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1D8K
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BU of 1d8k by Molmil
SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA
Descriptor: GENERAL TRANSCRIPTION FACTOR TFIIE-BETA
Authors:Okuda, M, Watanabe, Y, Okamura, H, Hanaoka, F, Ohkuma, Y, Nishimura, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1999-10-25
Release date:2000-04-26
Last modified:2022-02-16
Method:SOLUTION NMR
Cite:Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
1D8J
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BU of 1d8j by Molmil
SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA
Descriptor: GENERAL TRANSCRIPTION FACTOR TFIIE-BETA
Authors:Okuda, M, Watanabe, Y, Okamura, H, Hanaoka, F, Ohkuma, Y, Nishimura, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1999-10-25
Release date:2000-04-26
Last modified:2022-02-16
Method:SOLUTION NMR
Cite:Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
2DY8
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BU of 2dy8 by Molmil
Solution structure of the second chromodomain of yeast Chd1
Descriptor: Chromo domain protein 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2006-09-07
Release date:2006-11-28
Last modified:2022-03-09
Method:SOLUTION NMR
Cite:Structural Polymorphism of Chromodomains in Chd1
J.Mol.Biol., 365, 2007
2DY7
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BU of 2dy7 by Molmil
Solution structure of the first chromodomain of yeast Chd1
Descriptor: Chromo domain protein 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2006-09-07
Release date:2006-11-28
Last modified:2022-03-09
Method:SOLUTION NMR
Cite:Structural Polymorphism of Chromodomains in Chd1
J.Mol.Biol., 365, 2007
7BUL
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BU of 7bul by Molmil
Solution structure of the tandem PH and BSD1 domains of TFIIH p62
Descriptor: General transcription factor IIH subunit 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2020-04-07
Release date:2020-12-30
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:Structural and dynamical insights into the PH domain of p62 in human TFIIH.
Nucleic Acids Res., 49, 2021
5GOW
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BU of 5gow by Molmil
Solution structure of the complex between DP1 acidic region and TFIIH p62 PH domain
Descriptor: DP1, General transcription factor IIH subunit 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2016-07-29
Release date:2016-12-07
Last modified:2016-12-14
Method:SOLUTION NMR
Cite:The Interaction Mode of the Acidic Region of the Cell Cycle Transcription Factor DP1 with TFIIH
J. Mol. Biol., 428, 2016
8I53
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BU of 8i53 by Molmil
Solution structure of the PH domain from the Tfb1 subunit of fission yeast TFIIH
Descriptor: General transcription and DNA repair factor IIH subunit tfb1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2023-01-23
Release date:2023-11-01
Method:SOLUTION NMR
Cite:Structural polymorphism of the PH domain in TFIIH.
Biosci.Rep., 43, 2023
6K5W
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BU of 6k5w by Molmil
Solution structure of the chromodomain of yeast Eaf3
Descriptor: Chromatin modification-related protein EAF3
Authors:Okuda, M, Nishimura, Y.
Deposit date:2019-05-31
Release date:2020-02-26
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:The Eaf3 chromodomain acts as a pH sensor for gene expression by altering its binding affinity for histone methylated-lysine residues.
Biosci.Rep., 40, 2020
2RNQ
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BU of 2rnq by Molmil
Solution structure of the C-terminal acidic domain of TFIIE alpha
Descriptor: Transcription initiation factor IIE subunit alpha
Authors:Okuda, M, Nishimura, Y.
Deposit date:2008-01-31
Release date:2008-04-01
Last modified:2022-03-16
Method:SOLUTION NMR
Cite:Structural insight into the TFIIE-TFIIH interaction: TFIIE and p53 share the binding region on TFIIH
Embo J., 27, 2008
2RNR
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BU of 2rnr by Molmil
Solution structure of the complex between TFIIE alpha C-terminal acidic domain and TFIIH p62 PH domain
Descriptor: TFIIH basal transcription factor complex p62 subunit, Transcription initiation factor IIE subunit alpha
Authors:Okuda, M, Nishimura, Y.
