- PDB-1p9d: High-resolution structure of the complex of HHR23A ubiquitin-like... -
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基本情報
登録情報
データベース: PDB / ID: 1p9d
タイトル
High-resolution structure of the complex of HHR23A ubiquitin-like domain and the C-terminal ubiquitin-interacting motif of proteasome subunit S5a
要素
26S proteasome non-ATPase regulatory subunit 4
UV excision repair protein RAD23 homolog A
キーワード
REPLICATION / protein-peptide complex
機能・相同性
機能・相同性情報
regulation of proteasomal ubiquitin-dependent protein catabolic process / proteasome accessory complex / proteasome regulatory particle, base subcomplex / Regulation of ornithine decarboxylase (ODC) / Cross-presentation of soluble exogenous antigens (endosomes) / Somitogenesis / proteasome binding / ubiquitin-specific protease binding / polyubiquitin modification-dependent protein binding / positive regulation of viral genome replication ...regulation of proteasomal ubiquitin-dependent protein catabolic process / proteasome accessory complex / proteasome regulatory particle, base subcomplex / Regulation of ornithine decarboxylase (ODC) / Cross-presentation of soluble exogenous antigens (endosomes) / Somitogenesis / proteasome binding / ubiquitin-specific protease binding / polyubiquitin modification-dependent protein binding / positive regulation of viral genome replication / positive regulation of cell cycle / proteasome complex / Josephin domain DUBs / Regulation of activated PAK-2p34 by proteasome mediated degradation / Autodegradation of Cdh1 by Cdh1:APC/C / APC/C:Cdc20 mediated degradation of Securin / ubiquitin binding / Asymmetric localization of PCP proteins / SCF-beta-TrCP mediated degradation of Emi1 / NIK-->noncanonical NF-kB signaling / Ubiquitin-dependent degradation of Cyclin D / AUF1 (hnRNP D0) binds and destabilizes mRNA / TNFR2 non-canonical NF-kB pathway / Assembly of the pre-replicative complex / Vpu mediated degradation of CD4 / Degradation of DVL / Ubiquitin Mediated Degradation of Phosphorylated Cdc25A / Dectin-1 mediated noncanonical NF-kB signaling / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / nucleotide-excision repair / Hh mutants are degraded by ERAD / Degradation of AXIN / Degradation of GLI1 by the proteasome / Activation of NF-kappaB in B cells / Hedgehog ligand biogenesis / Defective CFTR causes cystic fibrosis / Negative regulation of NOTCH4 signaling / GSK3B and BTRC:CUL1-mediated-degradation of NFE2L2 / G2/M Checkpoints / Vif-mediated degradation of APOBEC3G / Autodegradation of the E3 ubiquitin ligase COP1 / Hedgehog 'on' state / Regulation of RUNX3 expression and activity / Degradation of GLI2 by the proteasome / GLI3 is processed to GLI3R by the proteasome / DNA Damage Recognition in GG-NER / FBXL7 down-regulates AURKA during mitotic entry and in early mitosis / MAPK6/MAPK4 signaling / protein destabilization / APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1 / Degradation of beta-catenin by the destruction complex / ABC-family proteins mediated transport / Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha / CDK-mediated phosphorylation and removal of Cdc6 / CLEC7A (Dectin-1) signaling / SCF(Skp2)-mediated degradation of p27/p21 / kinase binding / Regulation of expression of SLITs and ROBOs / Formation of Incision Complex in GG-NER / FCERI mediated NF-kB activation / Regulation of PTEN stability and activity / Interleukin-1 signaling / Orc1 removal from chromatin / Regulation of RAS by GAPs / Separation of Sister Chromatids / Regulation of RUNX2 expression and activity / The role of GTSE1 in G2/M progression after G2 checkpoint / UCH proteinases / KEAP1-NFE2L2 pathway / Antigen processing: Ubiquitination & Proteasome degradation / positive regulation of proteasomal ubiquitin-dependent protein catabolic process / Downstream TCR signaling / RUNX1 regulates transcription of genes involved in differentiation of HSCs / Neddylation / single-stranded DNA binding / ER-Phagosome pathway / proteasome-mediated ubiquitin-dependent protein catabolic process / damaged DNA binding / molecular adaptor activity / Ub-specific processing proteases / intracellular membrane-bounded organelle / Golgi apparatus / protein-containing complex / RNA binding / nucleoplasm / identical protein binding / nucleus / cytoplasm / cytosol 類似検索 - 分子機能
Text: The structure was determined using triple-resonance NMR spectroscopy
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試料調製
詳細
Solution-ID
内容
溶媒系
1
2mM S5a peptide unlabeled, 2mM ubiquitin-like domain of HHR23A U-15N,13C
50mMsodiumphosphate, 100mMsodiumchloride, 5% D2O
2
2mM S5a peptide U-15N,13C, 2mM ubiquitin-like domain of HHR23A unlabeled
50mMsodiumphosphate, 100mMsodiumchloride, 5% D2O
試料状態
イオン強度: 150mM / pH: 6.5 / 圧: ambient / 温度: 300 K
結晶化
*PLUS
手法: other / 詳細: NMR
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NMR測定
放射
プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M
放射波長
相対比: 1
NMRスペクトロメーター
タイプ
製造業者
モデル
磁場強度 (MHz)
Spectrometer-ID
Bruker DRX
Bruker
DRX
500
1
Bruker DRX
Bruker
DRX
600
2
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解析
NMR software
名称
バージョン
開発者
分類
XwinNMR
2.5
BrukerKarlsruhe
解析
AURELIA
2.8.9
Neidig
データ解析
X-PLOR
3.1
Brunger
構造決定
X-PLOR
3.1
Brunger
精密化
精密化
手法: simulated annealing / ソフトェア番号: 1 詳細: The structures are based on a total of 2066 restraints, 1999 are NOE-derived distance restraints, of which 58 are intermolecular. For the S5a ubiquitin-interacting motif only the residues 270 ...詳細: The structures are based on a total of 2066 restraints, 1999 are NOE-derived distance restraints, of which 58 are intermolecular. For the S5a ubiquitin-interacting motif only the residues 270 to 301 were included in the structure calculations due to disorder of the flexible N- and C-termini.
代表構造
選択基準: lowest energy
NMRアンサンブル
コンフォーマー選択の基準: structures with the lowest energy 計算したコンフォーマーの数: 30 / 登録したコンフォーマーの数: 10