4C3G
 
 | | cryo-EM structure of activated and oligomeric restriction endonuclease SgrAI | | 分子名称: | 5'-D(*CP*CP*GP*GP*TP*GP*TP*GP*AP*AP*GP*AP*CP*CP *CP*AP*CP*GP*CP*AP*TP*CP)-3', 5'-D(*GP*AP*TP*GP*CP*GP*TP*GP*GP*GP*TP*CP*TP*TP *CP*AP*CP*AP)-3', SGRAIR RESTRICTION ENZYME | | 著者 | Lyumkis, D, Talley, H, Stewart, A, Shah, S, Park, C.K, Tama, F, Potter, C.S, Carragher, B, Horton, N.C. | | 登録日 | 2013-08-23 | | 公開日 | 2013-09-11 | | 最終更新日 | 2017-08-23 | | 実験手法 | ELECTRON MICROSCOPY (8.6 Å) | | 主引用文献 | Allosteric Regulation of DNA Cleavage and Sequence-Specificity Through Run-on Oligomerization.
Structure, 21, 2013
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3J5M
 | | Cryo-EM structure of the BG505 SOSIP.664 HIV-1 Env trimer with 3 PGV04 Fabs | | 分子名称: | BG505 SOSIP gp120, BG505 SOSIP gp41, PGV04 heavy chain, ... | | 著者 | Lyumkis, D, Julien, J.-P, Wilson, I.A, Ward, A.B. | | 登録日 | 2013-10-26 | | 公開日 | 2013-11-13 | | 最終更新日 | 2018-07-18 | | 実験手法 | ELECTRON MICROSCOPY (5.8 Å) | | 主引用文献 | Cryo-EM structure of a fully glycosylated soluble cleaved HIV-1 envelope trimer.
Science, 342, 2013
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6V3K
 | | Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ419 (compound 4c) | | 分子名称: | 4-azanyl-N-[[2,4-bis(fluoranyl)phenyl]methyl]-1-oxidanyl-2-oxidanylidene-6-(5-oxidanylpentyl)-1,8-naphthyridine-3-carboxamide, Chimeric Sso7d and HIV-1 integrase, MAGNESIUM ION, ... | | 著者 | Lyumkis, D, Jozwik, I.K, Passos, D. | | 登録日 | 2019-11-25 | | 公開日 | 2020-02-12 | | 最終更新日 | 2024-03-06 | | 実験手法 | ELECTRON MICROSCOPY (3.4 Å) | | 主引用文献 | Structural basis for strand-transfer inhibitor binding to HIV intasomes.
Science, 367, 2020
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7SEP
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7SJX
 | | Cryo-EM Structure of the PR-RT components of the HIV-1 Pol Polyprotein | | 分子名称: | Gag-Pol polyprotein | | 著者 | Lyumkis, D, Passos, D, Arnold, E, Harrison, J.J.E.K, Ruiz, F.X. | | 登録日 | 2021-10-19 | | 公開日 | 2022-07-27 | | 最終更新日 | 2023-08-16 | | 実験手法 | ELECTRON MICROSCOPY (8.2 Å) | | 主引用文献 | Cryo-EM structure of the HIV-1 Pol polyprotein provides insights into virion maturation.
Sci Adv, 8, 2022
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6PUW
 | | Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and Bictegravir (BIC) | | 分子名称: | Bictegravir, Chimeric Sso7d and HIV-1 integrase, MAGNESIUM ION, ... | | 著者 | Lyumkis, D, Jozwik, I.K, Passos, D. | | 登録日 | 2019-07-18 | | 公開日 | 2020-02-12 | | 最終更新日 | 2024-03-20 | | 実験手法 | ELECTRON MICROSCOPY (2.9 Å) | | 主引用文献 | Structural basis for strand-transfer inhibitor binding to HIV intasomes.
Science, 367, 2020
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6PUZ
 | | Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ446 (compound 4f) | | 分子名称: | 4-azanyl-N-[[2,4-bis(fluoranyl)phenyl]methyl]-1-oxidanyl-2-oxidanylidene-6-[2-(phenylsulfonyl)ethyl]-1,8-naphthyridine-3-carboxamide, Chimeric Sso7d and HIV-1 integrase, MAGNESIUM ION, ... | | 著者 | Lyumkis, D, Jozwik, I.K, Passos, D. | | 登録日 | 2019-07-18 | | 公開日 | 2020-02-12 | | 最終更新日 | 2024-03-20 | | 実験手法 | ELECTRON MICROSCOPY (2.8 Å) | | 主引用文献 | Structural basis for strand-transfer inhibitor binding to HIV intasomes.
