- PDB-2jzw: How the HIV-1 nucleocapsid protein binds and destabilises the (-)... -
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基本情報
登録情報
データベース: PDB / ID: 2jzw
タイトル
How the HIV-1 nucleocapsid protein binds and destabilises the (-)primer binding site during reverse transcription
要素
DNA (5'-D(*DGP*DTP*DCP*DCP*DCP*DTP*DGP*DTP*DTP*DCP*DGP*DGP*DGP*DC)-3')
HIV-1 nucleocapsid protein NCp7(12-55)
キーワード
VIRAL PROTEIN/DNA / human immunodeficiency virus type 1 (HIV-1) / nuclear magnetic resonance (NMR) / nucleocapsid protein (NCp7) / primer binding site (PBS) / exchange / VIRAL PROTEIN-DNA COMPLEX
機能・相同性
機能・相同性情報
HIV-1 retropepsin / symbiont-mediated activation of host apoptosis / retroviral ribonuclease H / exoribonuclease H / exoribonuclease H activity / host multivesicular body / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency ...HIV-1 retropepsin / symbiont-mediated activation of host apoptosis / retroviral ribonuclease H / exoribonuclease H / exoribonuclease H activity / host multivesicular body / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency / viral penetration into host nucleus / RNA stem-loop binding / symbiont-mediated suppression of host gene expression / RNA-directed DNA polymerase activity / host cell / RNA-DNA hybrid ribonuclease activity / 転移酵素; リンを含む基を移すもの; 核酸を移すもの / viral nucleocapsid / aspartic-type endopeptidase activity / DNA recombination / DNA-directed DNA polymerase / 加水分解酵素; エステル加水分解酵素 / DNA-directed DNA polymerase activity / symbiont entry into host cell / lipid binding / host cell nucleus / host cell plasma membrane / structural molecule activity / virion membrane / proteolysis / DNA binding / zinc ion binding / membrane 類似検索 - 分子機能
内容: 1 mM NCp7(12-55), 1 mM P(-)PBS, 3 mM ZnCl2, 30 mM sodium chloride, 0.2 mM MgCl2, 90% H2O/10% D2O 溶媒系: 90% H2O/10% D2O
試料
濃度 (mg/ml)
構成要素
Solution-ID
1mM
NCp7(12-55)
1
1mM
P(-)PBS
1
3mM
ZnCl2
1
30mM
sodiumchloride
1
0.2mM
MgCl2
1
試料状態
イオン強度: 30 / 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: Bruker Avance / 製造業者: Bruker / モデル: AVANCE / 磁場強度: 600 MHz
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解析
NMR software
名称
バージョン
開発者
分類
XwinNMR
3
BrukerBiospin
collection
XwinNMR
3
BrukerBiospin
解析
Discover
2.98
Accelrys
精密化
精密化
手法: simulated annealing / ソフトェア番号: 1
NMR constraints
NOE constraints total: 710 / NOE intraresidue total count: 266 / NOE long range total count: 108 / NOE medium range total count: 72 / NOE sequential total count: 196
代表構造
選択基準: closest to the average
NMRアンサンブル
コンフォーマー選択の基準: structures with the least restraint violations,structures with the lowest 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: 19
NMR ensemble rms
Distance rms dev: 0.028 Å / Distance rms dev error: 0.006 Å