Deposit date:2008-01-31
Release date:2008-04-01
Last modified:2022-03-16
Method:SOLUTION NMR
Cite:Structural insight into the TFIIE-TFIIH interaction: TFIIE and p53 share the binding region on TFIIH
Embo J., 27, 2008
5XV8
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BU of 5xv8 by Molmil
Solution structure of the complex between UVSSA acidic region and TFIIH p62 PH domain
Descriptor: General transcription factor IIH subunit 1, UV-stimulated scaffold protein A
Authors:Okuda, M, Nishimura, Y.
Deposit date:2017-06-27
Release date:2017-11-08
Last modified:2017-12-27
Method:SOLUTION NMR
Cite:Common TFIIH recruitment mechanism in global genome and transcription-coupled repair subpathways
Nucleic Acids Res., 45, 2017
1VD4
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BU of 1vd4 by Molmil
Solution structure of the zinc finger domain of TFIIE alpha
Descriptor: Transcription initiation factor IIE, alpha subunit, ZINC ION
Authors:Okuda, M, Tanaka, A, Arai, Y, Satoh, M, Okamura, H, Nagadoi, A, Hanaoka, F, Ohkuma, Y, Nishimura, Y.
Deposit date:2004-03-18
Release date:2004-10-05
Last modified:2023-12-27
Method:SOLUTION NMR
Cite:A novel zinc finger structure in the large subunit of human general transcription factor TFIIE.
J.Biol.Chem., 279, 2004
2RVB
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BU of 2rvb by Molmil
Solution structure of the complex between XPC acidic domain and TFIIH p62 PH domain
Descriptor: DNA repair protein complementing XP-C cells, General transcription factor IIH subunit 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2015-07-01
Release date:2015-09-09
Last modified:2017-06-07
Method:SOLUTION NMR
Cite:Structural Insight into the Mechanism of TFIIH Recognition by the Acidic String of the Nucleotide Excision Repair Factor XPC.
Structure, 23, 2015
7DTI
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BU of 7dti by Molmil
Solution structure of the complex between RNA polymerase subunit RPB6 and TFIIH p62 PH domain
Descriptor: DNA-directed RNA polymerases I, II, and III subunit RPABC2, ...
Authors:Okuda, M, Nishimura, Y.
Deposit date:2021-01-05
Release date:2022-08-10
Method:SOLUTION NMR
Cite:Three human RNA polymerases interact with TFIIH via a common RPB6 subunit.
Nucleic Acids Res., 50, 2022
7DTH
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BU of 7dth by Molmil
Solution structure of RPB6, common subunit of RNA polymerases I, II, and III
Descriptor: DNA-directed RNA polymerases I, II, and III subunit RPABC2
Authors:Okuda, M, Nishimura, Y.
Deposit date:2021-01-05
Release date:2022-01-19
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:Three human RNA polymerases interact with TFIIH via a common RPB6 subunit.
Nucleic Acids Res., 50, 2022
2RUK
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BU of 2ruk by Molmil
Solution structure of the complex between p53 transactivation domain 2 and TFIIH p62 PH domain
Descriptor: Cellular tumor antigen p53, General transcription factor IIH subunit 1
Authors:Okuda, M, Nishimura, Y.
Deposit date:2014-09-24
Release date:2014-10-15
Last modified:2022-08-24
Method:SOLUTION NMR
Cite:Extended string binding mode of the phosphorylated transactivation domain of tumor suppressor p53.
J.Am.Chem.Soc., 136, 2014
3AJV
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BU of 3ajv by Molmil
Splicing endonuclease from Aeropyrum pernix
Descriptor: CHLORIDE ION, GLYCEROL, Putative uncharacterized protein, ...
Authors:Yoshinari, S, Watanabe, Y, Okuda, M, Shiba, T, Inaoka, K.D, Kurisu, G.
Deposit date:2010-06-19
Release date:2010-11-17
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:A Conserved Lysine Residue in the Crenarchaea-Specific Loop is Important for the Crenarchaeal Splicing Endonuclease Activity.
J.Mol.Biol., 405, 2011
6SEV
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BU of 6sev by Molmil
Structure of Dps from Listeria innocua soaked with 10 mM zinc for 120 minutes
Descriptor: DNA starvation/stationary phase protection protein, ZINC ION
Authors:Zeth, K, Okuda, M.
