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基本情報
登録情報 | データベース: PDB / ID: 2ka3 | ||||||
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タイトル | Structure of EMILIN-1 C1Q-like domain | ||||||
![]() | EMILIN-1 | ||||||
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機能・相同性 | ![]() EMILIN complex / negative regulation of collagen fibril organization / negative regulation of macrophage migration / extracellular matrix constituent conferring elasticity / negative regulation of cell activation / integrin alpha4-beta1 complex / integrin binding involved in cell-matrix adhesion / ![]() ![]() ![]() ![]() ![]() ![]() 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
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![]() | Verdone, G. / Corazza, A. / Colebrooke, S.A. / Cicero, D.O. / Eliseo, T. / Boyd, J. / Doliana, R. / Fogolari, F. / Viglino, P. / Colombatti, A. ...Verdone, G. / Corazza, A. / Colebrooke, S.A. / Cicero, D.O. / Eliseo, T. / Boyd, J. / Doliana, R. / Fogolari, F. / Viglino, P. / Colombatti, A. / Campbell, I.D. / Esposito, G. | ||||||
![]() | ![]() タイトル: NMR-based homology model for the solution structure of the C-terminal globular domain of EMILIN1 著者: Verdone, G. / Corazza, A. / Colebrooke, S.A. / Cicero, D. / Eliseo, T. / Boyd, J. / Doliana, R. / Fogolari, F. / Viglino, P. / Colombatti, A. / Campbell, I.D. / Esposito, G. #1: ジャーナル: J.Biol.Chem. / 年: 2008 タイトル: The solution structure of EMILIN1 globular C1q domain reveals a disordered insertion necessary for interaction with the alpha4beta1 integrin 著者: Verdone, G. / Doliana, R. / Corazza, A. / Colebrooke, S.A. / Spessotto, P. / Bot, S. / Bucciotti, F. / Capuano, A. / Silvestri, A. / Viglino, P. / Campbell, I.D. / Colombatti, A. / Esposito, G. #2: ジャーナル: J.Biomol.Nmr / 年: 2004 タイトル: Sequence-specific backbone NMR assignments for the C-terminal globular domain of EMILIN-1 著者: Verdone, G. / Colebrooke, S.A. / Boyd, J. / Viglino, P. / Corazza, A. / Doliana, R. / Mungiguerra, G. / Colombatti, A. / Esposito, G. / Campbell, I.D. #3: ジャーナル: J.Biol.Chem. / 年: 2000 タイトル: Self-assembly and supramolecular organization of EMILIN 著者: Mongiat, M. / Mungiguerra, G. / Bot, S. / Mucignat, M.T. / Giacomello, E. / Doliana, R. / Colombatti, A. | ||||||
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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PDBx/mmCIF形式 | ![]() | 1.1 MB | 表示 | ![]() |
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PDB形式 | ![]() | 953.4 KB | 表示 | ![]() |
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その他 | ![]() |
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-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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NMR アンサンブル |
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要素
#1: タンパク質 | 分子量: 17227.217 Da / 分子数: 3 断片: C-Terminal domain, C1q domain, UNP residues 867-1016 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() ![]() ![]() |
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-実験情報
-実験
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NMR実験 |
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試料調製
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試料状態 | イオン強度: 0.15 / pH: 7.5 / 圧: ambient / 温度: 310 K |
-NMR測定
NMRスペクトロメーター |
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解析
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精密化 | 手法: ![]() 詳細: The structure was obtained as the refinement of the homology model of emilin trimer C1q-domain based on the chain A of ACRP-30 crystal structure. The quaternary structure of C1q-domain ...詳細: The structure was obtained as the refinement of the homology model of emilin trimer C1q-domain based on the chain A of ACRP-30 crystal structure. The quaternary structure of C1q-domain homology model was built with a three-fold simmetry axis. The region between Tyr927 and Gly945 was not modelled and was not included in the refinement. Dihedral angles (obtained with TALOS), RDC values, NOE constraints were used in the refinement procedure. The structures were further refined in order to improve the quality of backbone geometry. For this purpose 2,000 steps of restrained energy minimization were performed using the program NAMD (Kale et al. 1999). The forcefield used is CHARMM v.27b (MacKerell et al. 1998) with the CMAP correction (MacKerell et al., 2004). Since the program does not readily incorporate RDC derived restraints, the z co-ordinates of the backbone amide N and H atoms were restrained at their starting values. Only NOE derived restraints and chemical-shift-derived dihedral angle restraints (with unequivocal secondary structure definition) were imposed. | ||||||||||||||||||||||||||||
代表構造 | 選択基準: closest to the average | ||||||||||||||||||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: structures with the lowest energy 計算したコンフォーマーの数: 100 / 登録したコンフォーマーの数: 10 / 代表コンフォーマー: 1 |