation of cytosolic calcium ion concentration / T cell differentiation in thymus / endonuclease activity / DNA recombination / adaptive immune response / sequence-specific DNA binding / damaged DNA binding / transcription coactivator activity / 加水分解酵素; エステル加水分解酵素 / positive regulation of ERK1 and ERK2 cascade / transcription cis-regulatory region binding / lyase activity / endosome / defense response to bacterium / positive regulation of apoptotic process / DNA repair / innate immune response 類似検索 - 分子機能 High mobility group protein HMGB1 / HMG box A DNA-binding domain, conserved site / Recombination-activating protein 1 zinc-finger domain / HMG box A DNA-binding domain signature. / V(D)J recombination-activating protein 1, Zinc finger / RAG nonamer-binding domain / NBD domain profile. / Zinc finger RAG1-type profile. / V(D)J recombination-activating protein 1 / RAG1 importin-binding ... High mobility group protein HMGB1 / HMG box A DNA-binding domain, conserved site / Recombination-activating protein 1 zinc-finger domain / HMG box A DNA-binding domain signature. / V(D)J recombination-activating protein 1, Zinc finger / RAG nonamer-binding domain / NBD domain profile. / Zinc finger RAG1-type profile. / V(D)J recombination-activating protein 1 / RAG1 importin-binding / RAG1 importin binding / Recombination-activation protein 1 (RAG1), recombinase / Recombination activating protein 2 / RAG2 PHD domain / V-D-J recombination activating protein 2 / Recombination activating protein 2, PHD domain / Galactose oxidase/kelch, beta-propeller / HMG-box domain / HMG (high mobility group) box / Zinc finger, C3HC4 RING-type / Zinc finger, C3HC4 type (RING finger) / Kelch-type beta propeller / HMG boxes A and B DNA-binding domains profile. / high mobility group / High mobility group box domain / High mobility group box domain superfamily / Zinc finger, RING-type, conserved site / Zinc finger RING-type signature. / Zinc finger C2H2 superfamily / Ring finger / Zinc finger RING-type profile. / Zinc finger, RING-type / Zinc finger, FYVE/PHD-type / Zinc finger, RING/FYVE/PHD-type 類似検索 - ドメイン・相同性 V(D)J recombination-activating protein 1 / V(D)J recombination-activating protein 2 / High mobility group protein B1 類似検索 - 構成要素生物種 Mus musculus (ハツカネズミ) / Equus caballus (ウマ) / Escherichia coli K-12 (大腸菌)手法 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度 : 3.29 Å 詳細 データ登録者Chen X / Cui Y / Zhou ZH / Yang W / Gellert M 資金援助 米国, 1件 詳細 詳細を隠すOrganization Grant number 国 National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK) DK036167 米国
引用ジャーナル : Nat Struct Mol Biol / 年 : 2020タイトル : Cutting antiparallel DNA strands in a single active site.著者 : Xuemin Chen / Yanxiang Cui / Robert B Best / Huaibin Wang / Z Hong Zhou / Wei Yang / Martin Gellert / 要旨 : A single enzyme active site that catalyzes multiple reactions is a well-established biochemical theme, but how one nuclease site cleaves both DNA strands of a double helix has not been well ... A single enzyme active site that catalyzes multiple reactions is a well-established biochemical theme, but how one nuclease site cleaves both DNA strands of a double helix has not been well understood. In analyzing site-specific DNA cleavage by the mammalian RAG1-RAG2 recombinase, which initiates V(D)J recombination, we find that the active site is reconfigured for the two consecutive reactions and the DNA double helix adopts drastically different structures. For initial nicking of the DNA, a locally unwound and unpaired DNA duplex forms a zipper via alternating interstrand base stacking, rather than melting as generally thought. The second strand cleavage and formation of a hairpin-DNA product requires a global scissor-like movement of protein and DNA, delivering the scissile phosphate into the rearranged active site. 履歴 登録 2019年3月27日 - ヘッダ(付随情報) 公開 2019年6月5日 - マップ公開 2020年1月29日 - 更新 2024年3月20日 - 現状 2024年3月20日 処理サイト : RCSB / 状態 : 公開
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