+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1esl | ||||||
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タイトル | INSIGHT INTO E-SELECTIN(SLASH)LIGAND INTERACTION FROM THE CRYSTAL STRUCTURE AND MUTAGENESIS OF THE LEC(SLASH)EGF DOMAINS | ||||||
要素 | HUMAN E-SELECTINE-セレクチン | ||||||
キーワード | CELL ADHESION PROTEIN (細胞接着分子) | ||||||
機能・相同性 | 機能・相同性情報 actin filament-based process / positive regulation of leukocyte tethering or rolling / sialic acid binding / oligosaccharide binding / leukocyte migration involved in inflammatory response / leukocyte tethering or rolling / positive regulation of leukocyte migration / heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules / leukocyte cell-cell adhesion / cortical cytoskeleton ...actin filament-based process / positive regulation of leukocyte tethering or rolling / sialic acid binding / oligosaccharide binding / leukocyte migration involved in inflammatory response / leukocyte tethering or rolling / positive regulation of leukocyte migration / heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules / leukocyte cell-cell adhesion / cortical cytoskeleton / phospholipase binding / positive regulation of receptor internalization / : / response to tumor necrosis factor / クラスリン / response to interleukin-1 / response to cytokine / カベオラ / calcium-mediated signaling / Cell surface interactions at the vascular wall / transmembrane signaling receptor activity / regulation of inflammatory response / response to lipopolysaccharide / 炎症 / 脂質ラフト / external side of plasma membrane / perinuclear region of cytoplasm / extracellular space / metal ion binding / 細胞膜 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | X線回折 / 解像度: 2 Å | ||||||
データ登録者 | Graves, B.J. / Crowther, R.L. | ||||||
引用 | ジャーナル: Nature / 年: 1994 タイトル: Insight into E-selectin/ligand interaction from the crystal structure and mutagenesis of the lec/EGF domains. 著者: Graves, B.J. / Crowther, R.L. / Chandran, C. / Rumberger, J.M. / Li, S. / Huang, K.S. / Presky, D.H. / Familletti, P.C. / Wolitzky, B.A. / Burns, D.K. #1: ジャーナル: J.Biol.Chem. / 年: 1994 タイトル: Consensus Repeat Domains of E-Selectin Enhance Ligand Binding 著者: Li, S.H. / Burns, D.K. / Rumberger, J.M. / Presky, D.H. / Wilkinson, V.L. / Anostario Junior, M. / Wolitzky, B.A. / Norton, C.R. / Familletti, P.C. / Kim, K.J. / Goldstein, A.L. / Cox, D.C. / Huang, K.-S. | ||||||
履歴 |
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Remark 650 | HELIX THERE ARE THREE ALPHA-HELICAL TWISTS IN THE STRUCTURE - SEQUENCES IN WHICH THREE CONSECUTIVE ...HELIX THERE ARE THREE ALPHA-HELICAL TWISTS IN THE STRUCTURE - SEQUENCES IN WHICH THREE CONSECUTIVE RESIDUES HAVE HELICAL MAIN CHAIN TORSION ANGLES. TWO OF THESE (VAL 63 - THR 65 AND GLU 71 - ALA 73) ARE RIGHT-HANDED AND HAVE A HYDROGEN BOND FROM THE CARBONYL OF THE RESIDUE PRIOR TO THE TRIAD TO THE AMIDE NITROGEN OF THE RESIDUE JUST AFTER THE TRIPLET. THE OTHER SEQUENCE (CYS 127 - GLY 129) IS LEFT-HANDED WITH TWO HYDROGEN BONDS FROM O SER 126 TO N GLY 129 AND FROM O CYS 127 TO N HIS 130. |
-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 | 1esl.cif.gz | 45.3 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1esl.ent.gz | 34 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1esl.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/es/1esl ftp://data.pdbj.org/pub/pdb/validation_reports/es/1esl | 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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Atom site foot note | 1: THERE IS NO DENSITY FOR THE SIDE CHAIN OF RESIDUE GLU 8 BEYOND CB. 2: RESIDUE ASN 58 HAS A GENERALLY WEAK DENSITY BEYOND CB WITH ND2 TOTALLY OUT OF THE DENSITY. 3: ATOM NZ OF RESIDUE LYS 67 IS JUST OUT OF THE SIDE CHAIN DENSITY. 4: THE FOLLOWING ATOMS OF RESIDUE GLU 72 ARE OUT OF DENSITY: CD, OE1 AND OE2. 5: CIS PROLINE - PRO 81 6: THERE IS NO DENSITY FOR THE SIDE CHAIN OF RESIDUE ARG 84 BEYOND CB. 7: THERE IS WEAK DENSITY FOR THE SIDE CHAIN OF RESIDUE GLN 85 BEYOND CB. 8: THERE IS WEAK OR NO DENSITY FOR THE SIDE CHAIN OF RESIDUE GLU 98 BEYOND CB. 9: NO DENSITY FOUND FOR ATOM CD OF RESIDUE LYS 99. 10: RESIDUE ARG 108 HAS A BREAK IN THE DENSITY AT THE CG-CD BOND. 11: NO DENSITY FOUND FOR ATOM NZ OF RESIDUE LYS 112. 12: THE FOLLOWING ATOMS OF RESIDUE ASN 124 ARE OUT OF DENSITY: CG, OD1 AND OD2. 13: NO DENSITY FOUND FOR ATOM CG2 OF RESIDUE THR 125. 14: THERE IS WEAK DENSITY FOR THE SIDE CHAIN OF RESIDUE GLU 132 BEYOND CG. 15: THERE IS WEAK DENSITY FOR THE SIDE CHAIN OF RESIDUE LYS 143 BEYOND CG. 16: THERE IS WEAK DENSITY FOR THE C-TERMINAL CARBOXYLATE, RESIDUE VAL 157. |
-要素
#1: タンパク質 | 分子量: 18605.820 Da / 分子数: 1 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 細胞株: CHO / 参照: UniProt: P16581 | ||||||
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#2: 化合物 | #3: 化合物 | #4: 水 | ChemComp-HOH / | 非ポリマーの詳細 | THREE WATER MOLECULES (HOH 260, HOH 266 AND HOH 318) HAVE TEMPERATURE FACTORS ABOVE 60 A**2 BUT ALL ...THREE WATER MOLECULES (HOH 260, HOH 266 AND HOH 318) HAVE TEMPERATUR | |
-実験情報
-実験
実験 | 手法: X線回折 |
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-試料調製
結晶 | マシュー密度: 2.64 Å3/Da / 溶媒含有率: 53.32 % |
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結晶化 | *PLUS 手法: unknown |
-データ収集
放射 | 散乱光タイプ: x-ray |
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放射波長 | 相対比: 1 |
反射 | *PLUS 最高解像度: 2 Å / Rmerge(I) obs: 0.098 |
-解析
ソフトウェア |
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精密化 | 解像度: 2→10 Å / σ(F): 3
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精密化ステップ | サイクル: LAST / 解像度: 2→10 Å
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拘束条件 |
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ソフトウェア | *PLUS 名称: X-PLOR / 分類: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化 | *PLUS Rfactor all: 0.173 / Rfactor obs: 0.164 / Rfactor Rfree: 0.249 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS タイプ: x_angle_d / Dev ideal: 2.6 |