+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 2gmc | ||||||
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タイトル | Structure of C12-LF11 bound to the DPC micelles | ||||||
要素 | LACTOFERRIN-BASED SYNTHETIC PEPTIDE C12-LF11 | ||||||
キーワード | ANTIMICROBIAL PROTEIN (抗微生物ペプチド) / helix (螺旋) | ||||||
機能・相同性 | 機能・相同性情報 negative regulation by host of viral process / membrane destabilizing activity / Mtb iron assimilation by chelation / phagocytic vesicle lumen / positive regulation of toll-like receptor 4 signaling pathway / Metal sequestration by antimicrobial proteins / negative regulation of viral process / negative regulation of cysteine-type endopeptidase activity / negative regulation of tumor necrosis factor (ligand) superfamily member 11 production / negative regulation of single-species biofilm formation in or on host organism ...negative regulation by host of viral process / membrane destabilizing activity / Mtb iron assimilation by chelation / phagocytic vesicle lumen / positive regulation of toll-like receptor 4 signaling pathway / Metal sequestration by antimicrobial proteins / negative regulation of viral process / negative regulation of cysteine-type endopeptidase activity / negative regulation of tumor necrosis factor (ligand) superfamily member 11 production / negative regulation of single-species biofilm formation in or on host organism / positive regulation of bone mineralization involved in bone maturation / negative regulation of lipopolysaccharide-mediated signaling pathway / specific granule / negative regulation of osteoclast development / antifungal humoral response / positive regulation of chondrocyte proliferation / negative regulation of ATP-dependent activity / regulation of tumor necrosis factor production / bone morphogenesis / 抗微生物ペプチド / cysteine-type endopeptidase inhibitor activity / negative regulation of viral genome replication / positive regulation of osteoblast proliferation / 液性免疫 / 加水分解酵素; プロテアーゼ; ペプチド結合加水分解酵素; セリンエンドペプチターゼ / positive regulation of osteoblast differentiation / regulation of cytokine production / protein serine/threonine kinase activator activity / 骨化 / innate immune response in mucosa / 分泌 / lipopolysaccharide binding / positive regulation of protein serine/threonine kinase activity / recycling endosome / specific granule lumen / antimicrobial humoral immune response mediated by antimicrobial peptide / tertiary granule lumen / heparin binding / positive regulation of NF-kappaB transcription factor activity / iron ion transport / antibacterial humoral response / positive regulation of canonical NF-kappaB signal transduction / killing of cells of another organism / defense response to Gram-negative bacterium / エンドソーム / iron ion binding / Amyloid fiber formation / serine-type endopeptidase activity / Neutrophil degranulation / negative regulation of apoptotic process / 細胞膜 / protein-containing complex / タンパク質分解 / DNA binding / extracellular space / extracellular exosome / extracellular region / 細胞核 / 細胞膜 / 細胞質 類似検索 - 分子機能 | ||||||
生物種 | synthetic construct (人工物) | ||||||
手法 | 溶液NMR / torsion angle dynamics | ||||||
データ登録者 | Japelj, B. | ||||||
引用 | ジャーナル: J.Am.Chem.Soc. / 年: 2007 タイトル: The Acyl Group as the Central Element of the Structural Organization of Antimicrobial Lipopeptide. 著者: Japelj, B. / Zorko, M. / Majerle, A. / Pristovsek, P. / Sanchez-Gomez, S. / Tejada, G.M. / Moriyon, I. / Blondelle, S.E. / Brandenburg, K. / Andra, J. / Lohner, K. / Jerala, R. | ||||||
履歴 |
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-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 2gmc.cif.gz | 89.8 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb2gmc.ent.gz | 72.4 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 2gmc.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/gm/2gmc ftp://data.pdbj.org/pub/pdb/validation_reports/gm/2gmc | HTTPS FTP |
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-関連構造データ
-リンク
-集合体
登録構造単位 |
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1 |
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NMR アンサンブル |
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-要素
#1: タンパク質・ペプチド | 分子量: 1532.817 Da / 分子数: 1 / 由来タイプ: 合成 / 由来: (合成) synthetic construct (人工物) |
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#2: 化合物 | ChemComp-DAO / |
-実験情報
-実験
実験 | 手法: 溶液NMR | ||||||||||||
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NMR実験 |
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-試料調製
詳細 | 内容: 2.5 mM C12-LF11, 241.5 mM d38-DPC (dodecylphosphocholine), 20 mM phosphate buffer Na, 7% D20, 93 %H20 溶媒系: 7% D20, 93 %H20 |
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試料状態 | イオン強度: 0.262 / pH: 5.4 / 圧: ambient / 温度: 303 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: Varian UNITY / 製造業者: Varian / モデル: UNITY / 磁場強度: 600 MHz |
-解析
NMR software |
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精密化 | 手法: torsion angle dynamics / ソフトェア番号: 1 | ||||||||||||||||
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: all calculated structures submitted 計算したコンフォーマーの数: 20 / 登録したコンフォーマーの数: 20 |