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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 1s1v | ||||||
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タイトル | Crystal structure of L100I mutant HIV-1 reverse transcriptase in complex with TNK-651 | ||||||
![]() | (Reverse transcriptase) x 2 | ||||||
![]() | TRANSFERASE / HIV-1 REVERSE TRANSCRIPTASE / AIDS / NNRTI / TNK-651 / DRUG RESISTANCE MUTATIONS | ||||||
機能・相同性 | ![]() integrase activity / Integration of viral DNA into host genomic DNA / Autointegration results in viral DNA circles / Minus-strand DNA synthesis / Plus-strand DNA synthesis / 2-LTR circle formation / Uncoating of the HIV Virion / Vpr-mediated nuclear import of PICs / Early Phase of HIV Life Cycle / Integration of provirus ...integrase activity / Integration of viral DNA into host genomic DNA / Autointegration results in viral DNA circles / Minus-strand DNA synthesis / Plus-strand DNA synthesis / 2-LTR circle formation / Uncoating of the HIV Virion / Vpr-mediated nuclear import of PICs / Early Phase of HIV Life Cycle / Integration of provirus / APOBEC3G mediated resistance to HIV-1 infection / Binding and entry of HIV virion / viral life cycle / HIV-1 retropepsin / symbiont-mediated activation of host apoptosis / retroviral ribonuclease H / exoribonuclease H / exoribonuclease H activity / Assembly Of The HIV Virion / Budding and maturation of HIV virion / protein processing / host multivesicular body / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency / telomerase activity / viral penetration into host nucleus / RNA stem-loop binding / 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 / peptidase activity / host cell / viral nucleocapsid / DNA recombination / DNA-directed DNA polymerase / aspartic-type endopeptidase activity / 加水分解酵素; エステル加水分解酵素 / DNA-directed DNA polymerase activity / symbiont-mediated suppression of host gene expression / symbiont entry into host cell / viral translational frameshifting / lipid binding / host cell nucleus / host cell plasma membrane / virion membrane / structural molecule activity / DNA binding / zinc ion binding / identical protein binding / membrane 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Ren, J. / Nichols, C.E. / Chamberlain, P.P. / Stammers, D.K. | ||||||
![]() | ![]() タイトル: Crystal structures of HIV-1 reverse transcriptases mutated at codons 100, 106 and 108 and mechanisms of resistance to non-nucleoside inhibitors 著者: Ren, J. / Nichols, C.E. / Chamberlain, P.P. / Weaver, K.L. / Short, S.A. / Stammers, D.K. #1: ![]() タイトル: Crystal structures of Zidovudine- or Lamivudine-resistant human immunodeficiency virus type 1 reverse transcriptases containing mutations at codons 41, 184, and 215 著者: Chamberlain, P.P. / Ren, J. / Nichols, C.E. / Douglas, L. / Lennerstrand, J. / Larder, B.A. / Stuart, D.I. / Stammers, D.K. #2: ![]() タイトル: Structural Mechanisms of Drug Resistance for Mutations at Codons 181 and 188 in HIV-1 Reverse Transcriptase and the Improved Resilience of Second Generation Non-Nucleoside Inhibitors 著者: Ren, J. / Nichols, C. / Bird, L. / Chamberlain, P. / Weaver, K.L. / Short, S.A. / Stuart, D.I. / Stammers, D.K. #3: ![]() タイトル: 2-Amino-6-Arylsulfonylbenzonitriles as Non-Nucleoside reverse Transcriptase Inhibitors of HIV-1 著者: Chan, J.H. / Hong, J.S. / Hunter III, R.N. / Orr, G.F. / Cowan, J.R. / Sherman, D.B. / Sparks, S.M. / Reitter, B.E. / Andrews III, C.W. / Hazen, R.J. / St Clair, M. / Boone, L.R. / Ferris, R. ...