- PDB-2lnb: Solution NMR structure of N-terminal domain (6-74) of human ZBP1 ... -
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基本情報
登録情報
データベース: PDB / ID: 2lnb
タイトル
Solution NMR structure of N-terminal domain (6-74) of human ZBP1 protein, Northeast Structural Genomics Consortium Target HR8174A.
要素
Z-DNA-binding protein 1
キーワード
IMMUNE SYSTEM / Structural Genomics / NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) / PSI-BIOLOGY / Protein Structure Initiative
機能・相同性
機能・相同性情報
ZBP1(DAI) mediated induction of type I IFNs / left-handed Z-DNA binding / regulation of interleukin-1-mediated signaling pathway / IRF3 mediated activation of type 1 IFN / double-stranded RNA adenosine deaminase activity / positive regulation of necroptotic process / RIP-mediated NFkB activation via ZBP1 / positive regulation of type I interferon-mediated signaling pathway / pyroptotic inflammatory response / defense response to fungus ...ZBP1(DAI) mediated induction of type I IFNs / left-handed Z-DNA binding / regulation of interleukin-1-mediated signaling pathway / IRF3 mediated activation of type 1 IFN / double-stranded RNA adenosine deaminase activity / positive regulation of necroptotic process / RIP-mediated NFkB activation via ZBP1 / positive regulation of type I interferon-mediated signaling pathway / pyroptotic inflammatory response / defense response to fungus / antiviral innate immune response / activation of innate immune response / Regulation of innate immune responses to cytosolic DNA / positive regulation of inflammatory response / double-stranded RNA binding / regulation of inflammatory response / Potential therapeutics for SARS / defense response to virus / positive regulation of apoptotic process / apoptotic process / DNA binding / RNA binding / identical protein binding / nucleus / cytoplasm / cytosol 類似検索 - 分子機能
1.0 mM [U-100% 13C; U-100% 15N] N-terminal domain (6-74) of human ZBP1 protein, 20 mM MES, 100 mM sodium chloride, 10 mM DTT, 0.02 % sodium azide, 5 mM calcium chloride, 90% H2O/10% D2O
90% H2O/10% D2O
2
1.00 mM [U-5% 13C; U-100% 15N] N-terminal domain (6-74) of human ZBP1 protein, 20 mM MES, 100 mM sodium chloride, 10 mM DTT, 0.02 % sodium azide, 5 mM calcium chloride, 90% H2O/10% D2O
90% H2O/10% D2O
試料
濃度 (mg/ml)
構成要素
Isotopic labeling
Solution-ID
1.0mM
N-terminal domain (6-74) of human ZBP1 protein-1
[U-100% 13C; U-100% 15N]
1
20mM
MES-2
1
100mM
sodium chloride-3
1
10mM
DTT-4
1
0.02 %
sodium azide-5
1
5mM
calcium chloride-6
1
1.00mM
N-terminal domain (6-74) of human ZBP1 protein-7
[U-5% 13C; U-100% 15N]
2
20mM
MES-8
2
100mM
sodium chloride-9
2
10mM
DTT-10
2
0.02 %
sodium azide-11
2
5mM
calcium chloride-12
2
試料状態
pH: 6.5 / 圧: ambient / 温度: 298 K
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NMR測定
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 Avance
Bruker
AVANCE
850
1
Varian INOVA
Varian
INOVA
600
2
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解析
NMR software
名称
バージョン
開発者
分類
CNS
Brunger, Adams, Clore, Gros, NilgesandRead
精密化
CNS
Brunger, Adams, Clore, Gros, NilgesandRead
構造決定
CNS
Brunger, Adams, Clore, Gros, NilgesandRead
geometryoptimization
CYANA
3
Guntert, MumenthalerandWuthrich
精密化
CYANA
3
Guntert, MumenthalerandWuthrich
geometryoptimization
CYANA
3
Guntert, MumenthalerandWuthrich
構造決定
AutoStructure
2.1
Huang, Tejero, PowersandMontelione
データ解析
AutoStructure
2.1
Huang, Tejero, PowersandMontelione
精密化
AutoAssign
2.1
Zimmerman, Moseley, KulikowskiandMontelione
データ解析
AutoAssign
2.1
Zimmerman, Moseley, KulikowskiandMontelione
chemicalshiftassignment
NMRPipe
Delaglio, Grzesiek, Vuister, Zhu, PfeiferandBax
解析
TopSpin
BrukerBiospin
collection
VnmrJ
Varian
collection
PINE
Bahrami, Markley, Assadi, andEghbalnia
chemicalshiftassignment
Sparky
Goddard
データ解析
TALOS+
Shen, Cornilescu, DelaglioandBax
geometryoptimization
PALES
PALES (Zweckstetter, Bax)
geometryoptimization
PSVS
Bhattacharya, Montelione
structurevalidation
精密化
手法: simulated annealing / ソフトェア番号: 1
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: 150 / 登録したコンフォーマーの数: 20