+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1eaj | ||||||
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タイトル | DIMERIC STRUCTURE OF THE COXSACKIE VIRUS AND ADENOVIRUS RECEPTOR D1 DOMAIN AT 1.35 ANGSTROM RESOLUTION | ||||||
要素 | COXSACKIE VIRUS AND ADENOVIRUS RECEPTOR | ||||||
キーワード | VIRUS/VIRAL PROTEIN RECEPTOR / IMMUNOGLOBULIN V DOMAIN FOLD / SYMMETRIC DIMER / VIRUS-VIRAL PROTEIN RECEPTOR complex | ||||||
機能・相同性 | 機能・相同性情報 AV node cell-bundle of His cell adhesion involved in cell communication / cell adhesive protein binding involved in AV node cell-bundle of His cell communication / homotypic cell-cell adhesion / AV node cell to bundle of His cell communication / epithelial structure maintenance / gamma-delta T cell activation / regulation of AV node cell action potential / germ cell migration / apicolateral plasma membrane / cell-cell junction organization ...AV node cell-bundle of His cell adhesion involved in cell communication / cell adhesive protein binding involved in AV node cell-bundle of His cell communication / homotypic cell-cell adhesion / AV node cell to bundle of His cell communication / epithelial structure maintenance / gamma-delta T cell activation / regulation of AV node cell action potential / germ cell migration / apicolateral plasma membrane / cell-cell junction organization / transepithelial transport / connexin binding / cardiac muscle cell development / heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules / bicellular tight junction / 介在板 / mitochondrion organization / cell adhesion molecule binding / 好中球 / acrosomal vesicle / filopodium / PDZ domain binding / Cell surface interactions at the vascular wall / 接着結合 / neuromuscular junction / beta-catenin binding / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / cell-cell junction / integrin binding / virus receptor activity / 細胞結合 / cell body / heart development / 成長円錐 / actin cytoskeleton organization / basolateral plasma membrane / defense response to virus / neuron projection / 脂質ラフト / signaling receptor binding / protein-containing complex / extracellular space / extracellular region / 核質 / identical protein binding / 細胞膜 / 細胞質 類似検索 - 分子機能 | ||||||
生物種 | HOMO SAPIENS (ヒト) | ||||||
手法 | X線回折 / シンクロトロン / 分子置換 / 解像度: 1.35 Å | ||||||
データ登録者 | van Raaij, M.J. / Cusack, S. | ||||||
引用 | ジャーナル: Structure / 年: 2000 タイトル: Dimeric structure of the coxsackievirus and adenovirus receptor D1 domain at 1.7 A resolution. 著者: van Raaij, M.J. / Chouin, E. / van der Zandt, H. / Bergelson, J.M. / Cusack, S. | ||||||
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 | 1eaj.cif.gz | 123.9 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1eaj.ent.gz | 96.8 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1eaj.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/ea/1eaj ftp://data.pdbj.org/pub/pdb/validation_reports/ea/1eaj | 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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単位格子 |
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非結晶学的対称性 (NCS) | NCS oper: (Code: given Matrix: (0.70567, -0.70834, 0.01682), ベクター: 詳細 | ANALYTICAL ULTRACENTIFUGATION EXPERIMENTS PROVETHE EXISTENCE OF A DIMER ALSO IN SOLUTION, WITH ADISSOCIATION CONSTANT IN THE MICROMOLAR RANGE.SEE JRNL REFERENCE | |
-要素
#1: タンパク質 | 分子量: 14048.972 Da / 分子数: 2 / 断片: D1 DOMAIN RESIDUES 15-140 / 由来タイプ: 組換発現 詳細: DISULFIDE BOND BETWEEN A41 AND A120 AND BETWEEN B41 AND B120 由来: (組換発現) HOMO SAPIENS (ヒト) / 解説: HELA CELL CDNA LIBRARY / プラスミド: PAB3 / 発現宿主: ESCHERICHIA COLI (大腸菌) / 株 (発現宿主): XL1BLUE / 参照: UniProt: P78310 #2: 化合物 | #3: 水 | ChemComp-HOH / | 構成要素の詳細 | RECEPTOR FOR GROUP B COXSACKIEV | |
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-実験情報
-実験
実験 | 手法: X線回折 / 使用した結晶の数: 1 |
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-試料調製
結晶 | マシュー密度: 3.1 Å3/Da / 溶媒含有率: 59.5 % |
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結晶化 | pH: 5.6 詳細: AMMONIUM SULPHATE, SODIUM CITRATE, GLYCEROL, pH 5.60 |
結晶化 | *PLUS 手法: unknown |
-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: シンクロトロン / サイト: ESRF / ビームライン: ID14-2 / 波長: 0.933 |
検出器 | タイプ: ADSC 2X2 / 検出器: CCD / 日付: 2000年6月1日 |
放射 | プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
放射波長 | 波長: 0.933 Å / 相対比: 1 |
反射 | 解像度: 1.35→20 Å / Num. obs: 73582 / % possible obs: 95.1 % / 冗長度: 4 % / Rmerge(I) obs: 0.063 / Net I/σ(I): 5.9 |
反射 シェル | 解像度: 1.35→1.42 Å / 冗長度: 1.7 % / Rmerge(I) obs: 0.267 / Mean I/σ(I) obs: 2.1 / % possible all: 68.7 |
-解析
ソフトウェア |
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精密化 | 構造決定の手法: 分子置換 開始モデル: 1KAC, CHAIN B 解像度: 1.35→19 Å / SU B: 1.73 / SU ML: 0.037 / 交差検証法: THROUGHOUT / ESU R Free: 0.036 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REFLECTIONS FOR RFREE WERE SELECTED IN THIN SHELLS OF RESOLUTIO, INDEPENDENTLY FROM REFLECTIONS SELECTED FOR RFREE USED IN THE 1.7 ANGSTROM ...詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REFLECTIONS FOR RFREE WERE SELECTED IN THIN SHELLS OF RESOLUTIO, INDEPENDENTLY FROM REFLECTIONS SELECTED FOR RFREE USED IN THE 1.7 ANGSTROM STRUCTURE. TO ELIMINATE POSSIBLE BIAS FROM THE 1.7 ANGSTROM STRUCTURE, STRUCTURE SOLUTION WAS COMPLETELY REDONE, PLACING TWO COPIES OF CHAIN B FROM PDB-ENTRY 1KAC WITH THE PROGRAM AMORE
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精密化ステップ | サイクル: LAST / 解像度: 1.35→19 Å
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