著者: Chan, J.H. / Hong, J.S. / Hunter III, R.N. / Orr, G.F. / Cowan, J.R. / Sherman, D.B. / Sparks, S.M. / Reitter, B.E. / Andrews III, C.W. / Hazen, R.J. / St Clair, M. / Boone, L.R. / Ferris, R.G. / Creech, K.L. / Roberts, G.B. / Short, S.A. / Weaver, K. / Ott, R.J. / Ren, J. / Hopkins, A. / Stuart, D.I. / Stammers, D.K. #4: ![]() タイトル: Structural Basis for the Resilience of Efavirenz (Dmp-266) to Drug Resistance Mutations in HIV-1 Reverse Transcriptase 著者: Ren, J. / Milton, J. / Weaver, K.L. / Short, S.A. / Stuart, D.I. / Stammers, D.K. #5: ![]() タイトル: Binding of the Second Generation Non-Nucleoside Inhibitor S-1153 to HIV-1 Reverse Transcriptase Involves Extensive Main Chain Hydrogen Bonding 著者: Ren, J. / Nichols, C. / Bird, L.E. / Fujiwara, T. / Suginoto, H. / Stuart, D.I. / Stammers, D.K. #6: ![]() タイトル: Phenethylthiazolylthiourea (Pett) Non-Nucleoside Inhibitors of HIV-1 and HIV-2 Reverse Transcriptases. Structural and Biochemical Analyses 著者: Ren, J. / Diprose, J. / Warren, J. / Esnouf, R.M. / Bird, L.E. / Ikemizu, S. / Slater, M. / Milton, J. / Balzarini, J. / Stuart, D.I. / Stammers, D.K. #7: ![]() タイトル: Crystallographic Analysis of the Binding Modes of Thiazoloisoindolinone Non-Nucleoside Inhibitors to HIV-1 Reverse Transcriptase and Comparison with Modeling Studies 著者: Ren, J. / Esnouf, R.M. / Hopkins, A.L. / Stuart, D.I. / Stammers, D.K. #8: ![]() タイトル: Design of Mkc-442 (Emivirine) Analogues with Improved Activity Against Drug-Resistant HIV Mutants 著者: Hopkins, A.L. / Ren, J. / Tanaka, H. / Baba, M. / Okamato, M. / Stuart, D.I. / Stammers, D.K. #9: ![]() タイトル: Crystal Structures of HIV-1 Reverse Transcriptase in Complex with Carboxanilide Derivatives 著者: Ren, J. / Esnouf, R.M. / Hopkins, A.L. / Warren, J. / Balzarini, J. / Stuart, D.I. / Stammers, D.K. #10: ![]() タイトル: 3'-Azido-3'-Deoxythymidine Drug Resistance Mutations in HIV-1 Reverse Transcriptase Can Induce Long Range Conformational Changes 著者: Ren, J. / Esnouf, R.M. / Hopkins, A.L. / Jones, E.Y. / Kirby, I. / Keeling, J. / Ross, C.K. / Larder, B.A. / Stuart, D.I. / Stammers, D.K. #11: ![]() タイトル: Continuous and Discontinuous Changes in the Unit Cell of HIV-1 Reverse Transcriptase Crystals on Dehydration 著者: Esnouf, R.M. / Ren, J. / Garman, E. / Somers, D.O. / Ross, C.K. / Jones, E.Y. / Stammers, D.K. / Stuart, D.I. #12: ![]() タイトル: Unique Features in the Structure of the Complex between HIV-1 Reverse Transcriptase and the Bis(Heteroaryl)Piperazine (Bhap) U-90152 Explain Resistance Mutations for This Non-Nucleoside Inhibitor 著者: Esnouf, R.M. / Ren, J. / Hopkins, A.L. / Ross, C.K. / Jones, E.Y. / Stammers, D.K. / Stuart, D.I. #13: ![]() タイトル: Complexes of HIV-1 Reverse Transcriptase with Inhibitors of the HEPT Series Reveal Conformational Changes Relevant to the Design of Potent Non-Nucleoside Inhibitors 著者: L Hopkins, A. / Ren, J. / Esnouf, R.M. / Willcox, B.E. / Jones, E.Y. / Ross, C.K. / Miyasaka, T. / Walker, R.T. / Tanaka, H. / Stammers, D.K. / Stuart, D.I. #14: ![]() タイトル: The Structure of HIV-1 Reverse Transcriptase Complexed with 9-Chloro-TIBO: Lessons for Inhibitor Design 著者: Ren, J. / Esnouf, R.M. / Hopkins, A.L. / Ross, C.K. / Jones, E.Y. / Stammers, D.K. / Stuart, D.I. #15: ![]() タイトル: High Resolution Structures of HIV-1 RT from Four RT-Inhibitor Complexes 著者: Ren, J. / Esnouf, R.M. / Garman, E. / Somers, D.O. / Ross, C.K. / Kirby, I. / Keeling, J. / Darby, G. / Jones, E.Y. / Stuart, D.I. / Stammers, D.K. #16: ![]() タイトル: Mechanism of Inhibition of HIV-1 Reverse Transcriptase by Non-Nucleoside Inhibitors 著者: Esnouf, R.M. / Ren, J. / Ross, C.K. / Jones, E.Y. / Stammers, D.K. / Stuart, D.I. #17: ![]() タイトル: Crystals of HIV-1 Reverse Transcriptase Diffracting to 2.2 A Resolution 著者: Stammers, D.K. / Somers, D.O. / Ross, C.K. / Kirby, I. / Ray, P.H. / Wilson, J.E. / Norman, M. / Ren, J. / Esnouf, R.M. / Garman, E. / Jones, E.Y. / Stuart, D.I. | ||||||
