+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1h25 | ||||||
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タイトル | CDK2/Cyclin A in complex with an 11-residue recruitment peptide from retinoblastoma-associated protein | ||||||
要素 |
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キーワード | TRANSFERASE (転移酵素) / CELL CYCLE (細胞周期) / PROTEIN KINASE (プロテインキナーゼ) / CYCLIN (サイクリン) / CDK2 (サイクリン依存性キナーゼ2) / RECRUITMENT (求人) / PEPTIDE SPECIFICITY | ||||||
機能・相同性 | 機能・相同性情報 Defective translocation of RB1 mutants to the nucleus / enucleate erythrocyte differentiation / positive regulation of collagen fibril organization / negative regulation of tau-protein kinase activity / Rb-E2F complex / regulation of centromere complex assembly / negative regulation of myofibroblast differentiation / regulation of lipid kinase activity / maintenance of mitotic sister chromatid cohesion / cell morphogenesis involved in neuron differentiation ...Defective translocation of RB1 mutants to the nucleus / enucleate erythrocyte differentiation / positive regulation of collagen fibril organization / negative regulation of tau-protein kinase activity / Rb-E2F complex / regulation of centromere complex assembly / negative regulation of myofibroblast differentiation / regulation of lipid kinase activity / maintenance of mitotic sister chromatid cohesion / cell morphogenesis involved in neuron differentiation / chromatin lock complex / sister chromatid biorientation / Phosphorylation of proteins involved in the G2/M transition by Cyclin A:Cdc2 complexes / positive regulation of extracellular matrix organization / cyclin A2-CDK1 complex / Inhibition of replication initiation of damaged DNA by RB1/E2F1 / Aberrant regulation of mitotic exit in cancer due to RB1 defects / cell cycle G1/S phase transition / positive regulation of mitotic metaphase/anaphase transition / cellular response to luteinizing hormone stimulus / positive regulation of macrophage differentiation / tissue homeostasis / glial cell apoptotic process / protein localization to chromosome, centromeric region / mitotic cell cycle phase transition / negative regulation of protein serine/threonine kinase activity / importin-alpha family protein binding / Transcription of E2F targets under negative control by p107 (RBL1) and p130 (RBL2) in complex with HDAC1 / negative regulation of hepatocyte apoptotic process / neuron maturation / positive regulation of transcription regulatory region DNA binding / digestive tract development / cellular response to leptin stimulus / male pronucleus / aortic valve morphogenesis / female pronucleus / SWI/SNF complex / myoblast differentiation / negative regulation of cold-induced thermogenesis / cellular response to cocaine / Replication of the SARS-CoV-1 genome / response to glucagon / cyclin-dependent protein serine/threonine kinase regulator activity / cellular response to insulin-like growth factor stimulus / smoothened signaling pathway / Formation of Senescence-Associated Heterochromatin Foci (SAHF) / negative regulation of glial cell proliferation / positive regulation of DNA biosynthetic process / negative regulation of G1/S transition of mitotic cell cycle / cochlea development / cyclin A1-CDK2 complex / cyclin E2-CDK2 complex / cyclin E1-CDK2 complex / cellular response to platelet-derived growth factor stimulus / cyclin A2-CDK2 complex / positive regulation of DNA-templated DNA replication initiation / G2期 / cyclin-dependent protein kinase activity / Y染色体 / hepatocyte apoptotic process / Phosphorylation of proteins involved in G1/S transition by active Cyclin E:Cdk2 complexes / positive regulation of heterochromatin formation / p53-Dependent G1 DNA Damage Response / X染色体 / PTK6 Regulates Cell Cycle / skeletal muscle cell differentiation / RUNX2 regulates osteoblast differentiation / regulation of anaphase-promoting complex-dependent catabolic process / regulation of DNA replication / Defective binding of RB1 mutants to E2F1,(E2F2, E2F3) / centriole replication / Regulation of APC/C activators between G1/S and early anaphase / centrosome duplication / negative regulation of apoptotic signaling pathway / Telomere Extension By Telomerase / G0 and Early G1 / negative regulation of cell cycle / Activation of the pre-replicative complex / chromosome organization / cyclin-dependent protein kinase holoenzyme complex / cellular response to nitric oxide / glial cell proliferation / カハール体 / chondrocyte differentiation / サイクリン依存性キナーゼ / animal organ regeneration / cyclin-dependent protein serine/threonine kinase activity / negative regulation of smoothened signaling pathway / TP53 Regulates Transcription of Genes Involved in G1 Cell Cycle Arrest / Activation of ATR in response to replication stress / heterochromatin formation / Cyclin E associated events during G1/S transition / Cyclin A/B1/B2 associated events during G2/M transition / Cyclin A:Cdk2-associated events at S phase entry / condensed chromosome / mitotic G1 DNA damage checkpoint signaling / striated muscle cell differentiation / regulation of mitotic cell cycle / regulation of G2/M transition of mitotic cell cycle / cyclin binding 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: 2.5 Å | ||||||