Science, 367, 2020
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6PUY
 | | Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ426 (compound 4d) | | 分子名称: | 4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide, Chimeric Sso7d and HIV-1 integrase, MAGNESIUM ION, ... | | 著者 | Lyumkis, D, Jozwik, I.K, Passos, D. | | 登録日 | 2019-07-18 | | 公開日 | 2020-02-12 | | 最終更新日 | 2024-03-20 | | 実験手法 | ELECTRON MICROSCOPY (2.8 Å) | | 主引用文献 | Structural basis for strand-transfer inhibitor binding to HIV intasomes.
Science, 367, 2020
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6PUT
 | | Structure of HIV cleaved synaptic complex (CSC) intasome bound with calcium | | 分子名称: | CALCIUM ION, Chimeric Sso7d and HIV-1 integrase, ZINC ION, ... | | 著者 | Lyumkis, D, Jozwik, I.K, Passos, D. | | 登録日 | 2019-07-18 | | 公開日 | 2020-02-12 | | 最終更新日 | 2024-03-20 | | 実験手法 | ELECTRON MICROSCOPY (2.9 Å) | | 主引用文献 | Structural basis for strand-transfer inhibitor binding to HIV intasomes.
Science, 367, 2020
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5TQX
 | | CryoEM reconstruction of human IKK1, intermediate conformation 2 | | 分子名称: | Inhibitor of nuclear factor kappa-B kinase subunit alpha | | 著者 | Lyumkis, D, Ghosh, G, Polley, S, Biswath, T, Huang, D, Passos, D.O. | | 登録日 | 2016-10-24 | | 公開日 | 2016-11-09 | | 最終更新日 | 2024-03-13 | | 実験手法 | ELECTRON MICROSCOPY (5.4 Å) | | 主引用文献 | Structural Basis for the Activation of IKK1/ alpha.
Cell Rep, 17, 2016
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5TQW
 | | CryoEM reconstruction of human IKK1, open conformation 1 | | 分子名称: | Inhibitor of nuclear factor kappa-B kinase subunit alpha | | 著者 | Lyumkis, D, Ghosh, G, Polley, S, Biswath, T, Huang, D, Passos, D.O. | | 登録日 | 2016-10-24 | | 公開日 | 2016-11-09 | | 最終更新日 | 2024-03-13 | | 実験手法 | ELECTRON MICROSCOPY (5.6 Å) | | 主引用文献 | Structural Basis for the Activation of IKK1/ alpha.
Cell Rep, 17, 2016
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5TQY
 | | CryoEM reconstruction of human IKK1, closed conformation 3 | | 分子名称: | Inhibitor of nuclear factor kappa-B kinase subunit alpha | | 著者 | Lyumkis, D, Ghosh, G, Polley, S, Biswath, T, Huang, D, Passos, D.O. | | 登録日 | 2016-10-24 | | 公開日 | 2016-11-09 | | 最終更新日 | 2024-03-13 | | 実験手法 | ELECTRON MICROSCOPY (5.2 Å) | | 主引用文献 | Structural Basis for the Activation of IKK1/ alpha.
Cell Rep, 17, 2016
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5U1C
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8SY6
 | | E. coli DNA-directed RNA polymerase transcription elongation complex bound the unnatural dB-UTP base pair in the active site | | 分子名称: | 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Shan, Z, Lyumkis, D, Oh, J, Wang, D. | | 登録日 | 2023-05-24 | | 公開日 | 2023-12-27 | | 実験手法 | ELECTRON MICROSCOPY (3.28 Å) | | 主引用文献 | A unified Watson-Crick geometry drives transcription of six-letter expanded DNA alphabets by E. coli RNA polymerase.
Nat Commun, 14, 2023
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8SY7
 | | E. coli DNA-directed RNA polymerase transcription elongation complex bound the unnatural dB-STP base pair in the active site | | 分子名称: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | 著者 | Shan, Z, Lyumkis, D, Oh, J, Wang, D. | | 登録日 | 2023-05-24 | | 公開日 | 2023-12-27 | | 実験手法 | ELECTRON MICROSCOPY (2.65 Å) | | 主引用文献 | A unified Watson-Crick geometry drives transcription of six-letter expanded DNA alphabets by E. coli RNA polymerase.
