1AN4
 
 | | STRUCTURE AND FUNCTION OF THE B/HLH/Z DOMAIN OF USF | | Descriptor: | DNA (5'-D(*CP*AP*CP*CP*CP*GP*GP*TP*CP*AP*CP*GP*TP*GP*GP*CP*C P*TP*AP*CP*A)-3'), DNA (5'-D(*GP*TP*GP*TP*AP*GP*GP*CP*CP*AP*CP*GP*TP*GP*AP*CP*C P*GP*GP*GP*T)-3'), PROTEIN (UPSTREAM STIMULATORY FACTOR) | | Authors: | Ferre-D'Amare, A.R, Pognonec, P, Roeder, R.G, Burley, S.K. | | Deposit date: | 1997-03-15 | | Release date: | 1997-09-17 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structure and function of the b/HLH/Z domain of USF.
EMBO J., 13, 1994
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1AN2
 | | RECOGNITION BY MAX OF ITS COGNATE DNA THROUGH A DIMERIC B/HLH/Z DOMAIN | | Descriptor: | DNA (5'-D(*GP*TP*GP*TP*AP*GP*GP*TP*CP*AP*CP*GP*TP*GP*AP*CP*C P*TP*AP*CP*AP*C)- 3'), PROTEIN (TRANSCRIPTION FACTOR MAX (TF MAX)) | | Authors: | Ferre-D'Amare, A.R, Prendergast, G.C, Ziff, E.B, Burley, S.K. | | Deposit date: | 1996-09-06 | | Release date: | 1997-09-17 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Recognition by Max of its cognate DNA through a dimeric b/HLH/Z domain.
Nature, 363, 1993
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1DRZ
 | | U1A SPLICEOSOMAL PROTEIN/HEPATITIS DELTA VIRUS GENOMIC RIBOZYME COMPLEX | | Descriptor: | MAGNESIUM ION, PROTEIN (U1 SMALL RIBONUCLEOPROTEIN A), RNA (HEPATITIS DELTA VIRUS GENOMIC RIBOZYME), ... | | Authors: | Ferre-D'Amare, A.R, Zhou, K, Doudna, J.A. | | Deposit date: | 1998-09-01 | | Release date: | 1999-02-16 | | Last modified: | 2021-11-03 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal structure of a hepatitis delta virus ribozyme.
Nature, 395, 1998
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6PQ7
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3CUN
 | | Aminoacyl-tRNA synthetase ribozyme | | Descriptor: | COBALT (II) ION, MAGNESIUM ION, POTASSIUM ION, ... | | Authors: | Xiao, H, Murakami, H, Suga, H, Ferre-D'Amare, A.R. | | Deposit date: | 2008-04-16 | | Release date: | 2008-06-24 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structural basis of specific tRNA aminoacylation by a small in vitro selected ribozyme.
Nature, 454, 2008
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4W90
 | | Crystal structure of Bacillus subtilis cyclic-di-AMP riboswitch ydaO | | Descriptor: | (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, U1 small nuclear ribonucleoprotein A, ... | | Authors: | Jones, C.P, Ferre-D'Amare, A.R. | | Deposit date: | 2014-08-26 | | Release date: | 2014-10-15 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (3.118 Å) | | Cite: | Crystal structure of a c-di-AMP riboswitch reveals an internally pseudo-dimeric RNA.
Embo J., 33, 2014
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4W92
 | | Crystal structure of Bacillus subtilis cyclic-di-AMP riboswitch ydaO | | Descriptor: | (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, 1,2-ETHANEDIOL, C-di-AMP ribsoswitch, ... | | Authors: | Jones, C.P, Ferre-D'Amare, A.R. | | Deposit date: | 2014-08-26 | | Release date: | 2014-10-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (3.209 Å) | | Cite: | Crystal structure of a c-di-AMP riboswitch reveals an internally pseudo-dimeric RNA.
Embo J., 33, 2014
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6CC1
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3V7E
 | | Crystal structure of YbxF bound to the SAM-I riboswitch aptamer | | Descriptor: | COBALT HEXAMMINE(III), MAGNESIUM ION, Ribosome-associated protein L7Ae-like, ... | | Authors: | Baird, N.J, Zhang, J, Hamma, T, Ferre-D'Amare, A.R. | | Deposit date: | 2011-12-21 | | Release date: | 2012-03-07 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops.