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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ダウンロードとリンク
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PDBx/mmCIF形式 | ![]() | 208.7 KB | 表示 | ![]() |
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PDB形式 | ![]() | 166 KB | 表示 | ![]() |
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その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 730.6 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 778.1 KB | 表示 | |
XML形式データ | ![]() | 40.4 KB | 表示 | |
CIF形式データ | ![]() | 54.7 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
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リンク
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集合体
登録構造単位 | ![]()
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単位格子 |
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要素
#1: タンパク質 | 分子量: 64594.949 Da / 分子数: 1 / 断片: P66 / 変異: L100I / 由来タイプ: 組換発現 由来: (組換発現) ![]() ![]() 属: Lentivirus / 遺伝子: POL / プラスミド: PKK233-2 / 発現宿主: ![]() ![]() |
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#2: タンパク質 | 分子量: 51399.047 Da / 分子数: 1 / 断片: P51 / 変異: L100I / 由来タイプ: 組換発現 由来: (組換発現) ![]() ![]() 属: Lentivirus / 遺伝子: POL / プラスミド: PKK233-2 / 発現宿主: ![]() ![]() |
#3: 化合物 | ChemComp-TNK / |
#4: 水 | ChemComp-HOH / |
Has protein modification | Y |
-実験情報
-実験
実験 | 手法: ![]() |
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試料調製
結晶 | マシュー密度: 2.52 Å3/Da / 溶媒含有率: 50.75 % |
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結晶化 | 温度: 277 K / 手法: 蒸気拡散法, シッティングドロップ法 / pH: 5 詳細: pH 5, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-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: ![]() ![]() ![]() |
検出器 | タイプ: MARRESEARCH / 検出器: CCD / 日付: 1999年9月8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: 0.931 Å / 相対比: 1 |
反射 | 解像度: 2.6→30 Å / Num. obs: 32838 / % possible obs: 94 % / Observed criterion σ(I): -1.5 / 冗長度: 4.32 % / Biso Wilson estimate: 80.7 Å2 / Rmerge(I) obs: 0.046 / Net I/σ(I): 17.6 |
反射 シェル | 解像度: 2.6→2.69 Å / 冗長度: 3.72 % / Rmerge(I) obs: 0.566 / Mean I/σ(I) obs: 0.9 / Num. unique all: 3052 / % possible all: 88.7 |
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解析
ソフトウェア |
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精密化 | 構造決定の手法: ![]() 詳細: THE STANDARD CRYSTALLOGRAPHIC RESIDUAL WAS USED AS TARGET FUNCTION IN THE FINAL ROUND OF REFINEMENT INCLUDING ALL THE REFLECTIONS INSTEAD OF THE MLF IN THE PREVIOUS ROUNDS OF REFINEMENT WITH ...詳細: THE STANDARD CRYSTALLOGRAPHIC RESIDUAL WAS USED AS TARGET FUNCTION IN THE FINAL ROUND OF REFINEMENT INCLUDING ALL THE REFLECTIONS INSTEAD OF THE MLF IN THE PREVIOUS ROUNDS OF REFINEMENT WITH CROSS-VALIDATION, WHICH RESULTED IN THE R-FACTOR FOR ALL DATA BEING SMALLER THAN R-WORKING. DUE TO THE LOW RATIO BETWEEN THE NUMBER OF REFLECTIONS AND THE NUMBER OF PARAMETERS TO BE REFINED, POSITIONAL RESTRAINTS WERE APPLIED TO ALL ATOMS DISTANT FROM THE NNRTI-BINDING SITE(DEFINED AS ATOMS MORE THAN 25 ANGSTROM FROM THE CA ATOM OF TYR188) THROUGHOUT THE REFINEMENT.
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 45.8489 Å2 / ksol: 0.308343 e/Å3 | ||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 78.4 Å2
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Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 2.6→29.51 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 2.6→2.69 Å / Rfactor Rfree error: 0.04 / Total num. of bins used: 10
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Xplor file |
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