Nat Commun, 14, 2023
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8SY5
 | | E. coli DNA-directed RNA polymerase transcription elongation complex bound the unnatural dS-BTP base pair in the active site | | 分子名称: | 2-oxo-2-hydroadenosine 5'-(tetrahydrogen triphosphate), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Shan, Z, Lyumkis, D, Oh, J, Wang, D. | | 登録日 | 2023-05-24 | | 公開日 | 2023-12-27 | | 実験手法 | ELECTRON MICROSCOPY (2.7 Å) | | 主引用文献 | A unified Watson-Crick geometry drives transcription of six-letter expanded DNA alphabets by E. coli RNA polymerase.
Nat Commun, 14, 2023
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8TXO
 | | E. coli DNA-directed RNA polymerase transcription elongation complex bound to the unnatural dZ-PTP base pair in the active site | | 分子名称: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | 著者 | Aiyer, S, Shan, Z, Oh, J, Wang, D, Tan, Y.Z, Lyumkis, D. | | 登録日 | 2023-08-23 | | 公開日 | 2024-01-24 | | 実験手法 | ELECTRON MICROSCOPY (3.1 Å) | | 主引用文献 | Overcoming resolution attenuation during tilted cryo-EM data collection.
Nat Commun, 15, 2024
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4NCO
 | | Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with the Broadly Neutralizing Fab PGT122 | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, BG505 SOSIP gp120, BG505 SOSIP gp41, ... | | 著者 | Julien, J.-P, Stanfield, R.L, Lyumkis, D, Ward, A.B, Wilson, I.A. | | 登録日 | 2013-10-24 | | 公開日 | 2013-11-13 | | 最終更新日 | 2023-09-20 | | 実験手法 | X-RAY DIFFRACTION (4.7 Å) | | 主引用文献 | Crystal structure of a soluble cleaved HIV-1 envelope trimer.
Science, 342, 2013
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7SS5
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6ME0
 | | Structure of a group II intron retroelement prior to DNA integration | | 分子名称: | MAGNESIUM ION, Maturase reverse transcriptase, SODIUM ION, ... | | 著者 | Haack, D, Yan, X, Zhang, C, Hingey, J, Lyumkis, D, Baker, T.S, Toor, N. | | 登録日 | 2018-09-05 | | 公開日 | 2019-08-14 | | 最終更新日 | 2024-03-13 | | 実験手法 | ELECTRON MICROSCOPY (3.6 Å) | | 主引用文献 | Cryo-EM Structures of a Group II Intron Reverse Splicing into DNA.
Cell, 178, 2019
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6MEC
 | | Structure of a group II intron retroelement after DNA integration | | 分子名称: | MAGNESIUM ION, Maturase reverse transcriptase, SODIUM ION, ... | | 著者 | Haack, D, Yan, X, Zhang, C, Hingey, J, Lyumkis, D, Baker, T.S, Toor, N. | | 登録日 | 2018-09-06 | | 公開日 | 2019-08-14 | | 最終更新日 | 2024-03-13 | | 実験手法 | ELECTRON MICROSCOPY (3.6 Å) | | 主引用文献 | Cryo-EM Structures of a Group II Intron Reverse Splicing into DNA.
Cell, 178, 2019
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7USF
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7UT1
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5EBZ
 | | Crystal structure of human IKK1 | | 分子名称: | 2,3-di-O-sulfo-alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose-(1-6)-2,4-di-O-sulfo-alpha-D-glucopyranose, 2-azanyl-5-phenyl-3-(4-sulfamoylphenyl)benzamide, Inhibitor of nuclear factor kappa-B kinase subunit alpha, ... | | 著者 | Polley, S, Passos, D, Huang, D, Biswas, T, Verma, I, Lyumkis, D, Ghosh, G. | | 登録日 | 2015-10-20 | | 公開日 | 2016-11-02 | | 最終更新日 | 2024-03-06 | | 実験手法 | X-RAY DIFFRACTION (4.5 Å) | | 主引用文献 | Structural Basis for the Activation of IKK1/ alpha.
Cell Rep, 17, 2016
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7U32
 | | MVV cleaved synaptic complex (CSC) intasome at 3.4 A resolution | | 分子名称: | CALCIUM ION, DNA EV272, DNA EV273, ... | | 著者 | Shan, Z, Pye, V.E, Cherepanov, P, Lyumkis, D. | | 登録日 | 2022-02-25 | | 公開日 | 2022-05-11 | | 最終更新日 | 2024-02-21 | | 実験手法 | ELECTRON MICROSCOPY (3.46 Å) | | 主引用文献 | Multivalent interactions essential for lentiviral integrase function.
Nat Commun, 13, 2022
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