データ登録者 | Tews, I. / Cheng, K.Y. / Lowe, E.D. / Noble, M.E.M. / Brown, N.R. / Gul, S. / Gamblin, S. / Johnson, L.N. | ||||||
引用 | ジャーナル: Biochemistry / 年: 2002 タイトル: Specificity Determinants of Recruitment Peptides Bound to Phospho-Cdk2/Cyclin A 著者: Lowe, E.D. / Tews, I. / Cheng, K.Y. / Brown, N.R. / Gul, S. / Noble, M.E.M. / Gamblin, S. / Johnson, L.N. #1: ジャーナル: Nat.Cell Biol. / 年: 1999 タイトル: The Structural Basis for Specificity of Substrate and Recruitment Peptides for Cyclin-Dependant Kinases 著者: Brown, N.R. / Noble, M.E.M. / Endicott, J.A. / Johnson, L.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 | 1h25.cif.gz | 230.1 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1h25.ent.gz | 185.3 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1h25.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/h2/1h25 ftp://data.pdbj.org/pub/pdb/validation_reports/h2/1h25 | 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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2 |
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単位格子 |
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非結晶学的対称性 (NCS) | NCS oper:
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詳細 | BIOMOLECULE 1 IS A TRIMERIC COMPLEX OF CHAINS A, B AND E. BIOMOLECULE 2 IS A DIMERIC COMPLEX OF CHAINS C AND D |
-要素
#1: タンパク質 | 分子量: 34467.926 Da / 分子数: 2 / 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 / 発現宿主: ESCHERICHIA COLI (大腸菌) / 株 (発現宿主): B834 参照: UniProt: P24941, 転移酵素; リンを含む基を移すもの; キナーゼ(アルコールにつなげるもの) #2: タンパク質 | 分子量: 29753.410 Da / 分子数: 2 / Fragment: CYCLIN FOLD, RESIDUES 175-432 / 由来タイプ: 組換発現 / 由来: (組換発現) HOMO SAPIENS (ヒト) / プラスミド: PET21D / 発現宿主: ESCHERICHIA COLI (大腸菌) / 株 (発現宿主): B834 / 参照: UniProt: P20248 #3: タンパク質・ペプチド | | 分子量: 1342.670 Da / 分子数: 1 / Fragment: RESIDUES 869-878 / 由来タイプ: 合成 / 由来: (合成) HOMO SAPIENS (ヒト) / 参照: UniProt: P06400 #4: 水 | ChemComp-HOH / | 構成要素の詳細 | CDK2: CONTROL OF THE CELL CYCLE DURING S PHASE AND G2. BELONGS TO THE SER/THR FAMILY OF PROTEIN ...CDK2: CONTROL OF THE CELL CYCLE DURING S PHASE AND G2. BELONGS TO THE SER/THR FAMILY OF PROTEIN KINASES. CYCLIN A2: CONTROL OF THE CELL CYCLE. INTERACTS WITH THE CDK2 AND CDC2 PROTEIN KINASES. RETINOBLAS | 配列の詳細 | CHAINS B AND D ARE A TRUNCATED FRAGMENT OF CYCLIN A2 CONSISTING | |
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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: 59.8 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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結晶化 | pH: 7 詳細: 0.8M KCL, 1.2M (NH4)2SO4, 40MM HEPES PH 7.0. PROTEIN CONCENTRATION = 10MG/ML | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
結晶化 | *PLUS pH: 7.4 / 手法: 蒸気拡散法, シッティングドロップ法 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
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-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: ID14-1 / 波長: 0.934 |
検出器 | タイプ: ADSC CCD / 検出器: CCD / 日付: 2001年11月15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: 0.934 Å / 相対比: 1 |
反射 | 解像度: 2.5→28.99 Å / Num. obs: 52141 / % possible obs: 100 % / 冗長度: 4.8 % / Rmerge(I) obs: 0.092 / Net I/σ(I): 6.2 |
反射 シェル | 解像度: 2.5→2.59 Å / 冗長度: 4.6 % / Rmerge(I) obs: 0.439 / Mean I/σ(I) obs: 1.7 / % possible all: 100 |
反射 | *PLUS % possible obs: 100 % / Num. measured all: 252831 |
反射 シェル | *PLUS % possible obs: 100 % |
-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: PDB ENTRY 1QMZ 解像度: 2.5→28 Å / SU B: 11.694 / SU ML: 0.257 / 交差検証法: THROUGHOUT / ESU R: 0.531 / ESU R Free: 0.291
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原子変位パラメータ | Biso mean: 55.509 Å2
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精密化ステップ | サイクル: LAST / 解像度: 2.5→28 Å
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精密化 | *PLUS 最低解像度: 20 Å / Rfactor Rfree: 0.296 / Rfactor Rwork: 0.238 | ||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||
原子変位パラメータ | *PLUS | ||||||||||||||||||||
拘束条件 | *PLUS
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LS精密化 シェル | *PLUS 最高解像度: 2.5 Å / 最低解像度: 2.56 Å / Rfactor Rfree: 0.361 / Rfactor Rwork: 0.338 / Num. reflection Rwork: 194 / Total num. of bins used: 20 |