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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 1awu | ||||||
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タイトル | CYPA COMPLEXED WITH HVGPIA (PSEUDO-SYMMETRIC MONOMER) | ||||||
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![]() | COMPLEX (ISOMERASE/PEPTIDE) / COMPLEX (ISOMERASE-PEPTIDE) / CYCLOPHILIN A / HIV-1 CAPSID / PSEUDO-SYMMETRY / COMPLEX (ISOMERASE-PEPTIDE) complex | ||||||
機能・相同性 | ![]() negative regulation of protein K48-linked ubiquitination / negative regulation of viral life cycle / regulation of apoptotic signaling pathway / cell adhesion molecule production / lipid droplet organization / heparan sulfate binding / regulation of viral genome replication / leukocyte chemotaxis / endothelial cell activation / virion binding ...negative regulation of protein K48-linked ubiquitination / negative regulation of viral life cycle / regulation of apoptotic signaling pathway / cell adhesion molecule production / lipid droplet organization / heparan sulfate binding / regulation of viral genome replication / leukocyte chemotaxis / endothelial cell activation / virion binding / Basigin interactions / negative regulation of stress-activated MAPK cascade / cyclosporin A binding / Minus-strand DNA synthesis / Plus-strand DNA synthesis / Uncoating of the HIV Virion / Early Phase of HIV Life Cycle / Integration of provirus / APOBEC3G mediated resistance to HIV-1 infection / Calcineurin activates NFAT / viral release from host cell / Binding and entry of HIV virion / positive regulation of viral genome replication / protein peptidyl-prolyl isomerization / negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / positive regulation of protein dephosphorylation / Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation / activation of protein kinase B activity / neutrophil chemotaxis / negative regulation of protein phosphorylation / peptidylprolyl isomerase / peptidyl-prolyl cis-trans isomerase activity / positive regulation of protein secretion / Assembly Of The HIV Virion / negative regulation of protein kinase activity / Budding and maturation of HIV virion / neuron differentiation / platelet activation / platelet aggregation / SARS-CoV-1 activates/modulates innate immune responses / unfolded protein binding / integrin binding / protein folding / Platelet degranulation / positive regulation of NF-kappaB transcription factor activity / cellular response to oxidative stress / secretory granule lumen / vesicle / ficolin-1-rich granule lumen / positive regulation of MAPK cascade / response to hypoxia / positive regulation of protein phosphorylation / focal adhesion / apoptotic process / Neutrophil degranulation / protein-containing complex / RNA binding / extracellular space / extracellular exosome / extracellular region / membrane / nucleus / cytoplasm / cytosol 類似検索 - 分子機能 | ||||||
生物種 | ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Vajdos, F.F. | ||||||
![]() | ![]() タイトル: Crystal structure of cyclophilin A complexed with a binding site peptide from the HIV-1 capsid protein. 著者: Vajdos, F.F. / Yoo, S. / Houseweart, M. / Sundquist, W.I. / Hill, C.P. | ||||||
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 | ![]() | 45.4 KB | 表示 | ![]() |
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PDB形式 | ![]() | 31.9 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 429.7 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 431.9 KB | 表示 | |
XML形式データ | ![]() | 8.6 KB | 表示 | |
CIF形式データ | ![]() | 10.6 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
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集合体
登録構造単位 | ![]()
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単位格子 |
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要素
#1: タンパク質 | 分子量: 17905.307 Da / 分子数: 1 / 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・ペプチド | 分子量: 593.695 Da / 分子数: 1 / 由来タイプ: 組換発現 |
#3: 水 | ChemComp-HOH / |
-実験情報
-実験
実験 | 手法: ![]() |
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試料調製
結晶 | マシュー密度: 2.35 Å3/Da / 溶媒含有率: 47.7 % | ||||||||||||||||||||
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結晶化 | pH: 8.4 / 詳細: pH 8.4 | ||||||||||||||||||||
結晶化 | *PLUS 温度: 21 ℃ / 手法: unknown | ||||||||||||||||||||
溶液の組成 | *PLUS
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-データ収集
回折 | 平均測定温度: 100 K |
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放射光源 | 由来: ![]() ![]() ![]() |
検出器 | タイプ: MARRESEARCH / 検出器: IMAGE PLATE / 日付: 1996年2月1日 |
放射 | 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
放射波長 | 波長: 1.08 Å / 相対比: 1 |
反射 | 解像度: 2.34→15 Å / Num. obs: 7251 / % possible obs: 97.9 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 21.6 Å2 / Rsym value: 0.047 / Net I/σ(I): 17.6 |
反射 シェル | 解像度: 2.34→2.38 Å / Rsym value: 0.114 / % possible all: 78.6 |
反射 | *PLUS Num. measured all: 48608 / Rmerge(I) obs: 0.047 |
反射 シェル | *PLUS % possible obs: 78.6 % / Rmerge(I) obs: 0.114 |
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解析
ソフトウェア |
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精密化 | 構造決定の手法: ![]() 開始モデル: PDB ENTRY 2CYH 解像度: 2.34→15 Å / Rfactor Rfree error: 0.018 / Data cutoff high absF: 10000000 / Data cutoff low absF: 0.001 / Isotropic thermal model: RESTRAINED / 交差検証法: THROUGHOUT / σ(F): 0 詳細: BULK SOLVENT MODEL USED A LARGE NUMBER OF ATOMS WERE SET TO ZERO OCCUPANCY FOR REFINEMENT PURPOSES SINCE THEY WERE NOT WELL-DEFINED BY THE ELECTRON DENSITY. REGARDING THE HIGH R-VALUE: THIS ...詳細: BULK SOLVENT MODEL USED A LARGE NUMBER OF ATOMS WERE SET TO ZERO OCCUPANCY FOR REFINEMENT PURPOSES SINCE THEY WERE NOT WELL-DEFINED BY THE ELECTRON DENSITY. REGARDING THE HIGH R-VALUE: THIS IS THE STRUCTURE OF THE COMPLEX REFINED IN A PSEUDO-SPACE GROUP. THE DETAILS ARE ADDRESSED EXTENSIVELY IN THE PAPER. TO SUMMARIZE HERE, THE HIGH R-VALUE FOR THIS STRUCTURE STEMS FROM THE BREAKDOWN IN PSEUDO-SYMMETRY AT HIGH RESOLUTION.
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原子変位パラメータ | Biso mean: 27.6 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 2.34→15 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 2.34→2.49 Å / Rfactor Rfree error: 0.061 / Total num. of bins used: 6
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Xplor file |
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ソフトウェア | *PLUS 名称: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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