- PDB-2m2u: Binary complex of African Swine Fever Virus Pol X with MgdGTP -
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IDまたはキーワード:
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基本情報
登録情報
データベース: PDB / ID: 2m2u
タイトル
Binary complex of African Swine Fever Virus Pol X with MgdGTP
要素
Repair DNA polymerase X
キーワード
TRANSFERASE (転移酵素) / DNA polymerase (DNAポリメラーゼ) / Nucleotidyl Transferase
機能・相同性
機能・相同性情報
virion component / 塩基除去修復 / double-strand break repair via nonhomologous end joining / DNAポリメラーゼ / DNA-directed DNA polymerase activity / DNA binding / metal ion binding 類似検索 - 分子機能
Polymerase, nucleotidyl transferase domain / Nucleotidyltransferase domain / Beta Polymerase; domain 3 / DNA polymerase, thumb domain / DNA polymerase family X, binding site / DNA polymerase family X signature. / DNA polymerase family X / DNA polymerase beta, thumb domain / DNA polymerase beta thumb / DNA polymerase, thumb domain superfamily ...Polymerase, nucleotidyl transferase domain / Nucleotidyltransferase domain / Beta Polymerase; domain 3 / DNA polymerase, thumb domain / DNA polymerase family X, binding site / DNA polymerase family X signature. / DNA polymerase family X / DNA polymerase beta, thumb domain / DNA polymerase beta thumb / DNA polymerase, thumb domain superfamily / Beta Polymerase, domain 2 / Beta Polymerase; domain 2 / Nucleotidyltransferase superfamily / 2-Layer Sandwich / Alpha Beta 類似検索 - ドメイン・相同性
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE / Repair DNA polymerase X 類似検索 - 構成要素
0.5 mM [U-100% 13C; U-100% 15N] protein_1, 5 mM [U-100% 13C; U-100% 15N] 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 10 mM MG2, 10 mM [U-100% 2H] DTT, 50 mM Borate, 50 mM potassium chloride, 95% H2O/5% D2O
95% H2O/5% D2O
2
0.5 mM [U-13C; U-15N; U-2H] protein_1, 5 mM 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 10 mM MG2, 10 mM [U-100% 2H] DTT, 50 mM Borate, 50 mM potassium chloride, 95% H2O/5% D2O
95% H2O/5% D2O
試料
濃度 (mg/ml)
構成要素
Isotopic labeling
Solution-ID
0.5mM
entity_1-1
[U-100% 13C; U-100% 15N]
1
5mM
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE-2
[U-100% 13C; U-100% 15N]
1
10mM
MG2-3
1
10mM
DTT-4
[U-100% 2H]
1
50mM
Borate-5
1
50mM
potassium chloride-6
1
0.5mM
entity_1-7
[U-13C; U-15N; U-2H]
2
5mM
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE-8
2
10mM
MG2-9
2
10mM
DTT-10
[U-100% 2H]
2
50mM
Borate-11
2
50mM
potassium chloride-12
2
試料状態
イオン強度: 100 / pH: 6.5 / 圧: ambient / 温度: 293 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
800
1
Bruker Avance
Bruker
AVANCE
850
2
Bruker Avance
Bruker
AVANCE
600
3
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解析
NMR software
名称
開発者
分類
CYANA
Guntert, MumenthalerandWuthrich
構造決定
HADDOCK
Dr. AlexandreBonvin
精密化
精密化
手法: distance geometry / ソフトェア番号: 1
NMR constraints
NOE constraints total: 3066 / NOE intraresidue total count: 1359 / NOE long range total count: 605 / NOE medium range total count: 543 / NOE sequential total count: 541 / Protein phi angle constraints total count: 155 / Protein psi angle constraints total count: 155
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: 2000 / 登録したコンフォーマーの数: 20
NMR ensemble rms
Distance rms dev: 0.07 Å / Distance rms dev error: 0.01 Å