Deposit date:2019-07-30
Release date:2019-09-25
Last modified:2019-10-23
Method:X-RAY DIFFRACTION (2 Å)
Cite:Metal Positions and Translocation Pathways of the Dodecameric Ferritin-like Protein Dps.
Inorg.Chem., 58, 2019
2RO0
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BU of 2ro0 by Molmil
Solution structure of the knotted tudor domain of the yeast histone acetyltransferase, Esa1
Descriptor: Histone acetyltransferase ESA1
Authors:Shimojo, H, Sano, N, Moriwaki, Y, Okuda, M, Horikoshi, M, Nishimura, Y.
Deposit date:2008-03-01
Release date:2008-04-29
Last modified:2022-03-16
Method:SOLUTION NMR
Cite:Novel structural and functional mode of a knot essential for RNA binding activity of the Esa1 presumed chromodomain
J.Mol.Biol., 378, 2008
2RNZ
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BU of 2rnz by Molmil
Solution structure of the presumed chromodomain of the yeast histone acetyltransferase, Esa1
Descriptor: Histone acetyltransferase ESA1
Authors:Shimojo, H, Sano, N, Moriwaki, Y, Okuda, M, Horikoshi, M, Nishimura, Y.
Deposit date:2008-03-01
Release date:2008-04-29
Last modified:2022-03-16
Method:SOLUTION NMR
Cite:Novel structural and functional mode of a knot essential for RNA binding activity of the Esa1 presumed chromodomain
J.Mol.Biol., 378, 2008
6HX2
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BU of 6hx2 by Molmil
The structure of Dps from Listeria innocua soaked with Cobalt
Descriptor: COBALT (II) ION, DNA protection during starvation protein
Authors:Zeth, K, Okuda, M.
Deposit date:2018-10-15
Release date:2019-09-04
Last modified:2019-11-20
Method:X-RAY DIFFRACTION (1.597 Å)
Cite:Metal Positions and Translocation Pathways of the Dodecameric Ferritin-like Protein Dps.
Inorg.Chem., 58, 2019
6HUI
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BU of 6hui by Molmil
The structure of Dps from Listeria innocua soaked with zinc
Descriptor: DNA protection during starvation protein, ZINC ION
Authors:Zeth, K, Okuda, M.
Deposit date:2018-10-08
Release date:2019-09-04
Last modified:2019-09-11
Method:X-RAY DIFFRACTION (2.995 Å)
Cite:Metal Positions and Translocation Pathways of the Dodecameric Ferritin-like Protein Dps.
Inorg.Chem., 58, 2019
6HV1
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BU of 6hv1 by Molmil
The apo structure of Dps from Listeria innocua before soaking experiments with Zn, Co and La
Descriptor: DNA protection during starvation protein
Authors:Zeth, K, Okuda, M.
Deposit date:2018-10-10
Release date:2018-11-14
Last modified:2020-12-16
Method:X-RAY DIFFRACTION (2.547 Å)
Cite:Metal Positions and Translocation Pathways of the Dodecameric Ferritin-like Protein Dps.
Inorg.Chem., 58, 2019
6HVQ
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BU of 6hvq by Molmil
The structure of Dps from Listeria innocua soaked before soaking experiments with Zn, Co and La
Descriptor: DNA protection during starvation protein, LANTHANUM (III) ION
Authors:Zeth, K, Okuda, M.
Deposit date:2018-10-11
Release date:2019-09-04
Last modified:2019-09-11
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Metal Positions and Translocation Pathways of the Dodecameric Ferritin-like Protein Dps.
Inorg.Chem., 58, 2019
8W85
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BU of 8w85 by Molmil
HLA-DQ2.5-gamma2 gliadin peptide in complex with DQN0385AE01
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, DQN0385AE01 Fab heavy chain, DQN0385AE01 Fab light chain, ...
Authors:Irie, M, Tsushima, T, Teranishi-Ikawa, Y, Takahashi, N, Ishii, S, Okura, Y, Fukami, T.A, Torizawa, T.
Deposit date:2023-08-31
Release date:2023-11-08
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (2.769 Å)
Cite:Characterizations of a neutralizing antibody broadly reactive to multiple gluten peptide:HLA-DQ2.5 complexes in the context of celiac disease
Nat Commun, 14, 2023

 

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