5VO8
| X-ray crystal structure of a bacterial reiterative transcription complex of pyrG promoter | Descriptor: | DNA (5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*CP*TP*GP*AP*TP*GP*CP*AP*CP*C)-3'), DNA (5'-D(P*GP*GP*TP*GP*CP*AP*TP*CP*AP*GP*AP*GP*CP*CP*CP*AP*AP*AP*A)-3'), DNA-directed RNA polymerase subunit alpha, ... | Authors: | Murakami, K.S, Shin, Y, Turnbough Jr, C.L, Molodtsov, V. | Deposit date: | 2017-05-02 | Release date: | 2017-05-24 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | X-ray crystal structure of a reiterative transcription complex reveals an atypical RNA extension pathway. Proc. Natl. Acad. Sci. U.S.A., 114, 2017
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1L9Z
| Thermus aquaticus RNA Polymerase Holoenzyme/Fork-Junction Promoter DNA Complex at 6.5 A Resolution | Descriptor: | MAGNESIUM ION, RNA POLYMERASE, ALPHA SUBUNIT, ... | Authors: | Murakami, K.S, Masuda, S, Campbell, E.A, Muzzin, O, Darst, S.A. | Deposit date: | 2002-03-27 | Release date: | 2002-05-31 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (6.5 Å) | Cite: | Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complex. Science, 296, 2002
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5D1P
| Archaeal ATP-dependent RNA ligase - form 2 | Descriptor: | ATP-dependent RNA ligase, MAGNESIUM ION, SULFATE ION | Authors: | Murakami, K.S. | Deposit date: | 2015-08-04 | Release date: | 2016-03-09 | Last modified: | 2016-03-30 | Method: | X-RAY DIFFRACTION (2.199 Å) | Cite: | Structural and mutational analysis of archaeal ATP-dependent RNA ligase identifies amino acids required for RNA binding and catalysis. Nucleic Acids Res., 44, 2016
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4FF2
| N4 mini-vRNAP transcription initiation complex, 2 min after soaking GTP, ATP and Mn | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Bacteriophage N4 P2 promoter, GUANOSINE-5'-MONOPHOSPHATE, ... | Authors: | Murakami, K.S, Basu, R.S. | Deposit date: | 2012-05-30 | Release date: | 2012-12-12 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Watching the Bacteriophage N4 RNA Polymerase Transcription by Time-dependent Soak-trigger-freeze X-ray Crystallography. J.Biol.Chem., 288, 2013
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1VDJ
| Solution structure of actin-binding domain of troponin in Ca2+-bound state | Descriptor: | Troponin I, fast skeletal muscle | Authors: | Murakami, K, Yumoto, F, Ohki, S, Yasunaga, T, Tanokura, M, Wakabayashi, T. | Deposit date: | 2004-03-22 | Release date: | 2005-09-06 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Structural Basis for Ca(2+)-regulated Muscle Relaxation at Interaction Sites of Troponin with Actin and Tropomyosin J.Mol.Biol., 352, 2005
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1VDI
| Solution structure of actin-binding domain of troponin in Ca2+-free state | Descriptor: | Troponin I, fast skeletal muscle | Authors: | Murakami, K, Yumoto, F, Ohki, S, Yasunaga, T, Tanokura, M, Wakabayashi, T. | Deposit date: | 2004-03-22 | Release date: | 2005-09-06 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Structural Basis for Ca(2+)-regulated Muscle Relaxation at Interaction Sites of Troponin with Actin and Tropomyosin J.Mol.Biol., 352, 2005
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3HKZ
| The X-ray crystal structure of RNA polymerase from Archaea | Descriptor: | DNA-directed RNA polymerase subunit 13, DNA-directed RNA polymerase subunit A', DNA-directed RNA polymerase subunit A'', ... | Authors: | Murakami, K.S. | Deposit date: | 2009-05-26 | Release date: | 2009-06-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | The X-ray crystal structure of RNA polymerase from Archaea. Nature, 451, 2008
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8EMB
| X-ray crystal structure of Thermosynechococcus elongatus Si3 domain of RNA polymerase RpoC2 subunit | Descriptor: | DNA-directed RNA polymerase subunit beta' | Authors: | Murakami, K.S, Imashimizu, M, Qayyum, M.Z, Vishwakarma, R.K, Yuzenkova, Y. | Deposit date: | 2022-09-27 | Release date: | 2022-11-09 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (3.06 Å) | Cite: | Structure and function of the Si3 insertion integrated into the trigger loop/helix of cyanobacterial RNA polymerase. Proc.Natl.Acad.Sci.USA, 121, 2024
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4YG2
| X-ray crystal structur of Escherichia coli RNA polymerase sigma70 holoenzyme | Descriptor: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | Authors: | Murakami, K.S. | Deposit date: | 2015-02-25 | Release date: | 2015-03-18 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3.7 Å) | Cite: | X-ray crystal structure of Escherichia coli RNA polymerase sigma70 holoenzyme J. Biol. Chem., 288, 2013
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5FMF
