+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1khm | ||||||
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タイトル | C-TERMINAL KH DOMAIN OF HNRNP K (KH3) | ||||||
要素 | PROTEIN (HNRNP K) | ||||||
キーワード | RNA BINDING PROTEIN / HNRNP K / KH DOMAIN / THREE-DIMENSIONAL STRUCTURE / C-MYC / DIPOLAR COUPLING / DNA-BINDING / RNA-BINDING | ||||||
機能・相同性 | 機能・相同性情報 regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / regulation of low-density lipoprotein particle clearance / regulation of mRNA splicing, via spliceosome / SUMOylation of RNA binding proteins / podosome / positive regulation of low-density lipoprotein receptor activity / negative regulation of mRNA splicing, via spliceosome / Processing of Capped Intron-Containing Pre-mRNA / RNA processing / catalytic step 2 spliceosome ...regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / regulation of low-density lipoprotein particle clearance / regulation of mRNA splicing, via spliceosome / SUMOylation of RNA binding proteins / podosome / positive regulation of low-density lipoprotein receptor activity / negative regulation of mRNA splicing, via spliceosome / Processing of Capped Intron-Containing Pre-mRNA / RNA processing / catalytic step 2 spliceosome / mRNA Splicing - Major Pathway / HCMV Late Events / cell projection / positive regulation of receptor-mediated endocytosis / mRNA splicing, via spliceosome / cytoplasmic stress granule / ribonucleoprotein complex / cadherin binding / protein domain specific binding / focal adhesion / negative regulation of DNA-templated transcription / mRNA binding / chromatin / regulation of transcription by RNA polymerase II / negative regulation of apoptotic process / signal transduction / positive regulation of transcription by RNA polymerase II / DNA binding / RNA binding / extracellular exosome / nucleoplasm / identical protein binding / membrane / nucleus / cytoplasm 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | 溶液NMR / DISTANCE GEOMETRY, SIMULATED ANNEALING | ||||||
データ登録者 | Baber, J. / Libutti, D. / Levens, D. / Tjandra, N. | ||||||
引用 | ジャーナル: J.Mol.Biol. / 年: 1999 タイトル: High precision solution structure of the C-terminal KH domain of heterogeneous nuclear ribonucleoprotein K, a c-myc transcription factor. 著者: Baber, J.L. / Libutti, D. / Levens, D. / Tjandra, N. | ||||||
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 | 1khm.cif.gz | 532.8 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1khm.ent.gz | 446.9 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1khm.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/kh/1khm ftp://data.pdbj.org/pub/pdb/validation_reports/kh/1khm | 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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NMR アンサンブル |
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-要素
#1: タンパク質 | 分子量: 9698.854 Da / 分子数: 1 断片: C-TERMINAL KH DOMAIN, RESIDUES 379-463 OF FULL LENGTH HNRNP K 変異: G26R / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / プラスミド: PGEX-4T-3 / 生物種 (発現宿主): Escherichia coli / 発現宿主: Escherichia coli BL21(DE3) (大腸菌) / 株 (発現宿主): BL21(DE3) / 参照: UniProt: P61978 |
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-実験情報
-実験
実験 | 手法: 溶液NMR |
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-試料調製
試料状態 | イオン強度: 5 mM / pH: 5.5 / 圧: 1 atm / 温度: 300 K |
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結晶化 | *PLUS 手法: other / 詳細: nmr |
-NMR測定
NMRスペクトロメーター | タイプ: Bruker AMX600 / 製造業者: Bruker / モデル: AMX600 / 磁場強度: 600 MHz |
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-解析
NMR software |
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精密化 | 手法: DISTANCE GEOMETRY, SIMULATED ANNEALING / ソフトェア番号: 1 詳細: THE STRUCTURES WERE CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) FEBS LETT. 229, 129-136, USING THE PROGRAM XPLOR 3.1 ( BRUNGER) MODIFIED TO INCORPORATE DIPOLAR ...詳細: THE STRUCTURES WERE CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) FEBS LETT. 229, 129-136, USING THE PROGRAM XPLOR 3.1 ( BRUNGER) MODIFIED TO INCORPORATE DIPOLAR COUPLING RESTRAINTS (UNPUBLISHED). THE 3D STRUCTURE OF THE C-TERMINAL G26R MUTANT KH DOMAIN OF HNRNP K WAS SOLVED BY MULTI-DIMENSIONAL HETERONUCLEAR-EDITED AND -FILTERED NMR. IT IS BASED ON 1567 EXPERIMENTAL RESTRAINTS: 448 INTRARESIDUE, 322 SEQUENTIAL (|I-J|=1), 198 MEDIUM RANGE (1 < |I-J| >=5) AND 279 LONG RANGE (|I-J| >5) DISTANCE RESTRAINTS; 55 DISTANCE RESTRAINTS FOR 28 HYDROGEN BONDS; 49 DNH, 59 DCH, 48 DC'N, AND 53 DCAC' DIPOLAR COUPLING RESTRAINTS; 56 PHI-ANGLE RESTRAINTS FROM HN-HA COUPLING CONSTANTS. THE 20 STRUCTURES ARE ARRANGED IN ORDER OF INCREASING OVERALL ENERGY WITH MODEL 1 THE LOWEST. MODEL 9 HAS THE SMALLEST BACKBONE PAIRWISE RMS TO THE AVERAGE STRUCTURE. | ||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: LOWEST OVERALL 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: 20 |