Rna, 18, 2012
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7SXP
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3V7Q
 | | Crystal structure of B. subtilis YlxQ at 1.55 A resolution | | Descriptor: | CITRIC ACID, POTASSIUM ION, Probable ribosomal protein ylxQ | | Authors: | Baird, N.J, Zhang, J, Hamma, T, Ferre-D'Amare, A.R. | | Deposit date: | 2011-12-21 | | Release date: | 2012-03-07 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (1.55 Å) | | Cite: | YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops.
Rna, 18, 2012
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1SB7
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6WZS
 | | Fusibacterium ulcerans ZTP riboswitch bound to m-1-pyridinyl AICA | | Descriptor: | 5-amino-1-(pyridin-3-yl)-1H-imidazole-4-carboxamide, Fusibacterium ulcerans ZTP riboswitch, MAGNESIUM ION, ... | | Authors: | Pichling, P, Jones, C.P, Ferre-D'Amare, A.R, Tran, B. | | Deposit date: | 2020-05-14 | | Release date: | 2021-03-24 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (3.23 Å) | | Cite: | Parallel Discovery Strategies Provide a Basis for Riboswitch Ligand Design.
Cell Chem Biol, 27, 2020
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6WZR
 | | Fusibacterium ulcerans ZTP riboswitch bound to p-1-pyridinyl AICA | | Descriptor: | 5-amino-1-(pyridin-4-yl)-1H-imidazole-4-carboxamide, Fusibacterium ulcerans ZTP riboswitch, MAGNESIUM ION, ... | | Authors: | Pichling, P, Jones, C.P, Ferre-D'Amare, A.R, Tran, B. | | Deposit date: | 2020-05-14 | | Release date: | 2021-03-24 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Parallel Discovery Strategies Provide a Basis for Riboswitch Ligand Design.
Cell Chem Biol, 27, 2020
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1NU4
 | | U1A RNA binding domain at 1.8 angstrom resolution reveals a pre-organized C-terminal helix | | Descriptor: | MAGNESIUM ION, MALONIC ACID, U1A RNA binding domain | | Authors: | Rupert, P.B, Xiao, H, Ferre-D'Amare, A.R. | | Deposit date: | 2003-01-30 | | Release date: | 2003-02-14 | | Last modified: | 2023-08-16 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | U1A RNA-binding domain at 1.8 A resolution.
Acta Crystallogr.,Sect.D, 59, 2003
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3K1V
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3K0J
 | | Crystal structure of the E. coli ThiM riboswitch in complex with thiamine pyrophosphate and the U1A crystallization module | | Descriptor: | MAGNESIUM ION, RNA (87-MER), THIAMINE DIPHOSPHATE, ... | | Authors: | Kulshina, N, Edwards, T.E, Ferre-D'Amare, A.R. | | Deposit date: | 2009-09-24 | | Release date: | 2009-12-22 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (3.1 Å) | | Cite: | Thermodynamic analysis of ligand binding and ligand binding-induced tertiary structure formation by the thiamine pyrophosphate riboswitch.
Rna, 16, 2010
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3IWN
 | | Co-crystal structure of a bacterial c-di-GMP riboswitch | | Descriptor: | 9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one), C-di-GMP riboswitch, U1 small nuclear ribonucleoprotein A | | Authors: | Kulshina, N, Baird, N.J, Ferre-D'Amare, A.R. | | Deposit date: | 2009-09-02 | | Release date: | 2009-11-10 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Recognition of the bacterial second messenger cyclic diguanylate by its cognate riboswitch.
Nat.Struct.Mol.Biol., 16, 2009
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3EGZ
 | | Crystal structure of an in vitro evolved tetracycline aptamer and artificial riboswitch | | Descriptor: | 7-CHLOROTETRACYCLINE, MAGNESIUM ION, Tetracycline aptamer and artificial riboswitch, ... | | Authors: | Xiao, H, Edwards, T.E, Ferre-D'Amare, A.R. | | Deposit date: | 2008-09-11 | | Release date: | 2008-10-28 | | Last modified: | 2021-10-20 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Structural basis for specific, high-affinity tetracycline binding by an in vitro evolved aptamer and artificial riboswitch
Chem.Biol., 15, 2008
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3FS0
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3FTM
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3FU2
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2GCS
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2GCV
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2H0X
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