| the P-lobe of RNA polymerase II pre-initiation complex | Descriptor: | DNA REPAIR HELICASE RAD25, SSL2, DNA REPAIR HELICASE RAD3, ... | Authors: | Murakami, K, Tsai, K, Kalisman, N, Bushnell, D.A, Asturias, F.J, Kornberg, R.D. | Deposit date: | 2015-11-03 | Release date: | 2015-11-25 | Last modified: | 2017-07-12 | Method: | ELECTRON MICROSCOPY (6 Å) | Cite: | Structure of an RNA Polymerase II Pre-Initiation Complex Proc.Natl.Acad.Sci.USA, 112, 2015
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2PMZ
| Archaeal RNA polymerase from Sulfolobus solfataricus | Descriptor: | DNA-directed RNA polymerase subunit A, DNA-directed RNA polymerase subunit A", DNA-directed RNA polymerase subunit B, ... | Authors: | Murakami, K.S. | Deposit date: | 2007-04-23 | Release date: | 2008-02-12 | Last modified: | 2017-10-18 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | The X-ray crystal structure of RNA polymerase from Archaea Nature, 451, 2008
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2PO4
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4FF3
| N4 mini-vRNAP transcription initiation complex, 3 min after soaking GTP, ATP and Mn | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Bacteriophage N4 P2 promoter, GUANOSINE-5'-MONOPHOSPHATE, ... | Authors: | Murakami, K.S, Basu, R.S. | Deposit date: | 2012-05-30 | Release date: | 2012-12-12 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.997 Å) | Cite: | Watching the Bacteriophage N4 RNA Polymerase Transcription by Time-dependent Soak-trigger-freeze X-ray Crystallography. J.Biol.Chem., 288, 2013
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4FF4
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6BYU
| X-ray crystal structure of Escherichia coli RNA polymerase (RpoB-H526Y) and ppApp complex | Descriptor: | (5R)-5-(6-amino-9H-purin-9-yl)-2-({[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}methyl)-4-oxo-4,5-dihydrofuran-3-yl trihydrogen diphosphate, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | Authors: | Murakami, K.S, Molodtsov, V. | Deposit date: | 2017-12-21 | Release date: | 2018-01-17 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (3.6 Å) | Cite: | Structure-function comparisons of (p)ppApp vs (p)ppGpp for Escherichia coli RNA polymerase binding sites and for rrnB P1 promoter regulatory responses in vitro. Biochim. Biophys. Acta, 1861, 2018
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6PLN
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4FF1
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5D1O
| Archaeal ATP-dependent RNA ligase - form 1 | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, ATP-dependent RNA ligase, MAGNESIUM ION, ... | Authors: | Murakami, K.S. | Deposit date: | 2015-08-04 | Release date: | 2016-03-09 | Last modified: | 2019-12-25 | Method: | X-RAY DIFFRACTION (2.648 Å) | Cite: | Structural and mutational analysis of archaeal ATP-dependent RNA ligase identifies amino acids required for RNA binding and catalysis. Nucleic Acids Res., 44, 2016
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1L9U
| THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION | Descriptor: | MAGNESIUM ION, RNA POLYMERASE, ALPHA SUBUNIT, ... | Authors: | Murakami, K.S, Masuda, S, Darst, S.A. | Deposit date: | 2002-03-26 | Release date: | 2002-05-22 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (4 Å) | Cite: | Structural basis of transcription initiation: RNA polymerase holoenzyme at 4 A resolution. Science, 296, 2002
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6XJF
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5WID
| Structure of a flavodoxin from the domain Archaea | Descriptor: | (4R)-2-METHYLPENTANE-2,4-DIOL, ACETATE ION, FLAVIN MONONUCLEOTIDE, ... | Authors: | Murakami, K.S, Ferry, J.G. | Deposit date: | 2017-07-19 | Release date: | 2018-08-08 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (1.681 Å) | Cite: | Structure and function of an unusual flavodoxin from the domainArchaea. Proc.Natl.Acad.Sci.USA, 116, 2019
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5VSW
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5W1S
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5W1T
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5XDR
| Crystal structure of human DEAH-box RNA helicase DHX15 in complex with ADP | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15, ... | Authors: | Murakami, K, Nakano, K, Shimizu, T, Ohto, U. | Deposit date: | 2017-03-29 | Release date: | 2017-06-21 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | The crystal structure of human DEAH-box RNA helicase 15 reveals a domain organization of the mammalian DEAH/RHA family Acta Crystallogr F Struct Biol Commun, 73, 2017
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