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基本情報
登録情報 | データベース: PDB / ID: 1z1d | ||||||
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タイトル | Structural Model for the interaction between RPA32 C-terminal domain and SV40 T antigen origin binding domain. | ||||||
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![]() | REPLICATION / Winged Helix-turn-Helix motif / Origin binding domain / Protein-Protein Complex | ||||||
機能・相同性 | ![]() protein localization to chromosome / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / DNA replication factor A complex / regulation of DNA damage checkpoint / bidirectional double-stranded viral DNA replication / Removal of the Flap Intermediate / Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta) / Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha) / Removal of the Flap Intermediate from the C-strand / G-rich strand telomeric DNA binding ...protein localization to chromosome / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / DNA replication factor A complex / regulation of DNA damage checkpoint / bidirectional double-stranded viral DNA replication / Removal of the Flap Intermediate / Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta) / Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha) / Removal of the Flap Intermediate from the C-strand / G-rich strand telomeric DNA binding / viral DNA genome replication / DNA 3'-5' helicase / HDR through Single Strand Annealing (SSA) / Impaired BRCA2 binding to RAD51 / regulation of double-strand break repair via homologous recombination / telomeric DNA binding / DNA unwinding involved in DNA replication / symbiont-mediated perturbation of host cell cycle G1/S transition checkpoint / DNA replication origin binding / Presynaptic phase of homologous DNA pairing and strand exchange / Activation of the pre-replicative complex / Regulation of HSF1-mediated heat shock response / PCNA-Dependent Long Patch Base Excision Repair / HSF1 activation / mismatch repair / Activation of ATR in response to replication stress / mitotic G1 DNA damage checkpoint signaling / telomere maintenance / Translesion synthesis by REV1 / Translesion synthesis by POLK / Translesion synthesis by POLI / Gap-filling DNA repair synthesis and ligation in GG-NER / helicase activity / nucleotide-excision repair / Fanconi Anemia Pathway / Recognition of DNA damage by PCNA-containing replication complex / Termination of translesion DNA synthesis / Translesion Synthesis by POLH / double-strand break repair via homologous recombination / base-excision repair / G2/M DNA damage checkpoint / HDR through Homologous Recombination (HRR) / PML body / Dual Incision in GG-NER / Meiotic recombination / Formation of Incision Complex in GG-NER / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / single-stranded DNA binding / Processing of DNA double-strand break ends / double-stranded DNA binding / symbiont-mediated perturbation of host ubiquitin-like protein modification / protein phosphatase binding / DNA replication / Regulation of TP53 Activity through Phosphorylation / damaged DNA binding / chromosome, telomeric region / nuclear body / symbiont-mediated suppression of host innate immune response / hydrolase activity / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / virus-mediated perturbation of host defense response / ubiquitin protein ligase binding / host cell nucleus / chromatin / enzyme binding / nucleoplasm / ATP binding / identical protein binding / nucleus / metal ion binding 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | 溶液NMR / Rigid body docking, Semi-flexible simulated annealing, Refinement using explicit water | ||||||
![]() | Arunkumar, A.I. / Klimovich, V. / Jiang, X. / Ott, R.D. / Mizoue, L. / Fanning, E. / Chazin, W.J. | ||||||
![]() | ![]() タイトル: Insights into hRPA32 C-terminal domain--mediated assembly of the simian virus 40 replisome. 著者: Arunkumar, A.I. / Klimovich, V. / Jiang, X. / Ott, R.D. / Mizoue, L. / Fanning, E. / Chazin, W.J. #1: ![]() タイトル: Structural basis for the recognition of DNA repair proteins UNG2, XPA, and RAD52 by replication factor A 著者: Mer, G. / Bochkarev, A. / Gupta, R. / Bochkareva, E. / Frappier, L. / Ingles, C.M. / Edwards, A.M. / Chazin, W.J. #2: ![]() タイトル: Solution structure of the origin DNA binding domain of SV40 T antigen 著者: Luo, X. / Sanford, D.G. / Bullock, P.A. / Bachovchin, W.W. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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ダウンロードとリンク
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ダウンロード
PDBx/mmCIF形式 | ![]() | 1.3 MB | 表示 | ![]() |
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PDB形式 | ![]() | 1.1 MB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
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アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
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-関連構造データ
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その他のデータベース |
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リンク
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集合体
登録構造単位 | ![]()
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NMR アンサンブル |
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要素
#1: タンパク質 | 分子量: 10999.127 Da / 分子数: 1 / 断片: RPA32 C-terminal domain / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() |
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#2: タンパク質 | 分子量: 15111.362 Da / 分子数: 1 / 断片: SV40 T antigen Origin binding domain / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() |
-実験情報
-実験
実験 | 手法: 溶液NMR | ||||||||||||
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NMR実験 |
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NMR実験の詳細 | Text: This model structure was obtained using ambigous chemical shift pertubation constraints and validated using residual dipolar couplings and point mutations on the interface |
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試料調製
詳細 |
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試料状態 | イオン強度: 0.03 M / pH: 7 / 圧: ambient / 温度: 298 K |
-NMR測定
放射 | プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M |
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放射波長 | 相対比: 1 |
NMRスペクトロメーター | タイプ: Bruker AVANCE / 製造業者: Bruker / モデル: AVANCE / 磁場強度: 600 MHz |
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解析
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精密化 | 手法: Rigid body docking, Semi-flexible simulated annealing, Refinement using explicit water ソフトェア番号: 1 詳細: 1500 conformers were obtained in the rigid body docking and 200 best conformers were selected for semi-flexible simulated annealing followed by refinement. | ||||||||||||||||||||
代表構造 | 選択基準: lowest energy | ||||||||||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: structures with acceptable covalent geometry,structures with favorable non-bond energy 計算したコンフォーマーの数: 200 / 登録したコンフォーマーの数: 20 |